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<h3>
Diane Trout pushed to branch upstream
at <a href="https://salsa.debian.org/med-team/pybigwig">Debian Med / pybigwig</a>
</h3>
<h4>
Commits:
</h4>
<ul>
<li>
<strong><a href="https://salsa.debian.org/med-team/pybigwig/commit/7a3cc3ffe926943e0b3385270e067db9ef3f3967">7a3cc3ff</a></strong>
<div>
<span>by Diane Trout</span>
<i>at 2018-07-03T14:48:55-07:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">New upstream version 0.3.11</pre>
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</ul>
<h4>17 changed files:</h4>
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<li class="file-stats">
<a href="#7d26833a43d8865f6d9679068f6f9ee7d6e13dcf">
PKG-INFO
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<li class="file-stats">
<a href="#8ec9a00bfd09b3190ac6b22251dbb1aa95a0579d">
README.md
</a>
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<li class="file-stats">
<a href="#388c75fd864129d82799c3b6d83932f387ff1497">
libBigWig/README.md
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<li class="file-stats">
<a href="#b85a8b026245fccad1fd1525616eeffcbe230970">
libBigWig/bigWig.h
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<li class="file-stats">
<a href="#f44e6db941ed335a31ed9d952d65cc704e73b4d5">
libBigWig/io.h
→
libBigWig/bigWigIO.h
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<li class="file-stats">
<a href="#ed9e6518d0e742e7387957269598f71baee57995">
libBigWig/bwRead.c
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<li class="file-stats">
<a href="#3c0afdf2c392f701b9a7eec716c860fc3a14566a">
libBigWig/bwStats.c
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<li class="file-stats">
<a href="#1d0056378b29bb44b67ff475272d0f77b9d2030f">
libBigWig/bwValues.c
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<li class="file-stats">
<a href="#81e35049bd3485b58bc19aed87d3e8bf29bbf3bb">
libBigWig/bwWrite.c
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<li class="file-stats">
<a href="#a9614933885d04af65df2d11cde4031a249ca479">
libBigWig/io.c
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<li class="file-stats">
<a href="#ae58b3ba4c54b6fadb279decb1690b71b8be4857">
pyBigWig.c
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<li class="file-stats">
<a href="#b41ee24ca452384204db3e3895e4ba6868fa4a68">
pyBigWig.egg-info/SOURCES.txt
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<li class="file-stats">
<a href="#a53acb6d60ac6a063886d0a7a1dd8f7184e6f980">
pyBigWig.h
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<li class="file-stats">
<a href="#73b81628498d6d64ce302085f4044b79ff36741d">
<span class="new-file">
+
pyBigWigTest/test.bigBed
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<li class="file-stats">
<a href="#f5d848e7beeea87ec3202f19ebf1bce809c843bd">
pyBigWigTest/test.py
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<li class="file-stats">
<a href="#8c91c0296909b5ea3c496fde69e9dc44a6c6ae5f">
setup.cfg
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<li class="file-stats">
<a href="#8e2edce0d507e1297474f25c00cae94258db38d8">
setup.py
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<h4>Changes:</h4>
<li id="7d26833a43d8865f6d9679068f6f9ee7d6e13dcf">
<a href="https://salsa.debian.org/med-team/pybigwig/commit/7a3cc3ffe926943e0b3385270e067db9ef3f3967#7d26833a43d8865f6d9679068f6f9ee7d6e13dcf"><strong>PKG-INFO</strong></a>
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1
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<td class="line_content noteable_line" style="padding-left: 0.5em; padding-right: 0.5em;">
<pre style="margin: 0;"> <span id="LC1" class="line" lang="plaintext">Metadata-Version: 1.1</span>
</pre>
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<td class="line_content noteable_line" style="padding-left: 0.5em; padding-right: 0.5em;">
<pre style="margin: 0;"> <span id="LC2" class="line" lang="plaintext">Name: pyBigWig</span>
</pre>
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<td class="diff-line-num old old_line" data-linenumber="3" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<td class="diff-line-num new_line old" data-linenumber="3" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC3" class="line" lang="plaintext">Version: 0.3.<span class="idiff left right">2</span></span>
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3
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<pre style="margin: 0;">+<span id="LC3" class="line" lang="plaintext">Version: 0.3.<span class="idiff left right">11</span></span>
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<td class="line_content noteable_line" style="padding-left: 0.5em; padding-right: 0.5em;">
<pre style="margin: 0;"> <span id="LC4" class="line" lang="plaintext">Summary: A package for accessing bigWig files using libBigWig</span>
</pre>
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<td class="diff-line-num old_line" data-linenumber="5" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
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<td class="line_content noteable_line" style="padding-left: 0.5em; padding-right: 0.5em;">
<pre style="margin: 0;"> <span id="LC5" class="line" lang="plaintext">Home-page: https://github.com/dpryan79/pyBigWig</span>
</pre>
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<pre style="margin: 0;"> <span id="LC6" class="line" lang="plaintext">Author: Devon P. Ryan</span>
</pre>
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<td class="diff-line-num old_line" data-linenumber="7" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
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<td class="line_content noteable_line" style="padding-left: 0.5em; padding-right: 0.5em;">
<pre style="margin: 0;"> <span id="LC7" class="line" lang="plaintext">Author-email: ryan@ie-freiburg.mpg.de</span>
</pre>
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<td class="diff-line-num old_line" data-linenumber="8" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
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<pre style="margin: 0;"> <span id="LC8" class="line" lang="plaintext">License: UNKNOWN</span>
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<td class="diff-line-num old old_line" data-linenumber="9" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
9
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<pre style="margin: 0;">-<span id="LC9" class="line" lang="plaintext">Download-URL: https://github.com/dpryan79/pyBigWig/tarball/0.3.2</span>
</pre>
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9
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<pre style="margin: 0;">+<span id="LC9" class="line" lang="plaintext">Download-URL: https://github.com/dpryan79/pyBigWig/tarball/0.3.11</span>
</pre>
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<pre style="margin: 0;">+<span id="LC10" class="line" lang="plaintext">Description-Content-Type: UNKNOWN</span>
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10
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<td class="diff-line-num new_line" data-linenumber="11" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
11
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<td class="line_content noteable_line" style="padding-left: 0.5em; padding-right: 0.5em;">
<pre style="margin: 0;"> <span id="LC11" class="line" lang="plaintext">Description: UNKNOWN</span>
</pre>
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<td class="diff-line-num old_line" data-linenumber="11" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
11
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<td class="diff-line-num new_line" data-linenumber="12" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
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<pre style="margin: 0;"> <span id="LC12" class="line" lang="plaintext">Keywords: bioinformatics,bigWig,bigBed</span>
</pre>
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<td class="diff-line-num old_line" data-linenumber="12" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
12
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<td class="diff-line-num new_line" data-linenumber="13" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
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<pre style="margin: 0;"> <span id="LC13" class="line" lang="plaintext">Platform: UNKNOWN</span></pre>
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<li id="8ec9a00bfd09b3190ac6b22251dbb1aa95a0579d">
<a href="https://salsa.debian.org/med-team/pybigwig/commit/7a3cc3ffe926943e0b3385270e067db9ef3f3967#8ec9a00bfd09b3190ac6b22251dbb1aa95a0579d"><strong>README.md</strong></a>
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<pre style="margin: 0;">-<span id="LC1" class="line" lang="markdown"><span class="p">[</span><span class="nv" style="color: teal;">![PyPI version</span><span class="p">](</span><span class="sx" style="color: #d14;">https://badge.fury.io/py/pyBigWig.svg</span><span class="p">)</span>](https://badge.fury.io/py/pyBigWig) <span class="p">[</span><span class="nv" style="color: teal;">![Travis-CI status</span><span class="p">](</span><span class="sx" style="color: #d14;">https://travis-ci.org/d<span class="idiff left right">pryan79</span>/pyBigWig.svg?branch=master</span><span class="p">)</span>](https://travis-ci.org/dpryan79/pyBigWig.svg?branch=master) <span class="p">[</span><span class="nv" style="color: teal;">![bioconda-badge</span><span class="p">](</span><span class="sx" style="color: #d14;">https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg</span><span class="p">)</span>](http://bioconda.github.io) <span class="p">[</span><span class="nv" style="color: teal;">![DOI</span><span class="p">](</span><span class="sx" style="color: #d14;">https://zenodo.org/badge/doi/10.5281/zenodo.45238.svg</span><span class="p">)</span>](http://dx.doi.org/10.5281/zenodo.45238)</span>
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1
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="markdown"><span class="p">[</span><span class="nv" style="color: teal;">![PyPI version</span><span class="p">](</span><span class="sx" style="color: #d14;">https://badge.fury.io/py/pyBigWig.svg</span><span class="p">)</span>](https://badge.fury.io/py/pyBigWig) <span class="p">[</span><span class="nv" style="color: teal;">![Travis-CI status</span><span class="p">](</span><span class="sx" style="color: #d14;">https://travis-ci.org/d<span class="idiff left right">eeptools</span>/pyBigWig.svg?branch=master</span><span class="p">)</span>](https://travis-ci.org/dpryan79/pyBigWig.svg?branch=master) <span class="p">[</span><span class="nv" style="color: teal;">![bioconda-badge</span><span class="p">](</span><span class="sx" style="color: #d14;">https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg</span><span class="p">)</span>](http://bioconda.github.io) <span class="p">[</span><span class="nv" style="color: teal;">![DOI</span><span class="p">](</span><span class="sx" style="color: #d14;">https://zenodo.org/badge/doi/10.5281/zenodo.45238.svg</span><span class="p">)</span>](http://dx.doi.org/10.5281/zenodo.45238)</span>
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<pre style="margin: 0;"> <span id="LC2" class="line" lang="markdown"></span>
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<pre style="margin: 0;"> <span id="LC3" class="line" lang="markdown"><span class="gh" style="color: #999;"># pyBigWig</span></span>
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<pre style="margin: 0;">-<span id="LC4" class="line" lang="markdown">A python extension, written in C, for quick access to and creation of bigWig files. This extension uses <span class="p">[</span><span class="nv" style="color: teal;">libBigWig</span><span class="p">](</span><span class="sx" style="color: #d14;">https://github.com/dpryan79/libBigWig</span><span class="p">)</span> for local and remote file access.</span>
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<pre style="margin: 0;">+<span id="LC4" class="line" lang="markdown">A python extension, written in C, for quick access to <span class="idiff left right">bigBed files and access to </span>and creation of bigWig files. This extension uses <span class="p">[</span><span class="nv" style="color: teal;">libBigWig</span><span class="p">](</span><span class="sx" style="color: #d14;">https://github.com/dpryan79/libBigWig</span><span class="p">)</span> for local and remote file access.</span>
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<pre style="margin: 0;"> <span id="LC5" class="line" lang="markdown"></span>
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<pre style="margin: 0;"> <span id="LC6" class="line" lang="markdown"><span class="gu" style="color: #800080; font-weight: 600;">Table of Contents</span></span>
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<pre style="margin: 0;"> <span id="LC7" class="line" lang="markdown"><span class="gu" style="color: #800080; font-weight: 600;">=================</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="21" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="21" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -21,7 +21,9 @@ Table of Contents</td>
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<pre style="margin: 0;"> <span id="LC21" class="line" lang="markdown"><span class="p"> *</span> <span class="p">[</span><span class="nv" style="color: teal;">Add a header to a bigWig file</span><span class="p">](</span><span class="sx" style="color: #d14;">#add-a-header-to-a-bigwig-file</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC22" class="line" lang="markdown"><span class="p"> *</span> <span class="p">[</span><span class="nv" style="color: teal;">Adding entries to a bigWig file</span><span class="p">](</span><span class="sx" style="color: #d14;">#adding-entries-to-a-bigwig-file</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC23" class="line" lang="markdown"><span class="p"> *</span> <span class="p">[</span><span class="nv" style="color: teal;">Close a bigWig or bigBed file</span><span class="p">](</span><span class="sx" style="color: #d14;">#close-a-bigwig-or-bigbed-file</span><span class="p">)</span></span>
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<pre style="margin: 0;">-<span id="LC24" class="line" lang="markdown"><span class="p"> *</span> <span class="p">[</span><span class="nv" style="color: teal;">Numpy</span><span class="p">](</span><span class="sx" style="color: #d14;">#Numpy</span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC24" class="line" lang="markdown"><span class="p"> *</span> <span class="p">[</span><span class="nv" style="color: teal;">Numpy</span><span class="p">](</span><span class="sx" style="color: #d14;">#numpy</span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC25" class="line" lang="markdown"><span class="p"> *</span> <span class="p">[</span><span class="nv" style="color: teal;">Remote file access</span><span class="p">](</span><span class="sx" style="color: #d14;">#remote-file-access</span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC26" class="line" lang="markdown"><span class="p"> *</span> <span class="p">[</span><span class="nv" style="color: teal;">Empty files</span><span class="p">](</span><span class="sx" style="color: #d14;">#empty-files</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC27" class="line" lang="markdown"><span class="p"> *</span> <span class="p">[</span><span class="nv" style="color: teal;">A note on coordinates</span><span class="p">](</span><span class="sx" style="color: #d14;">#a-note-on-coordinates</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC28" class="line" lang="markdown"><span class="p"> *</span> <span class="p">[</span><span class="nv" style="color: teal;">Galaxy</span><span class="p">](</span><span class="sx" style="color: #d14;">#galaxy</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC29" class="line" lang="markdown"></span>
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<td class="diff-line-num unfold js-unfold new_line" data-linenumber="298" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -296,6 +298,16 @@ Additionally, `values()` can directly output a numpy vector:</td>
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<pre style="margin: 0;"> <span id="LC298" class="line" lang="markdown"><span class="sb" style="color: #d14;"> >>> type(bw.values('1', 0, 10, numpy=True))</span></span>
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<pre style="margin: 0;"> <span id="LC299" class="line" lang="markdown"><span class="sb" style="color: #d14;"> <type 'numpy.ndarray'></span></span>
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<pre style="margin: 0;"> <span id="LC300" class="line" lang="markdown"></span>
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<pre style="margin: 0;">+<span id="LC301" class="line" lang="markdown"><span class="gh" style="color: #999;"># Remote file access</span></span>
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<pre style="margin: 0;">+<span id="LC302" class="line" lang="markdown"></span>
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<pre style="margin: 0;">+<span id="LC303" class="line" lang="markdown">If you do not have curl installed, pyBigWig will be installed without the ability to access remote files. You can determine if you will be able to access remote files with <span class="sb" style="color: #d14;">`pyBigWig.remote`</span>. If that returns 1, then you can access remote files. If it returns 0 then you can't.</span>
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<pre style="margin: 0;">+<span id="LC304" class="line" lang="markdown"></span>
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<pre style="margin: 0;">+<span id="LC305" class="line" lang="markdown"><span class="gh" style="color: #999;"># Empty files</span></span>
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<pre style="margin: 0;">+<span id="LC306" class="line" lang="markdown"></span>
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<pre style="margin: 0;">+<span id="LC307" class="line" lang="markdown">As of version 0.3.5, pyBigWig is able to read and write bigWig files lacking entries. Please note that such files are generally not compatible with other programs, since there's no definition of how a bigWig file with no entries should look. For such a file, the <span class="sb" style="color: #d14;">`intervals()`</span> accessor will return <span class="sb" style="color: #d14;">`None`</span>, the <span class="sb" style="color: #d14;">`stats()`</span> function will return a list of <span class="sb" style="color: #d14;">`None`</span> of the desired length, and <span class="sb" style="color: #d14;">`values()`</span> will return <span class="sb" style="color: #d14;">`[]`</span> (an empty list). This should generally allow programs utilizing pyBigWig to continue without issue.</span>
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<pre style="margin: 0;">+<span id="LC308" class="line" lang="markdown"></span>
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<pre style="margin: 0;">+<span id="LC309" class="line" lang="markdown">For those wishing to mimic the functionality of pyBigWig/libBigWig in this regard, please note that it looks at the number of bases covered (as reported in the file header) to check for "empty" files.</span>
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<pre style="margin: 0;">+<span id="LC310" class="line" lang="markdown"></span>
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<pre style="margin: 0;"> <span id="LC311" class="line" lang="markdown"><span class="gh" style="color: #999;"># A note on coordinates</span></span>
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<pre style="margin: 0;"> <span id="LC312" class="line" lang="markdown"></span>
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<pre style="margin: 0;"> <span id="LC313" class="line" lang="markdown">Wiggle, bigWig, and bigBed files use 0-based half-open coordinates, which are also used by this extension. So to access the value for the first base on <span class="sb" style="color: #d14;">`chr1`</span>, one would specify the starting position as <span class="sb" style="color: #d14;">`0`</span> and the end position as <span class="sb" style="color: #d14;">`1`</span>. Similarly, bases 100 to 115 would have a start of <span class="sb" style="color: #d14;">`99`</span> and an end of <span class="sb" style="color: #d14;">`115`</span>. This is simply for the sake of consistency with the underlying bigWig file and may change in the future.</span>
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<a href="https://salsa.debian.org/med-team/pybigwig/commit/7a3cc3ffe926943e0b3385270e067db9ef3f3967#388c75fd864129d82799c3b6d83932f387ff1497"><strong>libBigWig/README.md</strong></a>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -27,7 +27,7 @@ The only functions and structures that end users need to care about are in "bigW</td>
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<pre style="margin: 0;"> <span id="LC27" class="line" lang="markdown"><span class="sb" style="color: #d14;"> //Open the local/remote file</span></span>
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<pre style="margin: 0;"> <span id="LC28" class="line" lang="markdown"><span class="sb" style="color: #d14;"> fp = bwOpen(argv[1], NULL, "r");</span></span>
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<pre style="margin: 0;"> <span id="LC29" class="line" lang="markdown"><span class="sb" style="color: #d14;"> if(!fp) {</span></span>
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<pre style="margin: 0;">-<span id="LC30" class="line" lang="markdown"><span class="sb" style="color: #d14;"> fprintf(stderr, "An error occured while opening %s\n", argv[1]);</span></span>
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<pre style="margin: 0;">+<span id="LC30" class="line" lang="markdown"><span class="sb" style="color: #d14;"> fprintf(stderr, "An error occur<span class="idiff left right">r</span>ed while opening %s\n", argv[1]);</span></span>
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<pre style="margin: 0;"> <span id="LC31" class="line" lang="markdown"><span class="sb" style="color: #d14;"> return 1;</span></span>
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<pre style="margin: 0;"> <span id="LC32" class="line" lang="markdown"><span class="sb" style="color: #d14;"> }</span></span>
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<pre style="margin: 0;"> <span id="LC33" class="line" lang="markdown"></span>
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<a href="https://salsa.debian.org/med-team/pybigwig/commit/7a3cc3ffe926943e0b3385270e067db9ef3f3967#b85a8b026245fccad1fd1525616eeffcbe230970"><strong>libBigWig/bigWig.h</strong></a>
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<pre style="margin: 0;">-<span id="LC1" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#include "<span class="idiff left right">io</span>.h"</span></span>
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#include "<span class="idiff left right">bigWigIO</span>.h"</span></span>
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<pre style="margin: 0;"> <span id="LC2" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#include "bwValues.h"</span></span>
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<pre style="margin: 0;"> <span id="LC3" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#include <inttypes.h></span></span>
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<pre style="margin: 0;"> <span id="LC4" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#include <zlib.h></span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -53,7 +53,18 @@ extern "C" {</td>
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<pre style="margin: 0;"> <span id="LC53" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;">/*!</span></span>
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<pre style="margin: 0;"> <span id="LC54" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;"> * The library version number</span></span>
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<pre style="margin: 0;"> <span id="LC55" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;"> */</span></span>
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<pre style="margin: 0;">-<span id="LC56" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#define LIBBIGWIG_VERSION 0.3.0</span></span>
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<pre style="margin: 0;">+<span id="LC56" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#define LIBBIGWIG_VERSION 0.4.2</span></span>
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<pre style="margin: 0;">+<span id="LC57" class="line" lang="c"></span>
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<pre style="margin: 0;">+<span id="LC58" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;">/*!</span></span>
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<pre style="margin: 0;">+<span id="LC59" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;"> * If 1, then this library was compiled with remote file support.</span></span>
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<pre style="margin: 0;">+<span id="LC60" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;"> */</span></span>
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<pre style="margin: 0;">+<span id="LC61" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#ifdef NOCURL</span></span>
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<pre style="margin: 0;">+<span id="LC62" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#define LIBBIGWIG_CURL 0</span></span>
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<pre style="margin: 0;">+<span id="LC63" class="line" lang="c"><span class="k" style="font-weight: 600;">typedef</span> <span class="kt" style="color: #458; font-weight: 600;">int</span> <span class="n" style="color: #333;">CURLcode</span><span class="p">;</span></span>
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<pre style="margin: 0;">+<span id="LC64" class="line" lang="c"><span class="k" style="font-weight: 600;">typedef</span> <span class="kt" style="color: #458; font-weight: 600;">void</span> <span class="n" style="color: #333;">CURL</span><span class="p">;</span></span>
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<pre style="margin: 0;">+<span id="LC65" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#else</span></span>
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<pre style="margin: 0;">+<span id="LC66" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#define LIBBIGWIG_CURL 1</span></span>
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<pre style="margin: 0;">+<span id="LC67" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#endif</span></span>
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<pre style="margin: 0;"> <span id="LC68" class="line" lang="c"></span>
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<pre style="margin: 0;"> <span id="LC69" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;">/*!</span></span>
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<pre style="margin: 0;"> <span id="LC70" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;"> * The magic number of a bigWig file.</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -84,15 +95,16 @@ extern "C" {</td>
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<pre style="margin: 0;"> <span id="LC95" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;"> * An enum that dictates the type of statistic to fetch for a given interval</span></span>
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96
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<pre style="margin: 0;"> <span id="LC96" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;"> */</span></span>
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86
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97
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<pre style="margin: 0;"> <span id="LC97" class="line" lang="c"><span class="k" style="font-weight: 600;">enum</span> <span class="n" style="color: #333;">bwStatsType</span> <span class="p">{</span></span>
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87
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<pre style="margin: 0;">-<span id="LC87" class="line" lang="c"> <span class="n" style="color: #333;">doesNotExist</span> <span class="o" style="font-weight: 600;">=</span> <span class="o" style="font-weight: 600;">-</span><span class="mi" style="color: #099;">1</span><span class="p">,</span></span>
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88
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<pre style="margin: 0;">-<span id="LC88" class="line" lang="c"> <span class="n" style="color: #333;">mean</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">0</span><span class="p">,</span></span>
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89
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<pre style="margin: 0;">-<span id="LC89" class="line" lang="c"> <span class="n" style="color: #333;">average</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">0</span><span class="p">,</span></span>
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90
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<td class="diff-line-num new_line old" data-linenumber="98" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC90" class="line" lang="c"> <span class="n" style="color: #333;">stdev</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">1</span><span class="p">,</span></span>
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91
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<td class="diff-line-num new_line old" data-linenumber="98" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC91" class="line" lang="c"> <span class="n" style="color: #333;">dev</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">1</span><span class="p">,</span></span>
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92
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<td class="diff-line-num new_line old" data-linenumber="98" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC92" class="line" lang="c"> <span class="n" style="color: #333;">max</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">2</span><span class="p">,</span></span>
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93
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<td class="diff-line-num new_line old" data-linenumber="98" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC93" class="line" lang="c"> <span class="n" style="color: #333;">min</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">3</span><span class="p">,</span></span>
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94
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<td class="diff-line-num new_line old" data-linenumber="98" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC94" class="line" lang="c"> <span class="n" style="color: #333;">cov</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">4</span><span class="p">,</span></span>
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95
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<td class="diff-line-num new_line old" data-linenumber="98" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC95" class="line" lang="c"> <span class="n" style="color: #333;">coverage</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">4</span></span>
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<td class="diff-line-num new old_line" data-linenumber="96" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
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<td class="diff-line-num new new_line" data-linenumber="98" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
98
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<pre style="margin: 0;">+<span id="LC98" class="line" lang="c"> <span class="n" style="color: #333;">doesNotExist</span> <span class="o" style="font-weight: 600;">=</span> <span class="o" style="font-weight: 600;">-</span><span class="mi" style="color: #099;">1</span><span class="p">,</span> <span class="cm" style="color: #998; font-style: italic;">/*!< This does nothing */</span></span>
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<td class="diff-line-num new new_line" data-linenumber="99" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
99
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<pre style="margin: 0;">+<span id="LC99" class="line" lang="c"> <span class="n" style="color: #333;">mean</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">0</span><span class="p">,</span> <span class="cm" style="color: #998; font-style: italic;">/*!< The mean value */</span></span>
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<td class="diff-line-num new new_line" data-linenumber="100" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
100
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<pre style="margin: 0;">+<span id="LC100" class="line" lang="c"> <span class="n" style="color: #333;">average</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">0</span><span class="p">,</span> <span class="cm" style="color: #998; font-style: italic;">/*!< The mean value */</span></span>
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<td class="diff-line-num new old_line" data-linenumber="96" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
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<td class="diff-line-num new new_line" data-linenumber="101" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
101
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<pre style="margin: 0;">+<span id="LC101" class="line" lang="c"> <span class="n" style="color: #333;">stdev</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">1</span><span class="p">,</span> <span class="cm" style="color: #998; font-style: italic;">/*!< The standard deviation of the values */</span></span>
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<td class="diff-line-num new old_line" data-linenumber="96" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
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<td class="diff-line-num new new_line" data-linenumber="102" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
102
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<td class="line_content new noteable_line" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">
<pre style="margin: 0;">+<span id="LC102" class="line" lang="c"> <span class="n" style="color: #333;">dev</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">1</span><span class="p">,</span> <span class="cm" style="color: #998; font-style: italic;">/*!< The standard deviation of the values */</span></span>
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<td class="diff-line-num new old_line" data-linenumber="96" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
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<td class="diff-line-num new new_line" data-linenumber="103" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
103
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<pre style="margin: 0;">+<span id="LC103" class="line" lang="c"> <span class="n" style="color: #333;">max</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">2</span><span class="p">,</span> <span class="cm" style="color: #998; font-style: italic;">/*!< The maximum value */</span></span>
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<td class="diff-line-num new old_line" data-linenumber="96" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
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<td class="diff-line-num new new_line" data-linenumber="104" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
104
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<pre style="margin: 0;">+<span id="LC104" class="line" lang="c"> <span class="n" style="color: #333;">min</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">3</span><span class="p">,</span> <span class="cm" style="color: #998; font-style: italic;">/*!< The minimum value */</span></span>
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<td class="diff-line-num new old_line" data-linenumber="96" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
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<td class="diff-line-num new new_line" data-linenumber="105" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
105
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<pre style="margin: 0;">+<span id="LC105" class="line" lang="c"> <span class="n" style="color: #333;">cov</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">4</span><span class="p">,</span> <span class="cm" style="color: #998; font-style: italic;">/*!< The number of bases covered */</span></span>
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<td class="diff-line-num new old_line" data-linenumber="96" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
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<td class="diff-line-num new new_line" data-linenumber="106" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
106
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<pre style="margin: 0;">+<span id="LC106" class="line" lang="c"> <span class="n" style="color: #333;">coverage</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">4</span><span class="p">,</span> <span class="cm" style="color: #998; font-style: italic;">/*!<The number of bases covered */</span> </span>
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<td class="diff-line-num new old_line" data-linenumber="96" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
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<td class="diff-line-num new new_line" data-linenumber="107" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
107
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<pre style="margin: 0;">+<span id="LC107" class="line" lang="c"> <span class="n" style="color: #333;">sum</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">5</span> <span class="cm" style="color: #998; font-style: italic;">/*!< The sum of per-base values */</span></span>
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96
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108
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<pre style="margin: 0;"> <span id="LC108" class="line" lang="c"><span class="p">};</span></span>
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97
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<pre style="margin: 0;"> <span id="LC109" class="line" lang="c"></span>
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<pre style="margin: 0;"> <span id="LC110" class="line" lang="c"><span class="c1" style="color: #998; font-style: italic;">//Should hide this from end users</span></span>
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<a href="https://salsa.debian.org/med-team/pybigwig/commit/7a3cc3ffe926943e0b3385270e067db9ef3f3967#f44e6db941ed335a31ed9d952d65cc704e73b4d5"><strong>libBigWig/io.h</strong>
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<strong>libBigWig/bigWigIO.h</strong>
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#ifndef NOCURL</span></span>
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<pre style="margin: 0;"> <span id="LC2" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#include <curl/curl.h></span></span>
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<pre style="margin: 0;">-<span id="LC2" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;">/*! \file io.h</span></span>
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3
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<pre style="margin: 0;">+<span id="LC3" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#else</span></span>
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<pre style="margin: 0;">+<span id="LC4" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#include <stdio.h></span></span>
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<pre style="margin: 0;">+<span id="LC5" class="line" lang="c"><span class="k" style="font-weight: 600;">typedef</span> <span class="kt" style="color: #458; font-weight: 600;">int</span> <span class="n" style="color: #333;">CURLcode</span><span class="p">;</span></span>
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<pre style="margin: 0;">+<span id="LC6" class="line" lang="c"><span class="k" style="font-weight: 600;">typedef</span> <span class="kt" style="color: #458; font-weight: 600;">void</span> <span class="n" style="color: #333;">CURL</span><span class="p">;</span></span>
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<pre style="margin: 0;">+<span id="LC7" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#define CURLE_OK 0</span></span>
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<pre style="margin: 0;">+<span id="LC8" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#define CURLE_FAILED_INIT 1</span></span>
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<pre style="margin: 0;">+<span id="LC9" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#endif</span></span>
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<pre style="margin: 0;">+<span id="LC10" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;">/*! \file bigWigIO.h</span></span>
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3
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<pre style="margin: 0;"> <span id="LC11" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;"> * These are (typically internal) IO functions, so there's generally no need for you to directly use them!</span></span>
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<pre style="margin: 0;"> <span id="LC12" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;"> */</span></span>
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5
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<pre style="margin: 0;"> <span id="LC13" class="line" lang="c"></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -23,7 +31,9 @@ enum bigWigFile_type_enum {</td>
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<pre style="margin: 0;"> <span id="LC31" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;"> */</span></span>
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<pre style="margin: 0;"> <span id="LC32" class="line" lang="c"><span class="k" style="font-weight: 600;">typedef</span> <span class="k" style="font-weight: 600;">struct</span> <span class="p">{</span></span>
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<pre style="margin: 0;"> <span id="LC33" class="line" lang="c"> <span class="k" style="font-weight: 600;">union</span> <span class="p">{</span></span>
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<pre style="margin: 0;">+<span id="LC34" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#ifndef NOCURL</span></span>
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<pre style="margin: 0;"> <span id="LC35" class="line" lang="c"> <span class="n" style="color: #333;">CURL</span> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">curl</span><span class="p">;</span> <span class="cm" style="color: #998; font-style: italic;">/**<The CURL * file pointer for remote files.*/</span></span>
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<pre style="margin: 0;">+<span id="LC36" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#endif</span></span>
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<pre style="margin: 0;"> <span id="LC37" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">FILE</span> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">fp</span><span class="p">;</span> <span class="cm" style="color: #998; font-style: italic;">/**<The FILE * file pointer for local files.**/</span></span>
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<pre style="margin: 0;"> <span id="LC38" class="line" lang="c"> <span class="p">}</span> <span class="n" style="color: #333;">x</span><span class="p">;</span> <span class="cm" style="color: #998; font-style: italic;">/**<A union holding curl and fp.*/</span></span>
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<pre style="margin: 0;"> <span id="LC39" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">void</span> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">memBuf</span><span class="p">;</span> <span class="cm" style="color: #998; font-style: italic;">/**<A void * pointing to memory of size bufSize.*/</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -32,6 +42,7 @@ typedef struct {</td>
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<pre style="margin: 0;"> <span id="LC42" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">size_t</span> <span class="n" style="color: #333;">bufSize</span><span class="p">;</span> <span class="cm" style="color: #998; font-style: italic;">/**<The size of the buffer.*/</span></span>
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<pre style="margin: 0;"> <span id="LC43" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">size_t</span> <span class="n" style="color: #333;">bufLen</span><span class="p">;</span> <span class="cm" style="color: #998; font-style: italic;">/**<The actual size of the buffer used.*/</span></span>
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<pre style="margin: 0;"> <span id="LC44" class="line" lang="c"> <span class="k" style="font-weight: 600;">enum</span> <span class="n" style="color: #333;">bigWigFile_type_enum</span> <span class="n" style="color: #333;">type</span><span class="p">;</span> <span class="cm" style="color: #998; font-style: italic;">/**<The connection type*/</span></span>
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<pre style="margin: 0;">+<span id="LC45" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">int</span> <span class="n" style="color: #333;">isCompressed</span><span class="p">;</span> <span class="cm" style="color: #998; font-style: italic;">/**<1 if the file is compressed, otherwise 0*/</span></span>
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<pre style="margin: 0;"> <span id="LC46" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">char</span> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">fname</span><span class="p">;</span> <span class="cm" style="color: #998; font-style: italic;">/**<Only needed for remote connections. The original URL/filename requested, since we need to make multiple connections.*/</span></span>
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<pre style="margin: 0;"> <span id="LC47" class="line" lang="c"><span class="p">}</span> <span class="n" style="color: #333;">URL_t</span><span class="p">;</span></span>
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<pre style="margin: 0;"> <span id="LC48" class="line" lang="c"></span>
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<li id="ed9e6518d0e742e7387957269598f71baee57995">
<a href="https://salsa.debian.org/med-team/pybigwig/commit/7a3cc3ffe926943e0b3385270e067db9ef3f3967#ed9e6518d0e742e7387957269598f71baee57995"><strong>libBigWig/bwRead.c</strong></a>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -40,15 +40,19 @@ int bwInit(size_t defaultBufSize) {</td>
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<pre style="margin: 0;"> <span id="LC40" class="line" lang="c"> <span class="n" style="color: #333;">GLOBAL_DEFAULTBUFFERSIZE</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">defaultBufSize</span><span class="p">;</span></span>
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<pre style="margin: 0;"> <span id="LC41" class="line" lang="c"></span>
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<pre style="margin: 0;"> <span id="LC42" class="line" lang="c"> <span class="c1" style="color: #998; font-style: italic;">//call curl_global_init()</span></span>
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<pre style="margin: 0;">+<span id="LC43" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#ifndef NOCURL</span></span>
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<pre style="margin: 0;"> <span id="LC44" class="line" lang="c"> <span class="n" style="color: #333;">CURLcode</span> <span class="n" style="color: #333;">rv</span><span class="p">;</span></span>
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<pre style="margin: 0;"> <span id="LC45" class="line" lang="c"> <span class="n" style="color: #333;">rv</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">curl_global_init</span><span class="p">(</span><span class="n" style="color: #333;">CURL_GLOBAL_ALL</span><span class="p">);</span></span>
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<pre style="margin: 0;"> <span id="LC46" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">rv</span> <span class="o" style="font-weight: 600;">!=</span> <span class="n" style="color: #333;">CURLE_OK</span><span class="p">)</span> <span class="k" style="font-weight: 600;">return</span> <span class="mi" style="color: #099;">1</span><span class="p">;</span></span>
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<pre style="margin: 0;">+<span id="LC47" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#endif</span></span>
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<pre style="margin: 0;"> <span id="LC48" class="line" lang="c"> <span class="k" style="font-weight: 600;">return</span> <span class="mi" style="color: #099;">0</span><span class="p">;</span></span>
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<pre style="margin: 0;"> <span id="LC49" class="line" lang="c"><span class="p">}</span></span>
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<pre style="margin: 0;"> <span id="LC50" class="line" lang="c"></span>
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<pre style="margin: 0;"> <span id="LC51" class="line" lang="c"><span class="c1" style="color: #998; font-style: italic;">//This should be called before quiting, to release memory acquired by curl</span></span>
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<pre style="margin: 0;"> <span id="LC52" class="line" lang="c"><span class="kt" style="color: #458; font-weight: 600;">void</span> <span class="nf" style="color: #900; font-weight: 600;">bwCleanup</span><span class="p">()</span> <span class="p">{</span></span>
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<pre style="margin: 0;">+<span id="LC53" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#ifndef NOCURL</span></span>
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<pre style="margin: 0;"> <span id="LC54" class="line" lang="c"> <span class="n" style="color: #333;">curl_global_cleanup</span><span class="p">();</span></span>
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<pre style="margin: 0;">+<span id="LC55" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#endif</span></span>
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<pre style="margin: 0;"> <span id="LC56" class="line" lang="c"><span class="p">}</span></span>
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<pre style="margin: 0;"> <span id="LC57" class="line" lang="c"></span>
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<pre style="margin: 0;"> <span id="LC58" class="line" lang="c"><span class="k" style="font-weight: 600;">static</span> <span class="n" style="color: #333;">bwZoomHdr_t</span> <span class="o" style="font-weight: 600;">*</span><span class="nf" style="color: #900; font-weight: 600;">bwReadZoomHdrs</span><span class="p">(</span><span class="n" style="color: #333;">bigWigFile_t</span> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">bw</span><span class="p">)</span> <span class="p">{</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="153" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="157" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -153,6 +157,9 @@ static void bwHdrRead(bigWigFile_t *bw) {</td>
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153
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<pre style="margin: 0;"> <span id="LC157" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">bwRead</span><span class="p">((</span><span class="kt" style="color: #458; font-weight: 600;">void</span><span class="o" style="font-weight: 600;">*</span><span class="p">)</span> <span class="o" style="font-weight: 600;">&</span><span class="p">(</span><span class="n" style="color: #333;">bw</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">hdr</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">sumSquared</span><span class="p">),</span> <span class="k" style="font-weight: 600;">sizeof</span><span class="p">(</span><span class="kt" style="color: #458; font-weight: 600;">uint64_t</span><span class="p">),</span> <span class="mi" style="color: #099;">1</span><span class="p">,</span> <span class="n" style="color: #333;">bw</span><span class="p">)</span> <span class="o" style="font-weight: 600;">!=</span> <span class="mi" style="color: #099;">1</span><span class="p">)</span> <span class="k" style="font-weight: 600;">goto</span> <span class="n" style="color: #333;">error</span><span class="p">;</span></span>
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154
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158
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<pre style="margin: 0;"> <span id="LC158" class="line" lang="c"> <span class="p">}</span></span>
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159
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<pre style="margin: 0;"> <span id="LC159" class="line" lang="c"></span>
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<pre style="margin: 0;">+<span id="LC160" class="line" lang="c"> <span class="c1" style="color: #998; font-style: italic;">//In case of uncompressed remote files, let the IO functions know to request larger chunks</span></span>
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<pre style="margin: 0;">+<span id="LC161" class="line" lang="c"> <span class="n" style="color: #333;">bw</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">URL</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">isCompressed</span> <span class="o" style="font-weight: 600;">=</span> <span class="p">(</span><span class="n" style="color: #333;">bw</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">hdr</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">bufSize</span> <span class="o" style="font-weight: 600;">></span> <span class="mi" style="color: #099;">0</span><span class="p">)</span><span class="o" style="font-weight: 600;">?</span><span class="mi" style="color: #099;">1</span><span class="o" style="font-weight: 600;">:</span><span class="mi" style="color: #099;">0</span><span class="p">;</span></span>
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<pre style="margin: 0;">+<span id="LC162" class="line" lang="c"></span>
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<pre style="margin: 0;"> <span id="LC163" class="line" lang="c"> <span class="k" style="font-weight: 600;">return</span><span class="p">;</span></span>
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157
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164
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<pre style="margin: 0;"> <span id="LC164" class="line" lang="c"></span>
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158
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165
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<pre style="margin: 0;"> <span id="LC165" class="line" lang="c"><span class="nl">error:</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="233" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="240" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -233,7 +240,7 @@ static uint64_t readChromBlock(bigWigFile_t *bw, chromList_t *cl, uint32_t keySi</td>
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233
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240
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<pre style="margin: 0;"> <span id="LC240" class="line" lang="c"><span class="k" style="font-weight: 600;">static</span> <span class="n" style="color: #333;">chromList_t</span> <span class="o" style="font-weight: 600;">*</span><span class="nf" style="color: #900; font-weight: 600;">bwReadChromList</span><span class="p">(</span><span class="n" style="color: #333;">bigWigFile_t</span> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">bw</span><span class="p">)</span> <span class="p">{</span></span>
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234
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<pre style="margin: 0;"> <span id="LC241" class="line" lang="c"> <span class="n" style="color: #333;">chromList_t</span> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">cl</span> <span class="o" style="font-weight: 600;">=</span> <span class="nb" style="color: #0086b3;">NULL</span><span class="p">;</span></span>
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235
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242
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<pre style="margin: 0;"> <span id="LC242" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">uint32_t</span> <span class="n" style="color: #333;">magic</span><span class="p">,</span> <span class="n" style="color: #333;">keySize</span><span class="p">,</span> <span class="n" style="color: #333;">valueSize</span><span class="p">,</span> <span class="n" style="color: #333;">itemsPerBlock</span><span class="p">;</span></span>
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236
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<pre style="margin: 0;">-<span id="LC236" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">uint64_t</span> <span class="n" style="color: #333;"><span class="idiff left">i</span></span><span class="p"><span class="idiff">,</span></span><span class="idiff right"> </span><span class="n" style="color: #333;">rv</span><span class="p">,</span> <span class="n" style="color: #333;">itemCount</span><span class="p">;</span></span>
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<td class="diff-line-num new old_line" data-linenumber="237" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
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<td class="diff-line-num new new_line" data-linenumber="243" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
243
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<pre style="margin: 0;">+<span id="LC243" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">uint64_t</span> <span class="n" style="color: #333;">rv</span><span class="p">,</span> <span class="n" style="color: #333;">itemCount</span><span class="p">;</span></span>
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<td class="diff-line-num old_line" data-linenumber="237" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
237
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<td class="diff-line-num new_line" data-linenumber="244" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
244
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<pre style="margin: 0;"> <span id="LC244" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">bw</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">isWrite</span><span class="p">)</span> <span class="k" style="font-weight: 600;">return</span> <span class="nb" style="color: #0086b3;">NULL</span><span class="p">;</span></span>
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<td class="diff-line-num old_line" data-linenumber="238" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
238
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<td class="diff-line-num new_line" data-linenumber="245" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
245
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<pre style="margin: 0;"> <span id="LC245" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">bwSetPos</span><span class="p">(</span><span class="n" style="color: #333;">bw</span><span class="p">,</span> <span class="n" style="color: #333;">bw</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">hdr</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">ctOffset</span><span class="p">))</span> <span class="k" style="font-weight: 600;">return</span> <span class="nb" style="color: #0086b3;">NULL</span><span class="p">;</span></span>
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<td class="diff-line-num old_line" data-linenumber="239" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
239
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<td class="diff-line-num new_line" data-linenumber="246" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
246
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<pre style="margin: 0;"> <span id="LC246" class="line" lang="c"></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="245" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="252" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -245,7 +252,7 @@ static chromList_t *bwReadChromList(bigWigFile_t *bw) {</td>
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245
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<td class="diff-line-num new_line" data-linenumber="252" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
252
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<pre style="margin: 0;"> <span id="LC252" class="line" lang="c"></span>
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<td class="diff-line-num old_line" data-linenumber="246" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
246
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<td class="diff-line-num new_line" data-linenumber="253" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
253
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<pre style="margin: 0;"> <span id="LC253" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">bwRead</span><span class="p">((</span><span class="kt" style="color: #458; font-weight: 600;">void</span><span class="o" style="font-weight: 600;">*</span><span class="p">)</span> <span class="o" style="font-weight: 600;">&</span><span class="n" style="color: #333;">itemsPerBlock</span><span class="p">,</span> <span class="k" style="font-weight: 600;">sizeof</span><span class="p">(</span><span class="kt" style="color: #458; font-weight: 600;">uint32_t</span><span class="p">),</span> <span class="mi" style="color: #099;">1</span><span class="p">,</span> <span class="n" style="color: #333;">bw</span><span class="p">)</span> <span class="o" style="font-weight: 600;">!=</span> <span class="mi" style="color: #099;">1</span><span class="p">)</span> <span class="k" style="font-weight: 600;">goto</span> <span class="n" style="color: #333;">error</span><span class="p">;</span></span>
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<td class="diff-line-num old_line" data-linenumber="247" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
247
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<td class="diff-line-num new_line" data-linenumber="254" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
254
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<pre style="margin: 0;"> <span id="LC254" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">bwRead</span><span class="p">((</span><span class="kt" style="color: #458; font-weight: 600;">void</span><span class="o" style="font-weight: 600;">*</span><span class="p">)</span> <span class="o" style="font-weight: 600;">&</span><span class="n" style="color: #333;">keySize</span><span class="p">,</span> <span class="k" style="font-weight: 600;">sizeof</span><span class="p">(</span><span class="kt" style="color: #458; font-weight: 600;">uint32_t</span><span class="p">),</span> <span class="mi" style="color: #099;">1</span><span class="p">,</span> <span class="n" style="color: #333;">bw</span><span class="p">)</span> <span class="o" style="font-weight: 600;">!=</span> <span class="mi" style="color: #099;">1</span><span class="p">)</span> <span class="k" style="font-weight: 600;">goto</span> <span class="n" style="color: #333;">error</span><span class="p">;</span></span>
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<td class="diff-line-num old old_line" data-linenumber="248" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
248
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<td class="diff-line-num new_line old" data-linenumber="255" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC248" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">bwRead</span><span class="p">((</span><span class="kt" style="color: #458; font-weight: 600;">void</span><span class="o" style="font-weight: 600;">*</span><span class="p">)</span> <span class="o" style="font-weight: 600;">&</span><span class="n" style="color: #333;">valueSize</span><span class="p">,</span> <span class="k" style="font-weight: 600;">sizeof</span><span class="p">(</span><span class="kt" style="color: #458; font-weight: 600;">uint32_t</span><span class="p">),</span> <span class="mi" style="color: #099;">1</span><span class="p">,</span> <span class="n" style="color: #333;">bw</span><span class="p">)</span> <span class="o" style="font-weight: 600;">!=</span> <span class="mi" style="color: #099;">1</span><span class="p">)</span> <span class="k" style="font-weight: 600;">goto</span> <span class="n" style="color: #333;">error</span><span class="p">;</span><span class="idiff left"> </span><span class="c1" style="color: #998; font-style: italic;"><span class="idiff right">//Unused</span></span></span>
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<td class="diff-line-num new old_line" data-linenumber="249" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
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255
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<pre style="margin: 0;">+<span id="LC255" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">bwRead</span><span class="p">((</span><span class="kt" style="color: #458; font-weight: 600;">void</span><span class="o" style="font-weight: 600;">*</span><span class="p">)</span> <span class="o" style="font-weight: 600;">&</span><span class="n" style="color: #333;">valueSize</span><span class="p">,</span> <span class="k" style="font-weight: 600;">sizeof</span><span class="p">(</span><span class="kt" style="color: #458; font-weight: 600;">uint32_t</span><span class="p">),</span> <span class="mi" style="color: #099;">1</span><span class="p">,</span> <span class="n" style="color: #333;">bw</span><span class="p">)</span> <span class="o" style="font-weight: 600;">!=</span> <span class="mi" style="color: #099;">1</span><span class="p">)</span> <span class="k" style="font-weight: 600;">goto</span> <span class="n" style="color: #333;">error</span><span class="p">;</span></span>
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249
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<td class="diff-line-num new_line" data-linenumber="256" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
256
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<pre style="margin: 0;"> <span id="LC256" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">bwRead</span><span class="p">((</span><span class="kt" style="color: #458; font-weight: 600;">void</span><span class="o" style="font-weight: 600;">*</span><span class="p">)</span> <span class="o" style="font-weight: 600;">&</span><span class="n" style="color: #333;">itemCount</span><span class="p">,</span> <span class="k" style="font-weight: 600;">sizeof</span><span class="p">(</span><span class="kt" style="color: #458; font-weight: 600;">uint64_t</span><span class="p">),</span> <span class="mi" style="color: #099;">1</span><span class="p">,</span> <span class="n" style="color: #333;">bw</span><span class="p">)</span> <span class="o" style="font-weight: 600;">!=</span> <span class="mi" style="color: #099;">1</span><span class="p">)</span> <span class="k" style="font-weight: 600;">goto</span> <span class="n" style="color: #333;">error</span><span class="p">;</span></span>
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250
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<td class="diff-line-num new_line" data-linenumber="257" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
257
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<pre style="margin: 0;"> <span id="LC257" class="line" lang="c"></span>
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<td class="diff-line-num old_line" data-linenumber="251" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
251
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<td class="diff-line-num new_line" data-linenumber="258" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
258
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<pre style="margin: 0;"> <span id="LC258" class="line" lang="c"> <span class="n" style="color: #333;">cl</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">nKeys</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">itemCount</span><span class="p">;</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="254" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="261" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -254,16 +261,13 @@ static chromList_t *bwReadChromList(bigWigFile_t *bw) {</td>
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<td class="diff-line-num old_line" data-linenumber="254" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
254
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<td class="diff-line-num new_line" data-linenumber="261" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
261
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<pre style="margin: 0;"> <span id="LC261" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="o" style="font-weight: 600;">!</span><span class="n" style="color: #333;">cl</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">chrom</span><span class="p">)</span> <span class="k" style="font-weight: 600;">goto</span> <span class="n" style="color: #333;">error</span><span class="p">;</span></span>
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255
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<td class="diff-line-num new_line" data-linenumber="262" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
262
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<pre style="margin: 0;"> <span id="LC262" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="o" style="font-weight: 600;">!</span><span class="n" style="color: #333;">cl</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">len</span><span class="p">)</span> <span class="k" style="font-weight: 600;">goto</span> <span class="n" style="color: #333;">error</span><span class="p">;</span></span>
</pre>
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256
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<td class="diff-line-num new_line" data-linenumber="263" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
263
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<pre style="margin: 0;"> <span id="LC263" class="line" lang="c"></span>
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257
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<pre style="margin: 0;">-<span id="LC257" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">bwRead</span><span class="p">((</span><span class="kt" style="color: #458; font-weight: 600;">void</span><span class="o" style="font-weight: 600;">*</span><span class="p">)</span> <span class="o" style="font-weight: 600;">&</span><span class="n" style="color: #333;">magic</span><span class="p">,</span> <span class="k" style="font-weight: 600;">sizeof</span><span class="p">(</span><span class="kt" style="color: #458; font-weight: 600;">uint32_t</span><span class="p">),</span> <span class="mi" style="color: #099;">1</span><span class="p">,</span> <span class="n" style="color: #333;">bw</span><span class="p">)</span> <span class="o" style="font-weight: 600;">!=</span> <span class="mi" style="color: #099;">1</span><span class="p">)</span> <span class="k" style="font-weight: 600;">goto</span> <span class="n" style="color: #333;">error</span><span class="p">;</span><span class="idiff left"> </span><span class="c1" style="color: #998; font-style: italic;"><span class="idiff right">//padding</span></span></span>
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258
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<td class="diff-line-num new_line old" data-linenumber="264" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC258" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">bwRead</span><span class="p">((</span><span class="kt" style="color: #458; font-weight: 600;">void</span><span class="o" style="font-weight: 600;">*</span><span class="p">)</span> <span class="o" style="font-weight: 600;">&</span><span class="n" style="color: #333;">magic</span><span class="p">,</span> <span class="k" style="font-weight: 600;">sizeof</span><span class="p">(</span><span class="kt" style="color: #458; font-weight: 600;">uint32_t</span><span class="p">),</span> <span class="mi" style="color: #099;">1</span><span class="p">,</span> <span class="n" style="color: #333;">bw</span><span class="p">)</span> <span class="o" style="font-weight: 600;">!=</span> <span class="mi" style="color: #099;">1</span><span class="p">)</span> <span class="k" style="font-weight: 600;">goto</span> <span class="n" style="color: #333;">error</span><span class="p">;</span><span class="idiff left"> </span><span class="c1" style="color: #998; font-style: italic;"><span class="idiff right">//padding</span></span></span>
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<td class="diff-line-num new old_line" data-linenumber="259" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
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<td class="diff-line-num new new_line" data-linenumber="264" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
264
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<pre style="margin: 0;">+<span id="LC264" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">bwRead</span><span class="p">((</span><span class="kt" style="color: #458; font-weight: 600;">void</span><span class="o" style="font-weight: 600;">*</span><span class="p">)</span> <span class="o" style="font-weight: 600;">&</span><span class="n" style="color: #333;">magic</span><span class="p">,</span> <span class="k" style="font-weight: 600;">sizeof</span><span class="p">(</span><span class="kt" style="color: #458; font-weight: 600;">uint32_t</span><span class="p">),</span> <span class="mi" style="color: #099;">1</span><span class="p">,</span> <span class="n" style="color: #333;">bw</span><span class="p">)</span> <span class="o" style="font-weight: 600;">!=</span> <span class="mi" style="color: #099;">1</span><span class="p">)</span> <span class="k" style="font-weight: 600;">goto</span> <span class="n" style="color: #333;">error</span><span class="p">;</span></span>
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<td class="diff-line-num new old_line" data-linenumber="259" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
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<td class="diff-line-num new new_line" data-linenumber="265" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
265
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<td class="line_content new noteable_line" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">
<pre style="margin: 0;">+<span id="LC265" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">bwRead</span><span class="p">((</span><span class="kt" style="color: #458; font-weight: 600;">void</span><span class="o" style="font-weight: 600;">*</span><span class="p">)</span> <span class="o" style="font-weight: 600;">&</span><span class="n" style="color: #333;">magic</span><span class="p">,</span> <span class="k" style="font-weight: 600;">sizeof</span><span class="p">(</span><span class="kt" style="color: #458; font-weight: 600;">uint32_t</span><span class="p">),</span> <span class="mi" style="color: #099;">1</span><span class="p">,</span> <span class="n" style="color: #333;">bw</span><span class="p">)</span> <span class="o" style="font-weight: 600;">!=</span> <span class="mi" style="color: #099;">1</span><span class="p">)</span> <span class="k" style="font-weight: 600;">goto</span> <span class="n" style="color: #333;">error</span><span class="p">;</span></span>
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<td class="diff-line-num old_line" data-linenumber="259" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
259
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<td class="diff-line-num new_line" data-linenumber="266" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
266
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<pre style="margin: 0;"> <span id="LC266" class="line" lang="c"></span>
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<td class="diff-line-num old_line" data-linenumber="260" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
260
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<td class="diff-line-num new_line" data-linenumber="267" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
267
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<pre style="margin: 0;"> <span id="LC267" class="line" lang="c"> <span class="c1" style="color: #998; font-style: italic;">//Read in the blocks</span></span>
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<td class="diff-line-num old old_line" data-linenumber="261" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
261
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<td class="diff-line-num new_line old" data-linenumber="268" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC261" class="line" lang="c"> <span class="n" style="color: #333;">i</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">0</span><span class="p">;</span></span>
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<td class="diff-line-num old old_line" data-linenumber="262" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
262
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<td class="diff-line-num new_line old" data-linenumber="268" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC262" class="line" lang="c"> <span class="k" style="font-weight: 600;">while</span><span class="p">(</span><span class="n" style="color: #333;">i</span><span class="o" style="font-weight: 600;"><</span><span class="n" style="color: #333;">itemCount</span><span class="p">)</span> <span class="p">{</span></span>
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<td class="diff-line-num old old_line" data-linenumber="263" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
263
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<td class="diff-line-num new_line old" data-linenumber="268" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC263" class="line" lang="c"> <span class="n" style="color: #333;">rv</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">readChromBlock</span><span class="p">(</span><span class="n" style="color: #333;">bw</span><span class="p">,</span> <span class="n" style="color: #333;">cl</span><span class="p">,</span> <span class="n" style="color: #333;">keySize</span><span class="p">);</span></span>
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<td class="diff-line-num old old_line" data-linenumber="264" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
264
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<td class="diff-line-num new_line old" data-linenumber="268" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<td class="line_content noteable_line old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">
<pre style="margin: 0;">-<span id="LC264" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">rv</span> <span class="o" style="font-weight: 600;">==</span> <span class="p">(</span><span class="kt" style="color: #458; font-weight: 600;">uint64_t</span><span class="p">)</span> <span class="o" style="font-weight: 600;">-</span><span class="mi" style="color: #099;">1</span><span class="p">)</span> <span class="k" style="font-weight: 600;">goto</span> <span class="n" style="color: #333;">error</span><span class="p">;</span></span>
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<td class="diff-line-num old old_line" data-linenumber="265" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
265
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<td class="diff-line-num new_line old" data-linenumber="268" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC265" class="line" lang="c"> <span class="n" style="color: #333;">i</span> <span class="o" style="font-weight: 600;">+=</span> <span class="n" style="color: #333;">rv</span><span class="p">;</span></span>
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<td class="diff-line-num old old_line" data-linenumber="266" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
266
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<td class="diff-line-num new_line old" data-linenumber="268" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC266" class="line" lang="c"> <span class="p">}</span></span>
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<td class="diff-line-num new old_line" data-linenumber="267" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
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<td class="diff-line-num new new_line" data-linenumber="268" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
268
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<td class="line_content new noteable_line" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">
<pre style="margin: 0;">+<span id="LC268" class="line" lang="c"> <span class="n" style="color: #333;">rv</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">readChromBlock</span><span class="p">(</span><span class="n" style="color: #333;">bw</span><span class="p">,</span> <span class="n" style="color: #333;">cl</span><span class="p">,</span> <span class="n" style="color: #333;">keySize</span><span class="p">);</span></span>
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<td class="diff-line-num new old_line" data-linenumber="267" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
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<td class="diff-line-num new new_line" data-linenumber="269" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
269
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<pre style="margin: 0;">+<span id="LC269" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">rv</span> <span class="o" style="font-weight: 600;">==</span> <span class="p">(</span><span class="kt" style="color: #458; font-weight: 600;">uint64_t</span><span class="p">)</span> <span class="o" style="font-weight: 600;">-</span><span class="mi" style="color: #099;">1</span><span class="p">)</span> <span class="k" style="font-weight: 600;">goto</span> <span class="n" style="color: #333;">error</span><span class="p">;</span></span>
</pre>
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<td class="diff-line-num new old_line" data-linenumber="267" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
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<td class="diff-line-num new new_line" data-linenumber="270" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
270
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<pre style="margin: 0;">+<span id="LC270" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">rv</span> <span class="o" style="font-weight: 600;">!=</span> <span class="n" style="color: #333;">itemCount</span><span class="p">)</span> <span class="k" style="font-weight: 600;">goto</span> <span class="n" style="color: #333;">error</span><span class="p">;</span></span>
</pre>
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<td class="diff-line-num old_line" data-linenumber="267" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
267
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<td class="diff-line-num new_line" data-linenumber="271" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
271
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<pre style="margin: 0;"> <span id="LC271" class="line" lang="c"></span>
</pre>
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<td class="diff-line-num old_line" data-linenumber="268" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
268
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<td class="diff-line-num new_line" data-linenumber="272" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
272
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<pre style="margin: 0;"> <span id="LC272" class="line" lang="c"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">cl</span><span class="p">;</span></span>
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<td class="diff-line-num old_line" data-linenumber="269" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
269
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<td class="diff-line-num new_line" data-linenumber="273" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
273
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<pre style="margin: 0;"> <span id="LC273" class="line" lang="c"></span>
</pre>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="347" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="351" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -347,20 +351,33 @@ bigWigFile_t *bwOpen(char *fname, CURLcode (*callBack) (CURL*), const char *mode</td>
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<pre style="margin: 0;"> <span id="LC351" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">((</span><span class="o" style="font-weight: 600;">!</span><span class="n" style="color: #333;">mode</span><span class="p">)</span> <span class="o" style="font-weight: 600;">||</span> <span class="p">(</span><span class="n" style="color: #333;">strchr</span><span class="p">(</span><span class="n" style="color: #333;">mode</span><span class="p">,</span> <span class="sc" style="color: #d14;">'w'</span><span class="p">)</span> <span class="o" style="font-weight: 600;">==</span> <span class="nb" style="color: #0086b3;">NULL</span><span class="p">))</span> <span class="p">{</span></span>
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348
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352
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<pre style="margin: 0;"> <span id="LC352" class="line" lang="c"> <span class="n" style="color: #333;">bwg</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">isWrite</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">0</span><span class="p">;</span></span>
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<pre style="margin: 0;"> <span id="LC353" class="line" lang="c"> <span class="n" style="color: #333;">bwg</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">URL</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">urlOpen</span><span class="p">(</span><span class="n" style="color: #333;">fname</span><span class="p">,</span> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">callBack</span><span class="p">,</span> <span class="nb" style="color: #0086b3;">NULL</span><span class="p">);</span></span>
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<pre style="margin: 0;">-<span id="LC350" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="o" style="font-weight: 600;">!</span><span class="n" style="color: #333;">bwg</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">URL</span><span class="p">)</span> <span class="k" style="font-weight: 600;">goto</span> <span class="n" style="color: #333;">error</span><span class="p">;</span></span>
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<pre style="margin: 0;">+<span id="LC354" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="o" style="font-weight: 600;">!</span><span class="n" style="color: #333;">bwg</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">URL</span><span class="p">)</span> <span class="p">{</span></span>
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355
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<pre style="margin: 0;">+<span id="LC355" class="line" lang="c"> <span class="n" style="color: #333;">fprintf</span><span class="p">(</span><span class="n" style="color: #333;">stderr</span><span class="p">,</span> <span class="s" style="color: #d14;">"[bwOpen] urlOpen is NULL!</span><span class="se" style="color: #d14;">\n</span><span class="s" style="color: #d14;">"</span><span class="p">);</span></span>
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356
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<pre style="margin: 0;">+<span id="LC356" class="line" lang="c"> <span class="k" style="font-weight: 600;">goto</span> <span class="n" style="color: #333;">error</span><span class="p">;</span></span>
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<pre style="margin: 0;">+<span id="LC357" class="line" lang="c"> <span class="p">}</span></span>
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<pre style="margin: 0;"> <span id="LC358" class="line" lang="c"></span>
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<pre style="margin: 0;"> <span id="LC359" class="line" lang="c"> <span class="c1" style="color: #998; font-style: italic;">//Attempt to read in the fixed header</span></span>
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<pre style="margin: 0;"> <span id="LC360" class="line" lang="c"> <span class="n" style="color: #333;">bwHdrRead</span><span class="p">(</span><span class="n" style="color: #333;">bwg</span><span class="p">);</span></span>
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<pre style="margin: 0;">-<span id="LC354" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="o" style="font-weight: 600;">!</span><span class="n" style="color: #333;">bwg</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">hdr</span><span class="p">)</span> <span class="k" style="font-weight: 600;">goto</span> <span class="n" style="color: #333;">error</span><span class="p">;</span></span>
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361
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<pre style="margin: 0;">+<span id="LC361" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="o" style="font-weight: 600;">!</span><span class="n" style="color: #333;">bwg</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">hdr</span><span class="p">)</span> <span class="p">{</span></span>
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362
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<pre style="margin: 0;">+<span id="LC362" class="line" lang="c"> <span class="n" style="color: #333;">fprintf</span><span class="p">(</span><span class="n" style="color: #333;">stderr</span><span class="p">,</span> <span class="s" style="color: #d14;">"[bwOpen] bwg->hdr is NULL!</span><span class="se" style="color: #d14;">\n</span><span class="s" style="color: #d14;">"</span><span class="p">);</span></span>
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<pre style="margin: 0;">+<span id="LC363" class="line" lang="c"> <span class="k" style="font-weight: 600;">goto</span> <span class="n" style="color: #333;">error</span><span class="p">;</span></span>
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<pre style="margin: 0;">+<span id="LC364" class="line" lang="c"> <span class="p">}</span></span>
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<pre style="margin: 0;"> <span id="LC365" class="line" lang="c"></span>
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<pre style="margin: 0;"> <span id="LC366" class="line" lang="c"> <span class="c1" style="color: #998; font-style: italic;">//Read in the chromosome list</span></span>
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<pre style="margin: 0;"> <span id="LC367" class="line" lang="c"> <span class="n" style="color: #333;">bwg</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">cl</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">bwReadChromList</span><span class="p">(</span><span class="n" style="color: #333;">bwg</span><span class="p">);</span></span>
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<pre style="margin: 0;">-<span id="LC358" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="o" style="font-weight: 600;">!</span><span class="n" style="color: #333;">bwg</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">cl</span><span class="p">)</span> <span class="k" style="font-weight: 600;">goto</span> <span class="n" style="color: #333;">error</span><span class="p">;</span></span>
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<pre style="margin: 0;">+<span id="LC368" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="o" style="font-weight: 600;">!</span><span class="n" style="color: #333;">bwg</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">cl</span><span class="p">)</span> <span class="p">{</span></span>
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369
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<pre style="margin: 0;">+<span id="LC369" class="line" lang="c"> <span class="n" style="color: #333;">fprintf</span><span class="p">(</span><span class="n" style="color: #333;">stderr</span><span class="p">,</span> <span class="s" style="color: #d14;">"[bwOpen] bwg->cl is NULL (%s)!</span><span class="se" style="color: #d14;">\n</span><span class="s" style="color: #d14;">"</span><span class="p">,</span> <span class="n" style="color: #333;">fname</span><span class="p">);</span></span>
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370
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<pre style="margin: 0;">+<span id="LC370" class="line" lang="c"> <span class="k" style="font-weight: 600;">goto</span> <span class="n" style="color: #333;">error</span><span class="p">;</span></span>
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371
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<pre style="margin: 0;">+<span id="LC371" class="line" lang="c"> <span class="p">}</span></span>
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359
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372
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<pre style="margin: 0;"> <span id="LC372" class="line" lang="c"></span>
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360
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<td class="diff-line-num new_line" data-linenumber="373" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
373
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<pre style="margin: 0;"> <span id="LC373" class="line" lang="c"> <span class="c1" style="color: #998; font-style: italic;">//Read in the index</span></span>
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361
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<pre style="margin: 0;">-<span id="LC361" class="line" lang="c"> <span class="n" style="color: #333;">bwg</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">idx</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">bwReadIndex</span><span class="p">(</span><span class="n" style="color: #333;">bwg</span><span class="p">,</span> <span class="mi" style="color: #099;">0</span><span class="p">);</span></span>
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362
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<td class="diff-line-num new_line old" data-linenumber="374" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC362" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="o" style="font-weight: 600;">!</span><span class="n" style="color: #333;">bwg</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">idx</span><span class="p">)</span> <span class="k" style="font-weight: 600;">goto</span> <span class="n" style="color: #333;">error</span><span class="p">;</span></span>
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363
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<pre style="margin: 0;">-<span id="LC363" class="line" lang="c"></span>
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374
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<pre style="margin: 0;">+<span id="LC374" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">bwg</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">hdr</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">nBasesCovered</span><span class="p">)</span> <span class="p">{</span></span>
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375
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<pre style="margin: 0;">+<span id="LC375" class="line" lang="c"> <span class="n" style="color: #333;">bwg</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">idx</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">bwReadIndex</span><span class="p">(</span><span class="n" style="color: #333;">bwg</span><span class="p">,</span> <span class="mi" style="color: #099;">0</span><span class="p">);</span></span>
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<td class="diff-line-num new new_line" data-linenumber="376" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
376
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<pre style="margin: 0;">+<span id="LC376" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="o" style="font-weight: 600;">!</span><span class="n" style="color: #333;">bwg</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">idx</span><span class="p">)</span> <span class="p">{</span></span>
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<td class="diff-line-num new new_line" data-linenumber="377" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
377
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<pre style="margin: 0;">+<span id="LC377" class="line" lang="c"> <span class="n" style="color: #333;">fprintf</span><span class="p">(</span><span class="n" style="color: #333;">stderr</span><span class="p">,</span> <span class="s" style="color: #d14;">"[bwOpen] bwg->idx is NULL bwg->hdr->dataOffset 0x%"</span><span class="n" style="color: #333;">PRIx64</span><span class="s" style="color: #d14;">"!</span><span class="se" style="color: #d14;">\n</span><span class="s" style="color: #d14;">"</span><span class="p">,</span> <span class="n" style="color: #333;">bwg</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">hdr</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">dataOffset</span><span class="p">);</span></span>
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378
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<pre style="margin: 0;">+<span id="LC378" class="line" lang="c"> <span class="k" style="font-weight: 600;">goto</span> <span class="n" style="color: #333;">error</span><span class="p">;</span></span>
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379
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<pre style="margin: 0;">+<span id="LC379" class="line" lang="c"> <span class="p">}</span></span>
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380
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<pre style="margin: 0;">+<span id="LC380" class="line" lang="c"> <span class="p">}</span></span>
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364
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381
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<pre style="margin: 0;"> <span id="LC381" class="line" lang="c"> <span class="p">}</span> <span class="k" style="font-weight: 600;">else</span> <span class="p">{</span></span>
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365
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382
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<pre style="margin: 0;"> <span id="LC382" class="line" lang="c"> <span class="n" style="color: #333;">bwg</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">isWrite</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">1</span><span class="p">;</span></span>
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366
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383
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<pre style="margin: 0;"> <span id="LC383" class="line" lang="c"> <span class="n" style="color: #333;">bwg</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">URL</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">urlOpen</span><span class="p">(</span><span class="n" style="color: #333;">fname</span><span class="p">,</span> <span class="nb" style="color: #0086b3;">NULL</span><span class="p">,</span> <span class="s" style="color: #d14;">"w+"</span><span class="p">);</span></span>
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<li id="3c0afdf2c392f701b9a7eec716c860fc3a14566a">
<a href="https://salsa.debian.org/med-team/pybigwig/commit/7a3cc3ffe926943e0b3385270e067db9ef3f3967#3c0afdf2c392f701b9a7eec716c860fc3a14566a"><strong>libBigWig/bwStats.c</strong></a>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="92" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="92" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -92,6 +92,7 @@ static struct vals_t *getVals(bigWigFile_t *fp, bwOverlapBlock_t *o, int i, uint</td>
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92
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92
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<pre style="margin: 0;"> <span id="LC92" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">rv</span> <span class="o" style="font-weight: 600;">!=</span> <span class="n" style="color: #333;">Z_OK</span><span class="p">)</span> <span class="k" style="font-weight: 600;">goto</span> <span class="n" style="color: #333;">error</span><span class="p">;</span></span>
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<pre style="margin: 0;"> <span id="LC93" class="line" lang="c"> <span class="p">}</span> <span class="k" style="font-weight: 600;">else</span> <span class="p">{</span></span>
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<pre style="margin: 0;"> <span id="LC94" class="line" lang="c"> <span class="n" style="color: #333;">buf</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">compBuf</span><span class="p">;</span></span>
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<pre style="margin: 0;">+<span id="LC95" class="line" lang="c"> <span class="n" style="color: #333;">sz</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">o</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">size</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">];</span></span>
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<pre style="margin: 0;"> <span id="LC96" class="line" lang="c"> <span class="p">}</span></span>
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<pre style="margin: 0;"> <span id="LC97" class="line" lang="c"></span>
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98
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<pre style="margin: 0;"> <span id="LC98" class="line" lang="c"> <span class="n" style="color: #333;">p</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">buf</span><span class="p">;</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -123,12 +124,12 @@ static struct vals_t *getVals(bigWigFile_t *fp, bwOverlapBlock_t *o, int i, uint</td>
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124
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<pre style="margin: 0;"> <span id="LC124" class="line" lang="c"></span>
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<pre style="margin: 0;"> <span id="LC125" class="line" lang="c"> <span class="n" style="color: #333;">free</span><span class="p">(</span><span class="n" style="color: #333;">v</span><span class="p">);</span></span>
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126
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<pre style="margin: 0;"> <span id="LC126" class="line" lang="c"> <span class="n" style="color: #333;">free</span><span class="p">(</span><span class="n" style="color: #333;">buf</span><span class="p">);</span></span>
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<pre style="margin: 0;">-<span id="LC126" class="line" lang="c"> <span class="n" style="color: #333;">free</span><span class="p">(</span><span class="n" style="color: #333;">compBuf</span><span class="p">);</span></span>
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<pre style="margin: 0;">+<span id="LC127" class="line" lang="c"> <span class="k" style="font-weight: 600;"><span class="idiff left">if</span></span><span class="p"><span class="idiff">(</span></span><span class="n" style="color: #333;"><span class="idiff">compressed</span></span><span class="p"><span class="idiff">)</span></span><span class="idiff right"> </span><span class="n" style="color: #333;">free</span><span class="p">(</span><span class="n" style="color: #333;">compBuf</span><span class="p">);</span></span>
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<pre style="margin: 0;"> <span id="LC128" class="line" lang="c"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">vals</span><span class="p">;</span></span>
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<pre style="margin: 0;"> <span id="LC129" class="line" lang="c"></span>
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130
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<pre style="margin: 0;"> <span id="LC130" class="line" lang="c"><span class="nl">error:</span></span>
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130
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<pre style="margin: 0;"> <span id="LC131" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">buf</span><span class="p">)</span> <span class="n" style="color: #333;">free</span><span class="p">(</span><span class="n" style="color: #333;">buf</span><span class="p">);</span></span>
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<pre style="margin: 0;">-<span id="LC131" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">compBuf</span><span class="p">)</span> <span class="n" style="color: #333;">free</span><span class="p">(</span><span class="n" style="color: #333;">compBuf</span><span class="p">);</span></span>
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<pre style="margin: 0;">+<span id="LC132" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">compBuf</span><span class="idiff left"> </span><span class="o" style="font-weight: 600;"><span class="idiff">&&</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff right">compressed</span></span><span class="p">)</span> <span class="n" style="color: #333;">free</span><span class="p">(</span><span class="n" style="color: #333;">compBuf</span><span class="p">);</span></span>
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132
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<pre style="margin: 0;"> <span id="LC133" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">v</span><span class="p">)</span> <span class="n" style="color: #333;">free</span><span class="p">(</span><span class="n" style="color: #333;">v</span><span class="p">);</span></span>
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133
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<pre style="margin: 0;"> <span id="LC134" class="line" lang="c"> <span class="n" style="color: #333;">destroyVals_t</span><span class="p">(</span><span class="n" style="color: #333;">vals</span><span class="p">);</span></span>
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<pre style="margin: 0;"> <span id="LC135" class="line" lang="c"> <span class="k" style="font-weight: 600;">return</span> <span class="nb" style="color: #0086b3;">NULL</span><span class="p">;</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -372,6 +373,52 @@ static double intCoverage(bwOverlappingIntervals_t* ints, uint32_t start, uint32</td>
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<pre style="margin: 0;"> <span id="LC373" class="line" lang="c"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">o</span><span class="o" style="font-weight: 600;">/</span><span class="p">(</span><span class="n" style="color: #333;">end</span><span class="o" style="font-weight: 600;">-</span><span class="n" style="color: #333;">start</span><span class="p">);</span></span>
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373
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374
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<pre style="margin: 0;"> <span id="LC374" class="line" lang="c"><span class="p">}</span></span>
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374
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375
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<pre style="margin: 0;"> <span id="LC375" class="line" lang="c"></span>
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376
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<pre style="margin: 0;">+<span id="LC376" class="line" lang="c"><span class="k" style="font-weight: 600;">static</span> <span class="kt" style="color: #458; font-weight: 600;">double</span> <span class="nf" style="color: #900; font-weight: 600;">blockSum</span><span class="p">(</span><span class="n" style="color: #333;">bigWigFile_t</span> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">fp</span><span class="p">,</span> <span class="n" style="color: #333;">bwOverlapBlock_t</span> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">blocks</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">uint32_t</span> <span class="n" style="color: #333;">tid</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">uint32_t</span> <span class="n" style="color: #333;">start</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">uint32_t</span> <span class="n" style="color: #333;">end</span><span class="p">)</span> <span class="p">{</span></span>
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377
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<pre style="margin: 0;">+<span id="LC377" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">uint32_t</span> <span class="n" style="color: #333;">i</span><span class="p">,</span> <span class="n" style="color: #333;">j</span><span class="p">,</span> <span class="n" style="color: #333;">sizeUse</span><span class="p">;</span></span>
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378
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<pre style="margin: 0;">+<span id="LC378" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">double</span> <span class="n" style="color: #333;">o</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">0</span><span class="p">.</span><span class="mi" style="color: #099;">0</span><span class="p">;</span></span>
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379
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<pre style="margin: 0;">+<span id="LC379" class="line" lang="c"> <span class="k" style="font-weight: 600;">struct</span> <span class="n" style="color: #333;">vals_t</span> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">v</span> <span class="o" style="font-weight: 600;">=</span> <span class="nb" style="color: #0086b3;">NULL</span><span class="p">;</span></span>
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380
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<pre style="margin: 0;">+<span id="LC380" class="line" lang="c"></span>
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381
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<pre style="margin: 0;">+<span id="LC381" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="o" style="font-weight: 600;">!</span><span class="n" style="color: #333;">blocks</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">n</span><span class="p">)</span> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">strtod</span><span class="p">(</span><span class="s" style="color: #d14;">"NaN"</span><span class="p">,</span> <span class="nb" style="color: #0086b3;">NULL</span><span class="p">);</span></span>
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382
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<pre style="margin: 0;">+<span id="LC382" class="line" lang="c"></span>
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383
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<pre style="margin: 0;">+<span id="LC383" class="line" lang="c"> <span class="c1" style="color: #998; font-style: italic;">//Iterate over the blocks</span></span>
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384
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<pre style="margin: 0;">+<span id="LC384" class="line" lang="c"> <span class="k" style="font-weight: 600;">for</span><span class="p">(</span><span class="n" style="color: #333;">i</span><span class="o" style="font-weight: 600;">=</span><span class="mi" style="color: #099;">0</span><span class="p">;</span> <span class="n" style="color: #333;">i</span><span class="o" style="font-weight: 600;"><</span><span class="n" style="color: #333;">blocks</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">n</span><span class="p">;</span> <span class="n" style="color: #333;">i</span><span class="o" style="font-weight: 600;">++</span><span class="p">)</span> <span class="p">{</span></span>
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385
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<pre style="margin: 0;">+<span id="LC385" class="line" lang="c"> <span class="n" style="color: #333;">v</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">getVals</span><span class="p">(</span><span class="n" style="color: #333;">fp</span><span class="p">,</span> <span class="n" style="color: #333;">blocks</span><span class="p">,</span> <span class="n" style="color: #333;">i</span><span class="p">,</span> <span class="n" style="color: #333;">tid</span><span class="p">,</span> <span class="n" style="color: #333;">start</span><span class="p">,</span> <span class="n" style="color: #333;">end</span><span class="p">);</span></span>
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386
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<pre style="margin: 0;">+<span id="LC386" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="o" style="font-weight: 600;">!</span><span class="n" style="color: #333;">v</span><span class="p">)</span> <span class="k" style="font-weight: 600;">goto</span> <span class="n" style="color: #333;">error</span><span class="p">;</span></span>
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387
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<pre style="margin: 0;">+<span id="LC387" class="line" lang="c"> <span class="k" style="font-weight: 600;">for</span><span class="p">(</span><span class="n" style="color: #333;">j</span><span class="o" style="font-weight: 600;">=</span><span class="mi" style="color: #099;">0</span><span class="p">;</span> <span class="n" style="color: #333;">j</span><span class="o" style="font-weight: 600;"><</span><span class="n" style="color: #333;">v</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">n</span><span class="p">;</span> <span class="n" style="color: #333;">j</span><span class="o" style="font-weight: 600;">++</span><span class="p">)</span> <span class="p">{</span></span>
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388
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<pre style="margin: 0;">+<span id="LC388" class="line" lang="c"> <span class="c1" style="color: #998; font-style: italic;">//Multiply the block average by min(bases covered, block overlap with interval)</span></span>
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389
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<pre style="margin: 0;">+<span id="LC389" class="line" lang="c"> <span class="n" style="color: #333;">sizeUse</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">v</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">vals</span><span class="p">[</span><span class="n" style="color: #333;">j</span><span class="p">]</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">scalar</span><span class="p">;</span></span>
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390
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<pre style="margin: 0;">+<span id="LC390" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">sizeUse</span> <span class="o" style="font-weight: 600;">></span> <span class="n" style="color: #333;">v</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">vals</span><span class="p">[</span><span class="n" style="color: #333;">j</span><span class="p">]</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">nBases</span><span class="p">)</span> <span class="n" style="color: #333;">sizeUse</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">v</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">vals</span><span class="p">[</span><span class="n" style="color: #333;">j</span><span class="p">]</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">nBases</span><span class="p">;</span></span>
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391
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<pre style="margin: 0;">+<span id="LC391" class="line" lang="c"> <span class="n" style="color: #333;">o</span><span class="o" style="font-weight: 600;">+=</span> <span class="p">(</span><span class="n" style="color: #333;">v</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">vals</span><span class="p">[</span><span class="n" style="color: #333;">j</span><span class="p">]</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">sum</span> <span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">sizeUse</span><span class="p">)</span> <span class="o" style="font-weight: 600;">/</span> <span class="n" style="color: #333;">v</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">vals</span><span class="p">[</span><span class="n" style="color: #333;">j</span><span class="p">]</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">nBases</span><span class="p">;</span></span>
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392
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<pre style="margin: 0;">+<span id="LC392" class="line" lang="c"> <span class="p">}</span></span>
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393
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<pre style="margin: 0;">+<span id="LC393" class="line" lang="c"> <span class="n" style="color: #333;">destroyVals_t</span><span class="p">(</span><span class="n" style="color: #333;">v</span><span class="p">);</span></span>
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394
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<pre style="margin: 0;">+<span id="LC394" class="line" lang="c"> <span class="p">}</span></span>
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395
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<pre style="margin: 0;">+<span id="LC395" class="line" lang="c"></span>
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<td class="diff-line-num new new_line" data-linenumber="396" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
396
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<pre style="margin: 0;">+<span id="LC396" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">o</span> <span class="o" style="font-weight: 600;">==</span> <span class="mi" style="color: #099;">0</span><span class="p">.</span><span class="mi" style="color: #099;">0</span><span class="p">)</span> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">strtod</span><span class="p">(</span><span class="s" style="color: #d14;">"NaN"</span><span class="p">,</span> <span class="nb" style="color: #0086b3;">NULL</span><span class="p">);</span></span>
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<td class="diff-line-num new new_line" data-linenumber="397" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
397
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<pre style="margin: 0;">+<span id="LC397" class="line" lang="c"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">o</span><span class="p">;</span></span>
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398
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<pre style="margin: 0;">+<span id="LC398" class="line" lang="c"></span>
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399
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<pre style="margin: 0;">+<span id="LC399" class="line" lang="c"><span class="nl">error:</span></span>
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400
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<pre style="margin: 0;">+<span id="LC400" class="line" lang="c"> <span class="n" style="color: #333;">destroyVals_t</span><span class="p">(</span><span class="n" style="color: #333;">v</span><span class="p">);</span></span>
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<td class="diff-line-num new new_line" data-linenumber="401" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
401
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<pre style="margin: 0;">+<span id="LC401" class="line" lang="c"> <span class="n" style="color: #333;">errno</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">ENOMEM</span><span class="p">;</span></span>
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402
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<pre style="margin: 0;">+<span id="LC402" class="line" lang="c"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">strtod</span><span class="p">(</span><span class="s" style="color: #d14;">"NaN"</span><span class="p">,</span> <span class="nb" style="color: #0086b3;">NULL</span><span class="p">);</span></span>
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403
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<pre style="margin: 0;">+<span id="LC403" class="line" lang="c"><span class="p">}</span></span>
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404
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<pre style="margin: 0;">+<span id="LC404" class="line" lang="c"></span>
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405
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<pre style="margin: 0;">+<span id="LC405" class="line" lang="c"><span class="k" style="font-weight: 600;">static</span> <span class="kt" style="color: #458; font-weight: 600;">double</span> <span class="nf" style="color: #900; font-weight: 600;">intSum</span><span class="p">(</span><span class="n" style="color: #333;">bwOverlappingIntervals_t</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">ints</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">uint32_t</span> <span class="n" style="color: #333;">start</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">uint32_t</span> <span class="n" style="color: #333;">end</span><span class="p">)</span> <span class="p">{</span></span>
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<td class="diff-line-num new new_line" data-linenumber="406" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
406
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<pre style="margin: 0;">+<span id="LC406" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">uint32_t</span> <span class="n" style="color: #333;">i</span><span class="p">,</span> <span class="n" style="color: #333;">start_use</span><span class="p">,</span> <span class="n" style="color: #333;">end_use</span><span class="p">;</span></span>
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407
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<pre style="margin: 0;">+<span id="LC407" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">double</span> <span class="n" style="color: #333;">o</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">0</span><span class="p">.</span><span class="mi" style="color: #099;">0</span><span class="p">;</span></span>
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408
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<pre style="margin: 0;">+<span id="LC408" class="line" lang="c"></span>
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<td class="diff-line-num new new_line" data-linenumber="409" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
409
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<pre style="margin: 0;">+<span id="LC409" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="o" style="font-weight: 600;">!</span><span class="n" style="color: #333;">ints</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">l</span><span class="p">)</span> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">strtod</span><span class="p">(</span><span class="s" style="color: #d14;">"NaN"</span><span class="p">,</span> <span class="nb" style="color: #0086b3;">NULL</span><span class="p">);</span></span>
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410
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<pre style="margin: 0;">+<span id="LC410" class="line" lang="c"></span>
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<td class="diff-line-num new new_line" data-linenumber="411" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
411
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<pre style="margin: 0;">+<span id="LC411" class="line" lang="c"> <span class="k" style="font-weight: 600;">for</span><span class="p">(</span><span class="n" style="color: #333;">i</span><span class="o" style="font-weight: 600;">=</span><span class="mi" style="color: #099;">0</span><span class="p">;</span> <span class="n" style="color: #333;">i</span><span class="o" style="font-weight: 600;"><</span><span class="n" style="color: #333;">ints</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">l</span><span class="p">;</span> <span class="n" style="color: #333;">i</span><span class="o" style="font-weight: 600;">++</span><span class="p">)</span> <span class="p">{</span></span>
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<pre style="margin: 0;">+<span id="LC412" class="line" lang="c"> <span class="n" style="color: #333;">start_use</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">ints</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">start</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">];</span></span>
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<pre style="margin: 0;">+<span id="LC413" class="line" lang="c"> <span class="n" style="color: #333;">end_use</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">ints</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">end</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">];</span></span>
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414
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<pre style="margin: 0;">+<span id="LC414" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">start_use</span> <span class="o" style="font-weight: 600;"><</span> <span class="n" style="color: #333;">start</span><span class="p">)</span> <span class="n" style="color: #333;">start_use</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">start</span><span class="p">;</span></span>
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415
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<pre style="margin: 0;">+<span id="LC415" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">end_use</span> <span class="o" style="font-weight: 600;">></span> <span class="n" style="color: #333;">end</span><span class="p">)</span> <span class="n" style="color: #333;">end_use</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">end</span><span class="p">;</span></span>
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<pre style="margin: 0;">+<span id="LC416" class="line" lang="c"> <span class="n" style="color: #333;">o</span> <span class="o" style="font-weight: 600;">+=</span> <span class="p">(</span><span class="n" style="color: #333;">end_use</span> <span class="o" style="font-weight: 600;">-</span> <span class="n" style="color: #333;">start_use</span><span class="p">)</span> <span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">ints</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">value</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">];</span></span>
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<pre style="margin: 0;">+<span id="LC417" class="line" lang="c"> <span class="p">}</span></span>
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<pre style="margin: 0;">+<span id="LC418" class="line" lang="c"></span>
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<pre style="margin: 0;">+<span id="LC419" class="line" lang="c"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">o</span><span class="p">;</span></span>
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<pre style="margin: 0;">+<span id="LC420" class="line" lang="c"><span class="p">}</span></span>
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<pre style="margin: 0;">+<span id="LC421" class="line" lang="c"></span>
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<pre style="margin: 0;"> <span id="LC422" class="line" lang="c"><span class="c1" style="color: #998; font-style: italic;">//Returns NULL on error, otherwise a double* that needs to be free()d</span></span>
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<pre style="margin: 0;"> <span id="LC423" class="line" lang="c"><span class="kt" style="color: #458; font-weight: 600;">double</span> <span class="o" style="font-weight: 600;">*</span><span class="nf" style="color: #900; font-weight: 600;">bwStatsFromZoom</span><span class="p">(</span><span class="n" style="color: #333;">bigWigFile_t</span> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">fp</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">int32_t</span> <span class="n" style="color: #333;">level</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">uint32_t</span> <span class="n" style="color: #333;">tid</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">uint32_t</span> <span class="n" style="color: #333;">start</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">uint32_t</span> <span class="n" style="color: #333;">end</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">uint32_t</span> <span class="n" style="color: #333;">nBins</span><span class="p">,</span> <span class="k" style="font-weight: 600;">enum</span> <span class="n" style="color: #333;">bwStatsType</span> <span class="n" style="color: #333;">type</span><span class="p">)</span> <span class="p">{</span></span>
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<pre style="margin: 0;"> <span id="LC424" class="line" lang="c"> <span class="n" style="color: #333;">bwOverlapBlock_t</span> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">blocks</span> <span class="o" style="font-weight: 600;">=</span> <span class="nb" style="color: #0086b3;">NULL</span><span class="p">;</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="382" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="429" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -382,6 +429,7 @@ double *bwStatsFromZoom(bigWigFile_t *fp, int32_t level, uint32_t tid, uint32_t </td>
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382
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<pre style="margin: 0;"> <span id="LC429" class="line" lang="c"> <span class="n" style="color: #333;">fp</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">hdr</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">zoomHdrs</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">idx</span><span class="p">[</span><span class="n" style="color: #333;">level</span><span class="p">]</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">bwReadIndex</span><span class="p">(</span><span class="n" style="color: #333;">fp</span><span class="p">,</span> <span class="n" style="color: #333;">fp</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">hdr</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">zoomHdrs</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">indexOffset</span><span class="p">[</span><span class="n" style="color: #333;">level</span><span class="p">]);</span></span>
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383
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<pre style="margin: 0;"> <span id="LC430" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="o" style="font-weight: 600;">!</span><span class="n" style="color: #333;">fp</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">hdr</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">zoomHdrs</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">idx</span><span class="p">[</span><span class="n" style="color: #333;">level</span><span class="p">])</span> <span class="k" style="font-weight: 600;">return</span> <span class="nb" style="color: #0086b3;">NULL</span><span class="p">;</span></span>
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<pre style="margin: 0;"> <span id="LC431" class="line" lang="c"> <span class="p">}</span></span>
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<pre style="margin: 0;">+<span id="LC432" class="line" lang="c"> <span class="n" style="color: #333;">errno</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">0</span><span class="p">;</span> <span class="c1" style="color: #998; font-style: italic;">//Sometimes libCurls sets and then doesn't unset errno on errors</span></span>
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<pre style="margin: 0;"> <span id="LC433" class="line" lang="c"></span>
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<pre style="margin: 0;"> <span id="LC434" class="line" lang="c"> <span class="n" style="color: #333;">output</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">malloc</span><span class="p">(</span><span class="k" style="font-weight: 600;">sizeof</span><span class="p">(</span><span class="kt" style="color: #458; font-weight: 600;">double</span><span class="p">)</span><span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">nBins</span><span class="p">);</span></span>
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387
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<td class="diff-line-num new_line" data-linenumber="435" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
435
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<pre style="margin: 0;"> <span id="LC435" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="o" style="font-weight: 600;">!</span><span class="n" style="color: #333;">output</span><span class="p">)</span> <span class="k" style="font-weight: 600;">return</span> <span class="nb" style="color: #0086b3;">NULL</span><span class="p">;</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="412" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="460" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -412,6 +460,10 @@ double *bwStatsFromZoom(bigWigFile_t *fp, int32_t level, uint32_t tid, uint32_t </td>
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412
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460
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<pre style="margin: 0;"> <span id="LC460" class="line" lang="c"> <span class="c1" style="color: #998; font-style: italic;">//cov</span></span>
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<td class="diff-line-num old_line" data-linenumber="413" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
413
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461
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<pre style="margin: 0;"> <span id="LC461" class="line" lang="c"> <span class="n" style="color: #333;">output</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">]</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">blockCoverage</span><span class="p">(</span><span class="n" style="color: #333;">fp</span><span class="p">,</span> <span class="n" style="color: #333;">blocks</span><span class="p">,</span> <span class="n" style="color: #333;">tid</span><span class="p">,</span> <span class="n" style="color: #333;">pos</span><span class="p">,</span> <span class="n" style="color: #333;">end2</span><span class="p">)</span><span class="o" style="font-weight: 600;">/</span><span class="p">(</span><span class="n" style="color: #333;">end2</span><span class="o" style="font-weight: 600;">-</span><span class="n" style="color: #333;">pos</span><span class="p">);</span></span>
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414
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462
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<pre style="margin: 0;"> <span id="LC462" class="line" lang="c"> <span class="k" style="font-weight: 600;">break</span><span class="p">;</span></span>
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463
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<pre style="margin: 0;">+<span id="LC463" class="line" lang="c"> <span class="k" style="font-weight: 600;">case</span> <span class="mi" style="color: #099;">5</span><span class="p">:</span></span>
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<td class="diff-line-num new new_line" data-linenumber="464" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
464
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<pre style="margin: 0;">+<span id="LC464" class="line" lang="c"> <span class="c1" style="color: #998; font-style: italic;">//sum</span></span>
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465
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<pre style="margin: 0;">+<span id="LC465" class="line" lang="c"> <span class="n" style="color: #333;">output</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">]</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">blockSum</span><span class="p">(</span><span class="n" style="color: #333;">fp</span><span class="p">,</span> <span class="n" style="color: #333;">blocks</span><span class="p">,</span> <span class="n" style="color: #333;">tid</span><span class="p">,</span> <span class="n" style="color: #333;">pos</span><span class="p">,</span> <span class="n" style="color: #333;">end2</span><span class="p">);</span></span>
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466
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<pre style="margin: 0;">+<span id="LC466" class="line" lang="c"> <span class="k" style="font-weight: 600;">break</span><span class="p">;</span></span>
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415
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467
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<pre style="margin: 0;"> <span id="LC467" class="line" lang="c"> <span class="nl">default:</span></span>
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416
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468
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<pre style="margin: 0;"> <span id="LC468" class="line" lang="c"> <span class="k" style="font-weight: 600;">goto</span> <span class="n" style="color: #333;">error</span><span class="p">;</span></span>
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417
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469
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<pre style="margin: 0;"> <span id="LC469" class="line" lang="c"> <span class="k" style="font-weight: 600;">break</span><span class="p">;</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="462" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="514" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -462,6 +514,9 @@ double *bwStatsFromFull(bigWigFile_t *fp, char *chrom, uint32_t start, uint32_t </td>
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462
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514
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<pre style="margin: 0;"> <span id="LC514" class="line" lang="c"> <span class="k" style="font-weight: 600;">case</span> <span class="mi" style="color: #099;">4</span><span class="p">:</span></span>
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463
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<td class="diff-line-num new_line" data-linenumber="515" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
515
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<pre style="margin: 0;"> <span id="LC515" class="line" lang="c"> <span class="n" style="color: #333;">output</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">]</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">intCoverage</span><span class="p">(</span><span class="n" style="color: #333;">ints</span><span class="p">,</span> <span class="n" style="color: #333;">pos</span><span class="p">,</span> <span class="n" style="color: #333;">end2</span><span class="p">);</span></span>
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464
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516
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<pre style="margin: 0;"> <span id="LC516" class="line" lang="c"> <span class="k" style="font-weight: 600;">break</span><span class="p">;</span></span>
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517
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<pre style="margin: 0;">+<span id="LC517" class="line" lang="c"> <span class="k" style="font-weight: 600;">case</span> <span class="mi" style="color: #099;">5</span><span class="p">:</span></span>
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518
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<pre style="margin: 0;">+<span id="LC518" class="line" lang="c"> <span class="n" style="color: #333;">output</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">]</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">intSum</span><span class="p">(</span><span class="n" style="color: #333;">ints</span><span class="p">,</span> <span class="n" style="color: #333;">pos</span><span class="p">,</span> <span class="n" style="color: #333;">end2</span><span class="p">);</span></span>
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519
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<pre style="margin: 0;">+<span id="LC519" class="line" lang="c"> <span class="k" style="font-weight: 600;">break</span><span class="p">;</span></span>
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465
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520
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<pre style="margin: 0;"> <span id="LC520" class="line" lang="c"> <span class="p">}</span></span>
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466
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521
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<pre style="margin: 0;"> <span id="LC521" class="line" lang="c"> <span class="n" style="color: #333;">bwDestroyOverlappingIntervals</span><span class="p">(</span><span class="n" style="color: #333;">ints</span><span class="p">);</span></span>
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467
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522
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<pre style="margin: 0;"> <span id="LC522" class="line" lang="c"> <span class="n" style="color: #333;">pos</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">end2</span><span class="p">;</span></span>
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<a href="https://salsa.debian.org/med-team/pybigwig/commit/7a3cc3ffe926943e0b3385270e067db9ef3f3967#1d0056378b29bb44b67ff475272d0f77b9d2030f"><strong>libBigWig/bwValues.c</strong></a>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -3,6 +3,7 @@</td>
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3
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3
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<pre style="margin: 0;"> <span id="LC3" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#include <stdlib.h></span></span>
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4
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4
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<pre style="margin: 0;"> <span id="LC4" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#include <string.h></span></span>
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5
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5
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<pre style="margin: 0;"> <span id="LC5" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#include <zlib.h></span></span>
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6
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<pre style="margin: 0;">+<span id="LC6" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#include <errno.h></span></span>
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6
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7
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<pre style="margin: 0;"> <span id="LC7" class="line" lang="c"></span>
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7
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8
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<pre style="margin: 0;"> <span id="LC8" class="line" lang="c"><span class="k" style="font-weight: 600;">static</span> <span class="kt" style="color: #458; font-weight: 600;">uint32_t</span> <span class="nf" style="color: #900; font-weight: 600;">roundup</span><span class="p">(</span><span class="kt" style="color: #458; font-weight: 600;">uint32_t</span> <span class="n" style="color: #333;">v</span><span class="p">)</span> <span class="p">{</span></span>
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8
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9
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<pre style="margin: 0;"> <span id="LC9" class="line" lang="c"> <span class="n" style="color: #333;">v</span><span class="o" style="font-weight: 600;">--</span><span class="p">;</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -47,6 +48,9 @@ static bwRTree_t *readRTreeIdx(bigWigFile_t *fp, uint64_t offset) {</td>
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47
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48
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<pre style="margin: 0;"> <span id="LC48" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">bwRead</span><span class="p">(</span><span class="o" style="font-weight: 600;">&</span><span class="p">(</span><span class="n" style="color: #333;">node</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">blockSize</span><span class="p">),</span> <span class="k" style="font-weight: 600;">sizeof</span><span class="p">(</span><span class="kt" style="color: #458; font-weight: 600;">uint32_t</span><span class="p">),</span> <span class="mi" style="color: #099;">1</span><span class="p">,</span> <span class="n" style="color: #333;">fp</span><span class="p">)</span> <span class="o" style="font-weight: 600;">!=</span> <span class="mi" style="color: #099;">1</span><span class="p">)</span> <span class="k" style="font-weight: 600;">goto</span> <span class="n" style="color: #333;">error</span><span class="p">;</span></span>
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48
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49
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<pre style="margin: 0;"> <span id="LC49" class="line" lang="c"> <span class="n" style="color: #333;">node</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">rootOffset</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">bwTell</span><span class="p">(</span><span class="n" style="color: #333;">fp</span><span class="p">);</span></span>
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50
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<pre style="margin: 0;"> <span id="LC50" class="line" lang="c"></span>
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<pre style="margin: 0;">+<span id="LC51" class="line" lang="c"> <span class="c1" style="color: #998; font-style: italic;">//For remote files, libCurl sometimes sets errno to 115 and doesn't clear it</span></span>
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<pre style="margin: 0;">+<span id="LC52" class="line" lang="c"> <span class="n" style="color: #333;">errno</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">0</span><span class="p">;</span></span>
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<pre style="margin: 0;">+<span id="LC53" class="line" lang="c"></span>
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<pre style="margin: 0;"> <span id="LC54" class="line" lang="c"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">node</span><span class="p">;</span></span>
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55
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<pre style="margin: 0;"> <span id="LC55" class="line" lang="c"></span>
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<pre style="margin: 0;"> <span id="LC56" class="line" lang="c"><span class="nl">error:</span></span>
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<li id="81e35049bd3485b58bc19aed87d3e8bf29bbf3bb">
<a href="https://salsa.debian.org/med-team/pybigwig/commit/7a3cc3ffe926943e0b3385270e067db9ef3f3967#81e35049bd3485b58bc19aed87d3e8bf29bbf3bb"><strong>libBigWig/bwWrite.c</strong></a>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -90,19 +90,25 @@ static int writeAtPos(void *ptr, size_t sz, size_t nmemb, size_t pos, FILE *fp) </td>
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90
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<pre style="margin: 0;"> <span id="LC90" class="line" lang="c"> <span class="k" style="font-weight: 600;">return</span> <span class="mi" style="color: #099;">0</span><span class="p">;</span></span>
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<pre style="margin: 0;"> <span id="LC91" class="line" lang="c"><span class="p">}</span></span>
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<pre style="margin: 0;"> <span id="LC92" class="line" lang="c"></span>
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<pre style="margin: 0;">-<span id="LC93" class="line" lang="c"><span class="c1" style="color: #998; font-style: italic;">//Are nblocks and nperblock correct?</span></span>
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<pre style="margin: 0;"> <span id="LC93" class="line" lang="c"><span class="c1" style="color: #998; font-style: italic;">//We lose keySize bytes on error</span></span>
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<pre style="margin: 0;"> <span id="LC94" class="line" lang="c"><span class="k" style="font-weight: 600;">static</span> <span class="kt" style="color: #458; font-weight: 600;">int</span> <span class="nf" style="color: #900; font-weight: 600;">writeChromList</span><span class="p">(</span><span class="kt" style="color: #458; font-weight: 600;">FILE</span> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">fp</span><span class="p">,</span> <span class="n" style="color: #333;">chromList_t</span> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">cl</span><span class="p">)</span> <span class="p">{</span></span>
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<pre style="margin: 0;"> <span id="LC95" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">uint16_t</span> <span class="n" style="color: #333;">k</span><span class="p">;</span></span>
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<pre style="margin: 0;"> <span id="LC96" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">uint32_t</span> <span class="n" style="color: #333;">j</span><span class="p">,</span> <span class="n" style="color: #333;">magic</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">CIRTREE_MAGIC</span><span class="p">;</span></span>
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<pre style="margin: 0;">-<span id="LC98" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">uint32_t</span> <span class="n" style="color: #333;">nperblock</span> <span class="o" style="font-weight: 600;">=</span> <span class="p">(</span><span class="n" style="color: #333;">cl</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">nKeys</span><span class="o" style="font-weight: 600;"><span class="idiff left">></span></span><span class="mh" style="color: #099;"><span class="idiff">0xFFFF</span></span><span class="p"><span class="idiff">)</span></span><span class="o" style="font-weight: 600;"><span class="idiff">?-</span></span><span class="mi" style="color: #099;"><span class="idiff">1</span></span><span class="o" style="font-weight: 600;"><span class="idiff">:</span></span><span class="n" style="color: #333;"><span class="idiff">cl</span></span><span class="o" style="font-weight: 600;"><span class="idiff">-></span></span><span class="n" style="color: #333;"><span class="idiff">nKeys</span></span><span class="p"><span class="idiff">;</span></span><span class="idiff"> </span><span class="c1" style="color: #998; font-style: italic;"><span class="idiff right">//Items per leaf/non-leaf</span></span></span>
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<pre style="margin: 0;">-<span id="LC99" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">uint32_t</span> <span class="n" style="color: #333;">nblocks</span><span class="idiff left"> </span><span class="o" style="font-weight: 600;"><span class="idiff">=</span></span><span class="idiff"> </span><span class="p"><span class="idiff">(</span></span><span class="n" style="color: #333;"><span class="idiff">cl</span></span><span class="o" style="font-weight: 600;"><span class="idiff">-></span></span><span class="n" style="color: #333;"><span class="idiff">nKeys</span></span><span class="o" style="font-weight: 600;"><span class="idiff">>></span></span><span class="mi" style="color: #099;"><span class="idiff">16</span></span><span class="p"><span class="idiff">)</span></span><span class="o" style="font-weight: 600;"><span class="idiff">+</span></span><span class="mi" style="color: #099;"><span class="idiff">1</span></span><span class="p"><span class="idiff">,</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">keySize</span></span><span class="idiff"> </span><span class="o" style="font-weight: 600;"><span class="idiff">=</span></span><span class="idiff"> </span><span class="mi" style="color: #099;"><span class="idiff">0</span></span><span class="p"><span class="idiff">,</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">valSize</span></span><span class="idiff"> </span><span class="o" style="font-weight: 600;"><span class="idiff">=</span></span><span class="idiff"> </span><span class="mi" style="color: #099;"><span class="idiff">8</span></span><span class="p"><span class="idiff">;</span></span><span class="idiff"> </span><span class="c1" style="color: #998; font-style: italic;"><span class="idiff right">//does the valSize even matter? I ignore it...</span></span></span>
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<pre style="margin: 0;">-<span id="LC100" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">uint64_t</span> <span class="n" style="color: #333;">i</span><span class="p">,</span> <span class="n" style="color: #333;"><span class="idiff left">written</span></span><span class="idiff"> </span><span class="o" style="font-weight: 600;"><span class="idiff">=</span></span><span class="idiff"> </span><span class="mi" style="color: #099;"><span class="idiff right">0</span></span><span class="p">;</span></span>
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<pre style="margin: 0;">+<span id="LC97" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">uint32_t</span> <span class="n" style="color: #333;">nperblock</span> <span class="o" style="font-weight: 600;">=</span> <span class="p">(</span><span class="n" style="color: #333;">cl</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">nKeys</span><span class="idiff left"> </span><span class="o" style="font-weight: 600;"><span class="idiff">></span></span><span class="idiff"> </span><span class="mh" style="color: #099;"><span class="idiff">0x7FFF</span></span><span class="p"><span class="idiff">)</span></span><span class="idiff"> </span><span class="o" style="font-weight: 600;"><span class="idiff">?</span></span><span class="idiff"> </span><span class="mh" style="color: #099;"><span class="idiff">0x7FFF</span></span><span class="idiff"> </span><span class="o" style="font-weight: 600;"><span class="idiff">:</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">cl</span></span><span class="o" style="font-weight: 600;"><span class="idiff">-></span></span><span class="n" style="color: #333;"><span class="idiff">nKeys</span></span><span class="p"><span class="idiff">;</span></span><span class="idiff"> </span><span class="c1" style="color: #998; font-style: italic;"><span class="idiff right">//Items per leaf/non-leaf, there are no unsigned ints in java :(</span></span></span>
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<pre style="margin: 0;">+<span id="LC98" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">uint32_t</span> <span class="n" style="color: #333;">nblocks</span><span class="p"><span class="idiff left">,</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">keySize</span></span><span class="idiff"> </span><span class="o" style="font-weight: 600;"><span class="idiff">=</span></span><span class="idiff"> </span><span class="mi" style="color: #099;"><span class="idiff">0</span></span><span class="p"><span class="idiff">,</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">valSize</span></span><span class="idiff"> </span><span class="o" style="font-weight: 600;"><span class="idiff">=</span></span><span class="idiff"> </span><span class="mi" style="color: #099;"><span class="idiff">8</span></span><span class="p"><span class="idiff">;</span></span><span class="idiff"> </span><span class="c1" style="color: #998; font-style: italic;"><span class="idiff right">//In theory valSize could be optimized, in practice that'd be annoying</span></span></span>
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<pre style="margin: 0;">+<span id="LC99" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">uint64_t</span> <span class="n" style="color: #333;">i</span><span class="p">,</span> <span class="n" style="color: #333;"><span class="idiff left">nonLeafEnd</span></span><span class="p"><span class="idiff">,</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">leafSize</span></span><span class="p"><span class="idiff">,</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff right">nextLeaf</span></span><span class="p">;</span></span>
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<pre style="margin: 0;"> <span id="LC100" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">uint8_t</span> <span class="n" style="color: #333;">eight</span><span class="p">;</span></span>
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<pre style="margin: 0;"> <span id="LC101" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">int64_t</span> <span class="n" style="color: #333;">i64</span><span class="p">;</span></span>
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<pre style="margin: 0;"> <span id="LC102" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">char</span> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">chrom</span><span class="p">;</span></span>
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<pre style="margin: 0;"> <span id="LC103" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">size_t</span> <span class="n" style="color: #333;">l</span><span class="p">;</span></span>
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<pre style="margin: 0;"> <span id="LC104" class="line" lang="c"></span>
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<pre style="margin: 0;">+<span id="LC105" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">cl</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">nKeys</span> <span class="o" style="font-weight: 600;">></span> <span class="mi" style="color: #099;">1073676289</span><span class="p">)</span> <span class="p">{</span></span>
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106
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<pre style="margin: 0;">+<span id="LC106" class="line" lang="c"> <span class="n" style="color: #333;">fprintf</span><span class="p">(</span><span class="n" style="color: #333;">stderr</span><span class="p">,</span> <span class="s" style="color: #d14;">"[writeChromList] Error: Currently only 1,073,676,289 contigs are supported. If you really need more then please post a request on github.</span><span class="se" style="color: #d14;">\n</span><span class="s" style="color: #d14;">"</span><span class="p">);</span></span>
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107
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<pre style="margin: 0;">+<span id="LC107" class="line" lang="c"> <span class="k" style="font-weight: 600;">return</span> <span class="mi" style="color: #099;">1</span><span class="p">;</span></span>
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108
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<pre style="margin: 0;">+<span id="LC108" class="line" lang="c"> <span class="p">}</span></span>
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109
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<pre style="margin: 0;">+<span id="LC109" class="line" lang="c"> <span class="n" style="color: #333;">nblocks</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">cl</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">nKeys</span><span class="o" style="font-weight: 600;">/</span><span class="n" style="color: #333;">nperblock</span><span class="p">;</span></span>
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<td class="diff-line-num new new_line" data-linenumber="110" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
110
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<pre style="margin: 0;">+<span id="LC110" class="line" lang="c"> <span class="n" style="color: #333;">nblocks</span> <span class="o" style="font-weight: 600;">+=</span> <span class="p">((</span><span class="n" style="color: #333;">cl</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">nKeys</span> <span class="o" style="font-weight: 600;">%</span> <span class="n" style="color: #333;">nperblock</span><span class="p">)</span> <span class="o" style="font-weight: 600;">></span> <span class="mi" style="color: #099;">0</span><span class="p">)</span><span class="o" style="font-weight: 600;">?</span><span class="mi" style="color: #099;">1</span><span class="o" style="font-weight: 600;">:</span><span class="mi" style="color: #099;">0</span><span class="p">;</span></span>
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111
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<pre style="margin: 0;">+<span id="LC111" class="line" lang="c"></span>
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106
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112
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<pre style="margin: 0;"> <span id="LC112" class="line" lang="c"> <span class="k" style="font-weight: 600;">for</span><span class="p">(</span><span class="n" style="color: #333;">i64</span><span class="o" style="font-weight: 600;">=</span><span class="mi" style="color: #099;">0</span><span class="p">;</span> <span class="n" style="color: #333;">i64</span><span class="o" style="font-weight: 600;"><</span><span class="n" style="color: #333;">cl</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">nKeys</span><span class="p">;</span> <span class="n" style="color: #333;">i64</span><span class="o" style="font-weight: 600;">++</span><span class="p">)</span> <span class="p">{</span></span>
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107
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113
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<pre style="margin: 0;"> <span id="LC113" class="line" lang="c"> <span class="n" style="color: #333;">l</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">strlen</span><span class="p">(</span><span class="n" style="color: #333;">cl</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">chrom</span><span class="p">[</span><span class="n" style="color: #333;">i64</span><span class="p">]);</span></span>
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108
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114
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<pre style="margin: 0;"> <span id="LC114" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">l</span><span class="o" style="font-weight: 600;">></span><span class="n" style="color: #333;">keySize</span><span class="p">)</span> <span class="n" style="color: #333;">keySize</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">l</span><span class="p">;</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="122" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="128" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -122,32 +128,53 @@ static int writeChromList(FILE *fp, chromList_t *cl) {</td>
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122
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128
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<pre style="margin: 0;"> <span id="LC128" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">fwrite</span><span class="p">(</span><span class="o" style="font-weight: 600;">&</span><span class="n" style="color: #333;">i</span><span class="p">,</span> <span class="k" style="font-weight: 600;">sizeof</span><span class="p">(</span><span class="kt" style="color: #458; font-weight: 600;">uint64_t</span><span class="p">),</span> <span class="mi" style="color: #099;">1</span><span class="p">,</span> <span class="n" style="color: #333;">fp</span><span class="p">)</span> <span class="o" style="font-weight: 600;">!=</span> <span class="mi" style="color: #099;">1</span><span class="p">)</span> <span class="k" style="font-weight: 600;">return</span> <span class="mi" style="color: #099;">6</span><span class="p">;</span></span>
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123
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129
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<pre style="margin: 0;"> <span id="LC129" class="line" lang="c"></span>
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124
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130
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<pre style="margin: 0;"> <span id="LC130" class="line" lang="c"> <span class="c1" style="color: #998; font-style: italic;">//Do we need a non-leaf node?</span></span>
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125
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<pre style="margin: 0;">-<span id="LC125" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">nblocks</span><span class="o" style="font-weight: 600;"><span class="idiff left right">></span></span><span class="mi" style="color: #099;">1</span><span class="p">)</span> <span class="p">{</span></span>
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131
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<pre style="margin: 0;">+<span id="LC131" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">nblocks</span><span class="idiff left"> </span><span class="o" style="font-weight: 600;"><span class="idiff">></span></span><span class="idiff right"> </span><span class="mi" style="color: #099;">1</span><span class="p">)</span> <span class="p">{</span></span>
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126
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132
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<pre style="margin: 0;"> <span id="LC132" class="line" lang="c"> <span class="n" style="color: #333;">eight</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">0</span><span class="p">;</span></span>
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127
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133
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<pre style="margin: 0;"> <span id="LC133" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">fwrite</span><span class="p">(</span><span class="o" style="font-weight: 600;">&</span><span class="n" style="color: #333;">eight</span><span class="p">,</span> <span class="k" style="font-weight: 600;">sizeof</span><span class="p">(</span><span class="kt" style="color: #458; font-weight: 600;">uint8_t</span><span class="p">),</span> <span class="mi" style="color: #099;">1</span><span class="p">,</span> <span class="n" style="color: #333;">fp</span><span class="p">)</span> <span class="o" style="font-weight: 600;">!=</span> <span class="mi" style="color: #099;">1</span><span class="p">)</span> <span class="k" style="font-weight: 600;">return</span> <span class="mi" style="color: #099;">7</span><span class="p">;</span></span>
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<td class="diff-line-num old_line" data-linenumber="128" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
128
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<td class="diff-line-num new_line" data-linenumber="134" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
134
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<pre style="margin: 0;"> <span id="LC134" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">fwrite</span><span class="p">(</span><span class="o" style="font-weight: 600;">&</span><span class="n" style="color: #333;">eight</span><span class="p">,</span> <span class="k" style="font-weight: 600;">sizeof</span><span class="p">(</span><span class="kt" style="color: #458; font-weight: 600;">uint8_t</span><span class="p">),</span> <span class="mi" style="color: #099;">1</span><span class="p">,</span> <span class="n" style="color: #333;">fp</span><span class="p">)</span> <span class="o" style="font-weight: 600;">!=</span> <span class="mi" style="color: #099;">1</span><span class="p">)</span> <span class="k" style="font-weight: 600;">return</span> <span class="mi" style="color: #099;">8</span><span class="p">;</span> <span class="c1" style="color: #998; font-style: italic;">//padding</span></span>
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129
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<pre style="margin: 0;">-<span id="LC129" class="line" lang="c"> <span class="n" style="color: #333;">j</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">0</span><span class="p">;</span></span>
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130
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<pre style="margin: 0;">-<span id="LC130" class="line" lang="c"> <span class="k" style="font-weight: 600;">for</span><span class="p">(</span><span class="n" style="color: #333;">i</span><span class="o" style="font-weight: 600;">=</span><span class="mi" style="color: #099;">0</span><span class="p">;</span> <span class="n" style="color: #333;">i</span><span class="o" style="font-weight: 600;"><</span><span class="n" style="color: #333;">nperblock</span><span class="p">;</span> <span class="n" style="color: #333;">i</span><span class="o" style="font-weight: 600;">++</span><span class="p">)</span> <span class="p">{</span> <span class="c1" style="color: #998; font-style: italic;">//Why yes, this is pointless</span></span>
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<td class="diff-line-num new new_line" data-linenumber="135" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
135
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<pre style="margin: 0;">+<span id="LC135" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">fwrite</span><span class="p">(</span><span class="o" style="font-weight: 600;">&</span><span class="n" style="color: #333;">nblocks</span><span class="p">,</span> <span class="k" style="font-weight: 600;">sizeof</span><span class="p">(</span><span class="kt" style="color: #458; font-weight: 600;">uint16_t</span><span class="p">),</span> <span class="mi" style="color: #099;">1</span><span class="p">,</span> <span class="n" style="color: #333;">fp</span><span class="p">)</span> <span class="o" style="font-weight: 600;">!=</span> <span class="mi" style="color: #099;">1</span><span class="p">)</span> <span class="k" style="font-weight: 600;">return</span> <span class="mi" style="color: #099;">8</span><span class="p">;</span></span>
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<td class="diff-line-num new new_line" data-linenumber="136" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
136
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<pre style="margin: 0;">+<span id="LC136" class="line" lang="c"> <span class="n" style="color: #333;">nonLeafEnd</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">ftell</span><span class="p">(</span><span class="n" style="color: #333;">fp</span><span class="p">)</span> <span class="o" style="font-weight: 600;">+</span> <span class="n" style="color: #333;">nperblock</span> <span class="o" style="font-weight: 600;">*</span> <span class="p">(</span><span class="n" style="color: #333;">keySize</span> <span class="o" style="font-weight: 600;">+</span> <span class="mi" style="color: #099;">8</span><span class="p">);</span></span>
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<td class="diff-line-num new new_line" data-linenumber="137" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
137
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<pre style="margin: 0;">+<span id="LC137" class="line" lang="c"> <span class="n" style="color: #333;">leafSize</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">nperblock</span> <span class="o" style="font-weight: 600;">*</span> <span class="p">(</span><span class="n" style="color: #333;">keySize</span> <span class="o" style="font-weight: 600;">+</span> <span class="mi" style="color: #099;">8</span><span class="p">)</span> <span class="o" style="font-weight: 600;">+</span> <span class="mi" style="color: #099;">4</span><span class="p">;</span></span>
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<td class="diff-line-num new new_line" data-linenumber="138" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
138
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<pre style="margin: 0;">+<span id="LC138" class="line" lang="c"> <span class="k" style="font-weight: 600;">for</span><span class="p">(</span><span class="n" style="color: #333;">i</span><span class="o" style="font-weight: 600;">=</span><span class="mi" style="color: #099;">0</span><span class="p">;</span> <span class="n" style="color: #333;">i</span><span class="o" style="font-weight: 600;"><</span><span class="n" style="color: #333;">nblocks</span><span class="p">;</span> <span class="n" style="color: #333;">i</span><span class="o" style="font-weight: 600;">++</span><span class="p">)</span> <span class="p">{</span> <span class="c1" style="color: #998; font-style: italic;">//Why yes, this is pointless</span></span>
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<td class="diff-line-num new new_line" data-linenumber="139" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
139
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<pre style="margin: 0;">+<span id="LC139" class="line" lang="c"> <span class="n" style="color: #333;">chrom</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">strncpy</span><span class="p">(</span><span class="n" style="color: #333;">chrom</span><span class="p">,</span> <span class="n" style="color: #333;">cl</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">chrom</span><span class="p">[</span><span class="n" style="color: #333;">i</span> <span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">nperblock</span><span class="p">],</span> <span class="n" style="color: #333;">keySize</span><span class="p">);</span></span>
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<td class="diff-line-num new new_line" data-linenumber="140" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
140
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<pre style="margin: 0;">+<span id="LC140" class="line" lang="c"> <span class="n" style="color: #333;">nextLeaf</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">nonLeafEnd</span> <span class="o" style="font-weight: 600;">+</span> <span class="n" style="color: #333;">i</span> <span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">leafSize</span><span class="p">;</span></span>
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<td class="diff-line-num new new_line" data-linenumber="141" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
141
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<pre style="margin: 0;">+<span id="LC141" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">fwrite</span><span class="p">(</span><span class="n" style="color: #333;">chrom</span><span class="p">,</span> <span class="n" style="color: #333;">keySize</span><span class="p">,</span> <span class="mi" style="color: #099;">1</span><span class="p">,</span> <span class="n" style="color: #333;">fp</span><span class="p">)</span> <span class="o" style="font-weight: 600;">!=</span> <span class="mi" style="color: #099;">1</span><span class="p">)</span> <span class="k" style="font-weight: 600;">return</span> <span class="mi" style="color: #099;">9</span><span class="p">;</span></span>
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<td class="diff-line-num new new_line" data-linenumber="142" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
142
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<pre style="margin: 0;">+<span id="LC142" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">fwrite</span><span class="p">(</span><span class="o" style="font-weight: 600;">&</span><span class="n" style="color: #333;">nextLeaf</span><span class="p">,</span> <span class="k" style="font-weight: 600;">sizeof</span><span class="p">(</span><span class="kt" style="color: #458; font-weight: 600;">uint64_t</span><span class="p">),</span> <span class="mi" style="color: #099;">1</span><span class="p">,</span> <span class="n" style="color: #333;">fp</span><span class="p">)</span> <span class="o" style="font-weight: 600;">!=</span> <span class="mi" style="color: #099;">1</span><span class="p">)</span> <span class="k" style="font-weight: 600;">return</span> <span class="mi" style="color: #099;">10</span><span class="p">;</span></span>
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<td class="diff-line-num new new_line" data-linenumber="143" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
143
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<pre style="margin: 0;">+<span id="LC143" class="line" lang="c"> <span class="p">}</span></span>
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<td class="diff-line-num new new_line" data-linenumber="144" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
144
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<pre style="margin: 0;">+<span id="LC144" class="line" lang="c"> <span class="k" style="font-weight: 600;">for</span><span class="p">(</span><span class="n" style="color: #333;">i</span><span class="o" style="font-weight: 600;">=</span><span class="mi" style="color: #099;">0</span><span class="p">;</span> <span class="n" style="color: #333;">i</span><span class="o" style="font-weight: 600;"><</span><span class="n" style="color: #333;">keySize</span><span class="p">;</span> <span class="n" style="color: #333;">i</span><span class="o" style="font-weight: 600;">++</span><span class="p">)</span> <span class="n" style="color: #333;">chrom</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">]</span> <span class="o" style="font-weight: 600;">=</span> <span class="sc" style="color: #d14;">'\0'</span><span class="p">;</span></span>
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<td class="diff-line-num new new_line" data-linenumber="145" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
145
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<pre style="margin: 0;">+<span id="LC145" class="line" lang="c"> <span class="n" style="color: #333;">nextLeaf</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">0</span><span class="p">;</span></span>
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<td class="diff-line-num new new_line" data-linenumber="146" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
146
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<pre style="margin: 0;">+<span id="LC146" class="line" lang="c"> <span class="k" style="font-weight: 600;">for</span><span class="p">(</span><span class="n" style="color: #333;">i</span><span class="o" style="font-weight: 600;">=</span><span class="n" style="color: #333;">nblocks</span><span class="p">;</span> <span class="n" style="color: #333;">i</span><span class="o" style="font-weight: 600;"><</span><span class="n" style="color: #333;">nperblock</span><span class="p">;</span> <span class="n" style="color: #333;">i</span><span class="o" style="font-weight: 600;">++</span><span class="p">)</span> <span class="p">{</span></span>
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131
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<td class="diff-line-num new_line" data-linenumber="147" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
147
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<pre style="margin: 0;"> <span id="LC147" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">fwrite</span><span class="p">(</span><span class="n" style="color: #333;">chrom</span><span class="p">,</span> <span class="n" style="color: #333;">keySize</span><span class="p">,</span> <span class="mi" style="color: #099;">1</span><span class="p">,</span> <span class="n" style="color: #333;">fp</span><span class="p">)</span> <span class="o" style="font-weight: 600;">!=</span> <span class="mi" style="color: #099;">1</span><span class="p">)</span> <span class="k" style="font-weight: 600;">return</span> <span class="mi" style="color: #099;">9</span><span class="p">;</span></span>
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132
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<td class="diff-line-num new_line old" data-linenumber="148" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC132" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">fwrite</span><span class="p">(</span><span class="o" style="font-weight: 600;">&</span><span class="n" style="color: #333;"><span class="idiff left right">j</span></span><span class="p">,</span> <span class="k" style="font-weight: 600;">sizeof</span><span class="p">(</span><span class="kt" style="color: #458; font-weight: 600;">uint64_t</span><span class="p">),</span> <span class="mi" style="color: #099;">1</span><span class="p">,</span> <span class="n" style="color: #333;">fp</span><span class="p">)</span> <span class="o" style="font-weight: 600;">!=</span> <span class="mi" style="color: #099;">1</span><span class="p">)</span> <span class="k" style="font-weight: 600;">return</span> <span class="mi" style="color: #099;">10</span><span class="p">;</span></span>
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148
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<pre style="margin: 0;">+<span id="LC148" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">fwrite</span><span class="p">(</span><span class="o" style="font-weight: 600;">&</span><span class="n" style="color: #333;"><span class="idiff left right">nextLeaf</span></span><span class="p">,</span> <span class="k" style="font-weight: 600;">sizeof</span><span class="p">(</span><span class="kt" style="color: #458; font-weight: 600;">uint64_t</span><span class="p">),</span> <span class="mi" style="color: #099;">1</span><span class="p">,</span> <span class="n" style="color: #333;">fp</span><span class="p">)</span> <span class="o" style="font-weight: 600;">!=</span> <span class="mi" style="color: #099;">1</span><span class="p">)</span> <span class="k" style="font-weight: 600;">return</span> <span class="mi" style="color: #099;">10</span><span class="p">;</span></span>
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133
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149
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<pre style="margin: 0;"> <span id="LC149" class="line" lang="c"> <span class="p">}</span></span>
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134
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150
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<pre style="margin: 0;"> <span id="LC150" class="line" lang="c"> <span class="p">}</span></span>
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135
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151
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<pre style="margin: 0;"> <span id="LC151" class="line" lang="c"></span>
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<td class="diff-line-num old_line" data-linenumber="136" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
136
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<td class="diff-line-num new_line" data-linenumber="152" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
152
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<pre style="margin: 0;"> <span id="LC152" class="line" lang="c"> <span class="c1" style="color: #998; font-style: italic;">//Write the leaves</span></span>
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<td class="diff-line-num new old_line" data-linenumber="137" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
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<td class="diff-line-num new new_line" data-linenumber="153" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
153
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<pre style="margin: 0;">+<span id="LC153" class="line" lang="c"> <span class="n" style="color: #333;">nextLeaf</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">0</span><span class="p">;</span></span>
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<td class="diff-line-num old_line" data-linenumber="137" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
137
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<td class="diff-line-num new_line" data-linenumber="154" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
154
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<pre style="margin: 0;"> <span id="LC154" class="line" lang="c"> <span class="k" style="font-weight: 600;">for</span><span class="p">(</span><span class="n" style="color: #333;">i</span><span class="o" style="font-weight: 600;">=</span><span class="mi" style="color: #099;">0</span><span class="p">,</span> <span class="n" style="color: #333;">j</span><span class="o" style="font-weight: 600;">=</span><span class="mi" style="color: #099;">0</span><span class="p">;</span> <span class="n" style="color: #333;">i</span><span class="o" style="font-weight: 600;"><</span><span class="n" style="color: #333;">nblocks</span><span class="p">;</span> <span class="n" style="color: #333;">i</span><span class="o" style="font-weight: 600;">++</span><span class="p">)</span> <span class="p">{</span></span>
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<td class="diff-line-num old_line" data-linenumber="138" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
138
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<td class="diff-line-num new_line" data-linenumber="155" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
155
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<pre style="margin: 0;"> <span id="LC155" class="line" lang="c"> <span class="n" style="color: #333;">eight</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">1</span><span class="p">;</span></span>
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<td class="diff-line-num old_line" data-linenumber="139" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
139
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<td class="diff-line-num new_line" data-linenumber="156" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
156
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<pre style="margin: 0;"> <span id="LC156" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">fwrite</span><span class="p">(</span><span class="o" style="font-weight: 600;">&</span><span class="n" style="color: #333;">eight</span><span class="p">,</span> <span class="k" style="font-weight: 600;">sizeof</span><span class="p">(</span><span class="kt" style="color: #458; font-weight: 600;">uint8_t</span><span class="p">),</span> <span class="mi" style="color: #099;">1</span><span class="p">,</span> <span class="n" style="color: #333;">fp</span><span class="p">)</span> <span class="o" style="font-weight: 600;">!=</span> <span class="mi" style="color: #099;">1</span><span class="p">)</span> <span class="k" style="font-weight: 600;">return</span> <span class="mi" style="color: #099;">11</span><span class="p">;</span></span>
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<td class="diff-line-num old_line" data-linenumber="140" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
140
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<td class="diff-line-num new_line" data-linenumber="157" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
157
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<pre style="margin: 0;"> <span id="LC157" class="line" lang="c"> <span class="n" style="color: #333;">eight</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">0</span><span class="p">;</span></span>
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<td class="diff-line-num old_line" data-linenumber="141" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
141
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<td class="diff-line-num new_line" data-linenumber="158" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
158
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<pre style="margin: 0;"> <span id="LC158" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">fwrite</span><span class="p">(</span><span class="o" style="font-weight: 600;">&</span><span class="n" style="color: #333;">eight</span><span class="p">,</span> <span class="k" style="font-weight: 600;">sizeof</span><span class="p">(</span><span class="kt" style="color: #458; font-weight: 600;">uint8_t</span><span class="p">),</span> <span class="mi" style="color: #099;">1</span><span class="p">,</span> <span class="n" style="color: #333;">fp</span><span class="p">)</span> <span class="o" style="font-weight: 600;">!=</span> <span class="mi" style="color: #099;">1</span><span class="p">)</span> <span class="k" style="font-weight: 600;">return</span> <span class="mi" style="color: #099;">12</span><span class="p">;</span></span>
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<td class="diff-line-num old old_line" data-linenumber="142" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
142
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<td class="diff-line-num new_line old" data-linenumber="159" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC142" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">cl</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">nKeys</span> <span class="o" style="font-weight: 600;">-</span> <span class="n" style="color: #333;">written</span> <span class="o" style="font-weight: 600;"><</span> <span class="n" style="color: #333;">nperblock</span><span class="p">)</span> <span class="n" style="color: #333;">nperblock</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">cl</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">nKeys</span> <span class="o" style="font-weight: 600;">-</span> <span class="n" style="color: #333;">written</span><span class="p">;</span></span>
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<td class="diff-line-num old old_line" data-linenumber="143" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
143
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<td class="diff-line-num new_line old" data-linenumber="159" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC143" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">fwrite</span><span class="p">(</span><span class="o" style="font-weight: 600;">&</span><span class="n" style="color: #333;">nperblock</span><span class="p">,</span> <span class="k" style="font-weight: 600;">sizeof</span><span class="p">(</span><span class="kt" style="color: #458; font-weight: 600;">uint16_t</span><span class="p">),</span> <span class="mi" style="color: #099;">1</span><span class="p">,</span> <span class="n" style="color: #333;">fp</span><span class="p">)</span> <span class="o" style="font-weight: 600;">!=</span> <span class="mi" style="color: #099;">1</span><span class="p">)</span> <span class="k" style="font-weight: 600;">return</span> <span class="mi" style="color: #099;">13</span><span class="p">;</span></span>
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<td class="diff-line-num new new_line" data-linenumber="159" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
159
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<pre style="margin: 0;">+<span id="LC159" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">cl</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">nKeys</span> <span class="o" style="font-weight: 600;">-</span> <span class="n" style="color: #333;">j</span> <span class="o" style="font-weight: 600;"><</span> <span class="n" style="color: #333;">nperblock</span><span class="p">)</span> <span class="p">{</span></span>
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<td class="diff-line-num new old_line" data-linenumber="144" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
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<td class="diff-line-num new new_line" data-linenumber="160" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
160
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<pre style="margin: 0;">+<span id="LC160" class="line" lang="c"> <span class="n" style="color: #333;">k</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">cl</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">nKeys</span> <span class="o" style="font-weight: 600;">-</span> <span class="n" style="color: #333;">j</span><span class="p">;</span></span>
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<td class="diff-line-num new old_line" data-linenumber="144" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
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<td class="diff-line-num new new_line" data-linenumber="161" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
161
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<pre style="margin: 0;">+<span id="LC161" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">fwrite</span><span class="p">(</span><span class="o" style="font-weight: 600;">&</span><span class="n" style="color: #333;">k</span><span class="p">,</span> <span class="k" style="font-weight: 600;">sizeof</span><span class="p">(</span><span class="kt" style="color: #458; font-weight: 600;">uint16_t</span><span class="p">),</span> <span class="mi" style="color: #099;">1</span><span class="p">,</span> <span class="n" style="color: #333;">fp</span><span class="p">)</span> <span class="o" style="font-weight: 600;">!=</span> <span class="mi" style="color: #099;">1</span><span class="p">)</span> <span class="k" style="font-weight: 600;">return</span> <span class="mi" style="color: #099;">13</span><span class="p">;</span></span>
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<td class="diff-line-num new old_line" data-linenumber="144" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
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<td class="diff-line-num new new_line" data-linenumber="162" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
162
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<pre style="margin: 0;">+<span id="LC162" class="line" lang="c"> <span class="p">}</span> <span class="k" style="font-weight: 600;">else</span> <span class="p">{</span></span>
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<td class="diff-line-num new new_line" data-linenumber="163" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
163
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<pre style="margin: 0;">+<span id="LC163" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">fwrite</span><span class="p">(</span><span class="o" style="font-weight: 600;">&</span><span class="n" style="color: #333;">nperblock</span><span class="p">,</span> <span class="k" style="font-weight: 600;">sizeof</span><span class="p">(</span><span class="kt" style="color: #458; font-weight: 600;">uint16_t</span><span class="p">),</span> <span class="mi" style="color: #099;">1</span><span class="p">,</span> <span class="n" style="color: #333;">fp</span><span class="p">)</span> <span class="o" style="font-weight: 600;">!=</span> <span class="mi" style="color: #099;">1</span><span class="p">)</span> <span class="k" style="font-weight: 600;">return</span> <span class="mi" style="color: #099;">13</span><span class="p">;</span></span>
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164
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<pre style="margin: 0;">+<span id="LC164" class="line" lang="c"> <span class="p">}</span></span>
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144
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165
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<pre style="margin: 0;"> <span id="LC165" class="line" lang="c"> <span class="k" style="font-weight: 600;">for</span><span class="p">(</span><span class="n" style="color: #333;">k</span><span class="o" style="font-weight: 600;">=</span><span class="mi" style="color: #099;">0</span><span class="p">;</span> <span class="n" style="color: #333;">k</span><span class="o" style="font-weight: 600;"><</span><span class="n" style="color: #333;">nperblock</span><span class="p">;</span> <span class="n" style="color: #333;">k</span><span class="o" style="font-weight: 600;">++</span><span class="p">)</span> <span class="p">{</span></span>
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145
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<pre style="margin: 0;">-<span id="LC145" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">j</span><span class="o" style="font-weight: 600;">>=</span><span class="n" style="color: #333;">cl</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">nKeys</span><span class="p">)</span> <span class="k" style="font-weight: 600;">return</span> <span class="mi" style="color: #099;">14</span><span class="p">;</span></span>
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146
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<pre style="margin: 0;">-<span id="LC146" class="line" lang="c"> <span class="n" style="color: #333;">chrom</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">strncpy</span><span class="p">(</span><span class="n" style="color: #333;">chrom</span><span class="p">,</span> <span class="n" style="color: #333;">cl</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">chrom</span><span class="p">[</span><span class="n" style="color: #333;">j</span><span class="p">],</span> <span class="n" style="color: #333;">keySize</span><span class="p">);</span></span>
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147
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<pre style="margin: 0;">-<span id="LC147" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">fwrite</span><span class="p">(</span><span class="n" style="color: #333;">chrom</span><span class="p">,</span> <span class="n" style="color: #333;">keySize</span><span class="p">,</span> <span class="mi" style="color: #099;">1</span><span class="p">,</span> <span class="n" style="color: #333;">fp</span><span class="p">)</span> <span class="o" style="font-weight: 600;">!=</span> <span class="mi" style="color: #099;">1</span><span class="p">)</span> <span class="k" style="font-weight: 600;">return</span> <span class="mi" style="color: #099;">15</span><span class="p">;</span></span>
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148
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<pre style="margin: 0;">-<span id="LC148" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">fwrite</span><span class="p">(</span><span class="o" style="font-weight: 600;">&</span><span class="n" style="color: #333;">j</span><span class="p">,</span> <span class="k" style="font-weight: 600;">sizeof</span><span class="p">(</span><span class="kt" style="color: #458; font-weight: 600;">uint32_t</span><span class="p">),</span> <span class="mi" style="color: #099;">1</span><span class="p">,</span> <span class="n" style="color: #333;">fp</span><span class="p">)</span> <span class="o" style="font-weight: 600;">!=</span> <span class="mi" style="color: #099;">1</span><span class="p">)</span> <span class="k" style="font-weight: 600;">return</span> <span class="mi" style="color: #099;">16</span><span class="p">;</span></span>
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<td class="diff-line-num old old_line" data-linenumber="149" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
149
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<pre style="margin: 0;">-<span id="LC149" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">fwrite</span><span class="p">(</span><span class="o" style="font-weight: 600;">&</span><span class="p">(</span><span class="n" style="color: #333;">cl</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">len</span><span class="p">[</span><span class="n" style="color: #333;">j</span><span class="o" style="font-weight: 600;">++</span><span class="p">]),</span> <span class="k" style="font-weight: 600;">sizeof</span><span class="p">(</span><span class="kt" style="color: #458; font-weight: 600;">uint32_t</span><span class="p">),</span> <span class="mi" style="color: #099;">1</span><span class="p">,</span> <span class="n" style="color: #333;">fp</span><span class="p">)</span> <span class="o" style="font-weight: 600;">!=</span> <span class="mi" style="color: #099;">1</span><span class="p">)</span> <span class="k" style="font-weight: 600;">return</span> <span class="mi" style="color: #099;">17</span><span class="p">;</span></span>
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150
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<pre style="margin: 0;">-<span id="LC150" class="line" lang="c"> <span class="n" style="color: #333;">written</span><span class="o" style="font-weight: 600;">++</span><span class="p">;</span></span>
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166
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<pre style="margin: 0;">+<span id="LC166" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">j</span><span class="o" style="font-weight: 600;">>=</span><span class="n" style="color: #333;">cl</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">nKeys</span><span class="p">)</span> <span class="p">{</span></span>
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167
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<pre style="margin: 0;">+<span id="LC167" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">chrom</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">])</span> <span class="p">{</span></span>
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<td class="diff-line-num new new_line" data-linenumber="168" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
168
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<pre style="margin: 0;">+<span id="LC168" class="line" lang="c"> <span class="k" style="font-weight: 600;">for</span><span class="p">(</span><span class="n" style="color: #333;">l</span><span class="o" style="font-weight: 600;">=</span><span class="mi" style="color: #099;">0</span><span class="p">;</span> <span class="n" style="color: #333;">l</span><span class="o" style="font-weight: 600;"><</span><span class="n" style="color: #333;">keySize</span><span class="p">;</span> <span class="n" style="color: #333;">l</span><span class="o" style="font-weight: 600;">++</span><span class="p">)</span> <span class="n" style="color: #333;">chrom</span><span class="p">[</span><span class="n" style="color: #333;">l</span><span class="p">]</span> <span class="o" style="font-weight: 600;">=</span> <span class="sc" style="color: #d14;">'\0'</span><span class="p">;</span></span>
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<td class="diff-line-num new new_line" data-linenumber="169" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
169
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<pre style="margin: 0;">+<span id="LC169" class="line" lang="c"> <span class="p">}</span></span>
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<td class="diff-line-num new new_line" data-linenumber="170" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
170
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<pre style="margin: 0;">+<span id="LC170" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">fwrite</span><span class="p">(</span><span class="n" style="color: #333;">chrom</span><span class="p">,</span> <span class="n" style="color: #333;">keySize</span><span class="p">,</span> <span class="mi" style="color: #099;">1</span><span class="p">,</span> <span class="n" style="color: #333;">fp</span><span class="p">)</span> <span class="o" style="font-weight: 600;">!=</span> <span class="mi" style="color: #099;">1</span><span class="p">)</span> <span class="k" style="font-weight: 600;">return</span> <span class="mi" style="color: #099;">15</span><span class="p">;</span></span>
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<td class="diff-line-num new new_line" data-linenumber="171" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
171
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<pre style="margin: 0;">+<span id="LC171" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">fwrite</span><span class="p">(</span><span class="o" style="font-weight: 600;">&</span><span class="n" style="color: #333;">nextLeaf</span><span class="p">,</span> <span class="k" style="font-weight: 600;">sizeof</span><span class="p">(</span><span class="kt" style="color: #458; font-weight: 600;">uint64_t</span><span class="p">),</span> <span class="mi" style="color: #099;">1</span><span class="p">,</span> <span class="n" style="color: #333;">fp</span><span class="p">)</span> <span class="o" style="font-weight: 600;">!=</span> <span class="mi" style="color: #099;">1</span><span class="p">)</span> <span class="k" style="font-weight: 600;">return</span> <span class="mi" style="color: #099;">16</span><span class="p">;</span></span>
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<td class="diff-line-num new new_line" data-linenumber="172" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
172
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<pre style="margin: 0;">+<span id="LC172" class="line" lang="c"> <span class="p">}</span> <span class="k" style="font-weight: 600;">else</span> <span class="p">{</span></span>
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<td class="diff-line-num new new_line" data-linenumber="173" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
173
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<pre style="margin: 0;">+<span id="LC173" class="line" lang="c"> <span class="n" style="color: #333;">chrom</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">strncpy</span><span class="p">(</span><span class="n" style="color: #333;">chrom</span><span class="p">,</span> <span class="n" style="color: #333;">cl</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">chrom</span><span class="p">[</span><span class="n" style="color: #333;">j</span><span class="p">],</span> <span class="n" style="color: #333;">keySize</span><span class="p">);</span></span>
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<td class="diff-line-num new new_line" data-linenumber="174" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
174
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<pre style="margin: 0;">+<span id="LC174" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">fwrite</span><span class="p">(</span><span class="n" style="color: #333;">chrom</span><span class="p">,</span> <span class="n" style="color: #333;">keySize</span><span class="p">,</span> <span class="mi" style="color: #099;">1</span><span class="p">,</span> <span class="n" style="color: #333;">fp</span><span class="p">)</span> <span class="o" style="font-weight: 600;">!=</span> <span class="mi" style="color: #099;">1</span><span class="p">)</span> <span class="k" style="font-weight: 600;">return</span> <span class="mi" style="color: #099;">15</span><span class="p">;</span></span>
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<td class="diff-line-num new new_line" data-linenumber="175" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
175
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<pre style="margin: 0;">+<span id="LC175" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">fwrite</span><span class="p">(</span><span class="o" style="font-weight: 600;">&</span><span class="n" style="color: #333;">j</span><span class="p">,</span> <span class="k" style="font-weight: 600;">sizeof</span><span class="p">(</span><span class="kt" style="color: #458; font-weight: 600;">uint32_t</span><span class="p">),</span> <span class="mi" style="color: #099;">1</span><span class="p">,</span> <span class="n" style="color: #333;">fp</span><span class="p">)</span> <span class="o" style="font-weight: 600;">!=</span> <span class="mi" style="color: #099;">1</span><span class="p">)</span> <span class="k" style="font-weight: 600;">return</span> <span class="mi" style="color: #099;">16</span><span class="p">;</span></span>
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<td class="diff-line-num new new_line" data-linenumber="176" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
176
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<pre style="margin: 0;">+<span id="LC176" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">fwrite</span><span class="p">(</span><span class="o" style="font-weight: 600;">&</span><span class="p">(</span><span class="n" style="color: #333;">cl</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">len</span><span class="p">[</span><span class="n" style="color: #333;">j</span><span class="o" style="font-weight: 600;">++</span><span class="p">]),</span> <span class="k" style="font-weight: 600;">sizeof</span><span class="p">(</span><span class="kt" style="color: #458; font-weight: 600;">uint32_t</span><span class="p">),</span> <span class="mi" style="color: #099;">1</span><span class="p">,</span> <span class="n" style="color: #333;">fp</span><span class="p">)</span> <span class="o" style="font-weight: 600;">!=</span> <span class="mi" style="color: #099;">1</span><span class="p">)</span> <span class="k" style="font-weight: 600;">return</span> <span class="mi" style="color: #099;">17</span><span class="p">;</span></span>
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<td class="diff-line-num new new_line" data-linenumber="177" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
177
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<pre style="margin: 0;">+<span id="LC177" class="line" lang="c"> <span class="p">}</span></span>
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151
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<td class="diff-line-num new_line" data-linenumber="178" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
178
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<pre style="margin: 0;"> <span id="LC178" class="line" lang="c"> <span class="p">}</span></span>
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152
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179
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<pre style="margin: 0;"> <span id="LC179" class="line" lang="c"> <span class="p">}</span></span>
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<td class="diff-line-num old_line" data-linenumber="153" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
153
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<td class="diff-line-num new_line" data-linenumber="180" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
180
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<pre style="margin: 0;"> <span id="LC180" class="line" lang="c"></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="709" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="736" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -709,7 +736,7 @@ int writeIndex(bigWigFile_t *fp) {</td>
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709
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<td class="diff-line-num new_line" data-linenumber="736" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
736
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<pre style="margin: 0;"> <span id="LC736" class="line" lang="c"> <span class="n" style="color: #333;">bwLL</span> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">ll</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">fp</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">writeBuffer</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">firstIndexNode</span><span class="p">,</span> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">p</span><span class="p">;</span></span>
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<td class="diff-line-num old_line" data-linenumber="710" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
710
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<td class="diff-line-num new_line" data-linenumber="737" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
737
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<pre style="margin: 0;"> <span id="LC737" class="line" lang="c"> <span class="n" style="color: #333;">bwRTreeNode_t</span> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">root</span> <span class="o" style="font-weight: 600;">=</span> <span class="nb" style="color: #0086b3;">NULL</span><span class="p">;</span></span>
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<td class="diff-line-num old_line" data-linenumber="711" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
711
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<td class="diff-line-num new_line" data-linenumber="738" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
738
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<pre style="margin: 0;"> <span id="LC738" class="line" lang="c"></span>
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<td class="diff-line-num old old_line" data-linenumber="712" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
712
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<td class="diff-line-num new_line old" data-linenumber="739" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC712" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="o" style="font-weight: 600;">!</span><span class="n" style="color: #333;">fp</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">writeBuffer</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">nBlocks</span><span class="p">)</span> <span class="k" style="font-weight: 600;">return</span> <span class="mi" style="color: #099;"><span class="idiff left right">1</span></span><span class="p">;</span></span>
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<td class="diff-line-num new old_line" data-linenumber="713" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
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<td class="diff-line-num new new_line" data-linenumber="739" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
739
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<pre style="margin: 0;">+<span id="LC739" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="o" style="font-weight: 600;">!</span><span class="n" style="color: #333;">fp</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">writeBuffer</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">nBlocks</span><span class="p">)</span> <span class="k" style="font-weight: 600;">return</span> <span class="mi" style="color: #099;"><span class="idiff left right">0</span></span><span class="p">;</span></span>
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<td class="diff-line-num old_line" data-linenumber="713" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
713
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<td class="diff-line-num new_line" data-linenumber="740" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
740
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<pre style="margin: 0;"> <span id="LC740" class="line" lang="c"> <span class="n" style="color: #333;">fp</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">idx</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">malloc</span><span class="p">(</span><span class="k" style="font-weight: 600;">sizeof</span><span class="p">(</span><span class="n" style="color: #333;">bwRTree_t</span><span class="p">));</span></span>
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714
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<td class="diff-line-num new_line" data-linenumber="741" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
741
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<pre style="margin: 0;"> <span id="LC741" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="o" style="font-weight: 600;">!</span><span class="n" style="color: #333;">fp</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">idx</span><span class="p">)</span> <span class="k" style="font-weight: 600;">return</span> <span class="mi" style="color: #099;">2</span><span class="p">;</span></span>
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<td class="diff-line-num old_line" data-linenumber="715" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
715
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742
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<pre style="margin: 0;"> <span id="LC742" class="line" lang="c"> <span class="n" style="color: #333;">fp</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">idx</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">root</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">root</span><span class="p">;</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="780" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="807" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -780,7 +807,7 @@ int writeIndex(bigWigFile_t *fp) {</td>
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780
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<td class="diff-line-num new_line" data-linenumber="807" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
807
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<pre style="margin: 0;"> <span id="LC807" class="line" lang="c"><span class="c1" style="color: #998; font-style: italic;">//This may or may not produce the requested number of zoom levels</span></span>
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<td class="diff-line-num old_line" data-linenumber="781" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
781
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<td class="diff-line-num new_line" data-linenumber="808" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
808
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<pre style="margin: 0;"> <span id="LC808" class="line" lang="c"><span class="kt" style="color: #458; font-weight: 600;">int</span> <span class="nf" style="color: #900; font-weight: 600;">makeZoomLevels</span><span class="p">(</span><span class="n" style="color: #333;">bigWigFile_t</span> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">fp</span><span class="p">)</span> <span class="p">{</span></span>
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782
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<td class="diff-line-num new_line" data-linenumber="809" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
809
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<pre style="margin: 0;"> <span id="LC809" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">uint32_t</span> <span class="n" style="color: #333;">meanBinSize</span><span class="p">,</span> <span class="n" style="color: #333;">i</span><span class="p">;</span></span>
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<pre style="margin: 0;">-<span id="LC783" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">uint32_t</span> <span class="n" style="color: #333;">multiplier</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">4</span><span class="p">,</span> <span class="n" style="color: #333;">zoom</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">10</span><span class="p">;</span></span>
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810
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<pre style="margin: 0;">+<span id="LC810" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">uint32_t</span> <span class="n" style="color: #333;">multiplier</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">4</span><span class="p">,</span> <span class="n" style="color: #333;">zoom</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">10</span><span class="p"><span class="idiff left">,</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">maxZoom</span></span><span class="idiff"> </span><span class="o" style="font-weight: 600;"><span class="idiff">=</span></span><span class="idiff"> </span><span class="mi" style="color: #099;"><span class="idiff right">0</span></span><span class="p">;</span></span>
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784
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811
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<pre style="margin: 0;"> <span id="LC811" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">uint16_t</span> <span class="n" style="color: #333;">nLevels</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">0</span><span class="p">;</span></span>
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812
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<pre style="margin: 0;"> <span id="LC812" class="line" lang="c"></span>
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813
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<pre style="margin: 0;"> <span id="LC813" class="line" lang="c"> <span class="n" style="color: #333;">meanBinSize</span> <span class="o" style="font-weight: 600;">=</span> <span class="p">((</span><span class="kt" style="color: #458; font-weight: 600;">double</span><span class="p">)</span> <span class="n" style="color: #333;">fp</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">writeBuffer</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">runningWidthSum</span><span class="p">)</span><span class="o" style="font-weight: 600;">/</span><span class="p">(</span><span class="n" style="color: #333;">fp</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">writeBuffer</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">nEntries</span><span class="p">);</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -801,7 +828,15 @@ int makeZoomLevels(bigWigFile_t *fp) {</td>
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801
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828
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<pre style="margin: 0;"> <span id="LC828" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="o" style="font-weight: 600;">!</span><span class="n" style="color: #333;">fp</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">hdr</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">zoomHdrs</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">indexOffset</span><span class="p">)</span> <span class="k" style="font-weight: 600;">return</span> <span class="mi" style="color: #099;">4</span><span class="p">;</span></span>
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802
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829
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<pre style="margin: 0;"> <span id="LC829" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="o" style="font-weight: 600;">!</span><span class="n" style="color: #333;">fp</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">hdr</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">zoomHdrs</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">idx</span><span class="p">)</span> <span class="k" style="font-weight: 600;">return</span> <span class="mi" style="color: #099;">5</span><span class="p">;</span></span>
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803
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830
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<pre style="margin: 0;"> <span id="LC830" class="line" lang="c"></span>
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<pre style="margin: 0;">+<span id="LC831" class="line" lang="c"> <span class="c1" style="color: #998; font-style: italic;">//There's no point in having a zoom level larger than the largest chromosome</span></span>
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832
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<pre style="margin: 0;">+<span id="LC832" class="line" lang="c"> <span class="c1" style="color: #998; font-style: italic;">//This will none the less allow at least one zoom level, which is generally needed for IGV et al.</span></span>
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833
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<pre style="margin: 0;">+<span id="LC833" class="line" lang="c"> <span class="k" style="font-weight: 600;">for</span><span class="p">(</span><span class="n" style="color: #333;">i</span><span class="o" style="font-weight: 600;">=</span><span class="mi" style="color: #099;">0</span><span class="p">;</span> <span class="n" style="color: #333;">i</span><span class="o" style="font-weight: 600;"><</span><span class="n" style="color: #333;">fp</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">cl</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">nKeys</span><span class="p">;</span> <span class="n" style="color: #333;">i</span><span class="o" style="font-weight: 600;">++</span><span class="p">)</span> <span class="p">{</span></span>
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<pre style="margin: 0;">+<span id="LC834" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">fp</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">cl</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">len</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">]</span> <span class="o" style="font-weight: 600;">></span> <span class="n" style="color: #333;">maxZoom</span><span class="p">)</span> <span class="n" style="color: #333;">maxZoom</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">fp</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">cl</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">len</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">];</span></span>
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835
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<pre style="margin: 0;">+<span id="LC835" class="line" lang="c"> <span class="p">}</span></span>
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836
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<pre style="margin: 0;">+<span id="LC836" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">zoom</span> <span class="o" style="font-weight: 600;">></span> <span class="n" style="color: #333;">maxZoom</span><span class="p">)</span> <span class="n" style="color: #333;">zoom</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">maxZoom</span><span class="p">;</span></span>
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837
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<pre style="margin: 0;">+<span id="LC837" class="line" lang="c"></span>
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804
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838
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<pre style="margin: 0;"> <span id="LC838" class="line" lang="c"> <span class="k" style="font-weight: 600;">for</span><span class="p">(</span><span class="n" style="color: #333;">i</span><span class="o" style="font-weight: 600;">=</span><span class="mi" style="color: #099;">0</span><span class="p">;</span> <span class="n" style="color: #333;">i</span><span class="o" style="font-weight: 600;"><</span><span class="n" style="color: #333;">fp</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">hdr</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">nLevels</span><span class="p">;</span> <span class="n" style="color: #333;">i</span><span class="o" style="font-weight: 600;">++</span><span class="p">)</span> <span class="p">{</span></span>
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839
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<pre style="margin: 0;">+<span id="LC839" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">zoom</span> <span class="o" style="font-weight: 600;">></span> <span class="n" style="color: #333;">maxZoom</span><span class="p">)</span> <span class="k" style="font-weight: 600;">break</span><span class="p">;</span> <span class="c1" style="color: #998; font-style: italic;">//prevent absurdly large zoom levels</span></span>
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805
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840
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<pre style="margin: 0;"> <span id="LC840" class="line" lang="c"> <span class="n" style="color: #333;">fp</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">hdr</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">zoomHdrs</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">level</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">]</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">zoom</span><span class="p">;</span></span>
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806
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841
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<pre style="margin: 0;"> <span id="LC841" class="line" lang="c"> <span class="n" style="color: #333;">nLevels</span><span class="o" style="font-weight: 600;">++</span><span class="p">;</span></span>
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807
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<td class="diff-line-num new_line" data-linenumber="842" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
842
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<pre style="margin: 0;"> <span id="LC842" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(((</span><span class="kt" style="color: #458; font-weight: 600;">uint32_t</span><span class="p">)</span><span class="o" style="font-weight: 600;">-</span><span class="mi" style="color: #099;">1</span><span class="p">)</span><span class="o" style="font-weight: 600;">/</span><span class="n" style="color: #333;">multiplier</span> <span class="o" style="font-weight: 600;"><</span> <span class="n" style="color: #333;">zoom</span><span class="p">)</span> <span class="k" style="font-weight: 600;">break</span><span class="p">;</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="887" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="922" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -887,6 +922,10 @@ uint32_t updateInterval(bigWigFile_t *fp, bwZoomBuffer_t *buffer, double *sum, d</td>
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887
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922
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<pre style="margin: 0;"> <span id="LC922" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">uint32_t</span> <span class="n" style="color: #333;">rv</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">0</span><span class="p">,</span> <span class="n" style="color: #333;">offset</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">0</span><span class="p">;</span></span>
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888
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<td class="diff-line-num new_line" data-linenumber="923" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
923
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<pre style="margin: 0;"> <span id="LC923" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="o" style="font-weight: 600;">!</span><span class="n" style="color: #333;">buffer</span><span class="p">)</span> <span class="k" style="font-weight: 600;">return</span> <span class="mi" style="color: #099;">0</span><span class="p">;</span></span>
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<td class="diff-line-num old_line" data-linenumber="889" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
889
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<td class="diff-line-num new_line" data-linenumber="924" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
924
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<pre style="margin: 0;"> <span id="LC924" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">buffer</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">l</span><span class="o" style="font-weight: 600;">+</span><span class="mi" style="color: #099;">32</span> <span class="o" style="font-weight: 600;">>=</span> <span class="n" style="color: #333;">buffer</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">m</span><span class="p">)</span> <span class="k" style="font-weight: 600;">return</span> <span class="mi" style="color: #099;">0</span><span class="p">;</span></span>
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925
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<pre style="margin: 0;">+<span id="LC925" class="line" lang="c"></span>
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926
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<pre style="margin: 0;">+<span id="LC926" class="line" lang="c"> <span class="c1" style="color: #998; font-style: italic;">//Make sure that we don't overflow a uint32_t by adding some huge value to start</span></span>
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<td class="diff-line-num new new_line" data-linenumber="927" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
927
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<pre style="margin: 0;">+<span id="LC927" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">start</span> <span class="o" style="font-weight: 600;">+</span> <span class="n" style="color: #333;">size</span> <span class="o" style="font-weight: 600;"><</span> <span class="n" style="color: #333;">start</span><span class="p">)</span> <span class="n" style="color: #333;">size</span> <span class="o" style="font-weight: 600;">=</span> <span class="p">((</span><span class="kt" style="color: #458; font-weight: 600;">uint32_t</span><span class="p">)</span> <span class="o" style="font-weight: 600;">-</span><span class="mi" style="color: #099;">1</span><span class="p">)</span> <span class="o" style="font-weight: 600;">-</span> <span class="n" style="color: #333;">start</span><span class="p">;</span></span>
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928
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<pre style="margin: 0;">+<span id="LC928" class="line" lang="c"></span>
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890
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929
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<pre style="margin: 0;"> <span id="LC929" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">buffer</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">l</span><span class="p">)</span> <span class="p">{</span></span>
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891
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930
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<pre style="margin: 0;"> <span id="LC930" class="line" lang="c"> <span class="n" style="color: #333;">offset</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">buffer</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">l</span><span class="o" style="font-weight: 600;">/</span><span class="mi" style="color: #099;">32</span><span class="p">;</span></span>
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892
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931
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<pre style="margin: 0;"> <span id="LC931" class="line" lang="c"> <span class="p">}</span> <span class="k" style="font-weight: 600;">else</span> <span class="p">{</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="1210" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="1249" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -1210,7 +1249,7 @@ int bwFinalize(bigWigFile_t *fp) {</td>
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1210
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1249
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<pre style="margin: 0;"> <span id="LC1249" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">writeIndex</span><span class="p">(</span><span class="n" style="color: #333;">fp</span><span class="p">))</span> <span class="k" style="font-weight: 600;">return</span> <span class="mi" style="color: #099;">4</span><span class="p">;</span></span>
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1211
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1250
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<pre style="margin: 0;"> <span id="LC1250" class="line" lang="c"></span>
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1212
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<td class="diff-line-num new_line" data-linenumber="1251" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1251
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<pre style="margin: 0;"> <span id="LC1251" class="line" lang="c"> <span class="c1" style="color: #998; font-style: italic;">//Zoom level stuff here?</span></span>
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1213
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<pre style="margin: 0;">-<span id="LC1213" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">fp</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">hdr</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">nLevels</span><span class="p">)</span> <span class="p">{</span></span>
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1252
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<pre style="margin: 0;">+<span id="LC1252" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">fp</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">hdr</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">nLevels</span><span class="idiff left"> </span><span class="o" style="font-weight: 600;"><span class="idiff">&&</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">fp</span></span><span class="o" style="font-weight: 600;"><span class="idiff">-></span></span><span class="n" style="color: #333;"><span class="idiff">writeBuffer</span></span><span class="o" style="font-weight: 600;"><span class="idiff">-></span></span><span class="n" style="color: #333;"><span class="idiff right">nBlocks</span></span><span class="p">)</span> <span class="p">{</span></span>
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1214
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1253
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<pre style="margin: 0;"> <span id="LC1253" class="line" lang="c"> <span class="n" style="color: #333;">offset</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">bwTell</span><span class="p">(</span><span class="n" style="color: #333;">fp</span><span class="p">);</span></span>
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1254
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<pre style="margin: 0;"> <span id="LC1254" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">makeZoomLevels</span><span class="p">(</span><span class="n" style="color: #333;">fp</span><span class="p">))</span> <span class="k" style="font-weight: 600;">return</span> <span class="mi" style="color: #099;">5</span><span class="p">;</span></span>
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1216
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1255
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<pre style="margin: 0;"> <span id="LC1255" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">constructZoomLevels</span><span class="p">(</span><span class="n" style="color: #333;">fp</span><span class="p">))</span> <span class="k" style="font-weight: 600;">return</span> <span class="mi" style="color: #099;">6</span><span class="p">;</span></span>
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<a href="https://salsa.debian.org/med-team/pybigwig/commit/7a3cc3ffe926943e0b3385270e067db9ef3f3967#a9614933885d04af65df2d11cde4031a249ca479"><strong>libBigWig/io.c</strong></a>
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#ifndef NOCURL</span></span>
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2
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<pre style="margin: 0;"> <span id="LC2" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#include <curl/curl.h></span></span>
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<pre style="margin: 0;">+<span id="LC3" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#endif</span></span>
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4
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<pre style="margin: 0;"> <span id="LC4" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#include <stdio.h></span></span>
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5
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<pre style="margin: 0;"> <span id="LC5" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#include <stdlib.h></span></span>
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6
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<pre style="margin: 0;"> <span id="LC6" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#include <string.h></span></span>
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7
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<pre style="margin: 0;"> <span id="LC7" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#include <unistd.h></span></span>
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<pre style="margin: 0;">-<span id="LC6" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#include "<span class="idiff left right">io</span>.h"</span></span>
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<pre style="margin: 0;">+<span id="LC8" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#include "<span class="idiff left right">bigWigIO</span>.h"</span></span>
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9
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<pre style="margin: 0;"> <span id="LC9" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#include <inttypes.h></span></span>
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<pre style="margin: 0;">+<span id="LC10" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#include <errno.h></span></span>
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11
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<pre style="margin: 0;"> <span id="LC11" class="line" lang="c"></span>
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9
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12
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<pre style="margin: 0;"> <span id="LC12" class="line" lang="c"><span class="kt" style="color: #458; font-weight: 600;">size_t</span> <span class="n" style="color: #333;">GLOBAL_DEFAULTBUFFERSIZE</span><span class="p">;</span></span>
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13
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<pre style="margin: 0;"> <span id="LC13" class="line" lang="c"></span>
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<pre style="margin: 0;">+<span id="LC14" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#ifndef NOCURL</span></span>
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<pre style="margin: 0;"> <span id="LC15" class="line" lang="c"><span class="kt" style="color: #458; font-weight: 600;">uint64_t</span> <span class="nf" style="color: #900; font-weight: 600;">getContentLength</span><span class="p">(</span><span class="n" style="color: #333;">URL_t</span> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">URL</span><span class="p">)</span> <span class="p">{</span></span>
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12
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<pre style="margin: 0;"> <span id="LC16" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">double</span> <span class="n" style="color: #333;">size</span><span class="p">;</span></span>
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13
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<pre style="margin: 0;"> <span id="LC17" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">curl_easy_getinfo</span><span class="p">(</span><span class="n" style="color: #333;">URL</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">x</span><span class="p">.</span><span class="n" style="color: #333;">curl</span><span class="p">,</span> <span class="n" style="color: #333;">CURLINFO_CONTENT_LENGTH_DOWNLOAD</span><span class="p">,</span> <span class="o" style="font-weight: 600;">&</span><span class="n" style="color: #333;">size</span><span class="p">)</span> <span class="o" style="font-weight: 600;">!=</span> <span class="n" style="color: #333;">CURLE_OK</span><span class="p">)</span> <span class="p">{</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="34" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -34,15 +38,17 @@ CURLcode urlFetchData(URL_t *URL, unsigned long bufSize) {</td>
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<pre style="margin: 0;"> <span id="LC38" class="line" lang="c"> <span class="p">}</span></span>
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<pre style="margin: 0;"> <span id="LC39" class="line" lang="c"></span>
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<pre style="margin: 0;"> <span id="LC40" class="line" lang="c"> <span class="n" style="color: #333;">rv</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">curl_easy_perform</span><span class="p">(</span><span class="n" style="color: #333;">URL</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">x</span><span class="p">.</span><span class="n" style="color: #333;">curl</span><span class="p">);</span></span>
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<pre style="margin: 0;">+<span id="LC41" class="line" lang="c"> <span class="n" style="color: #333;">errno</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">0</span><span class="p">;</span> <span class="c1" style="color: #998; font-style: italic;">//Sometimes curl_easy_perform leaves a random errno remnant</span></span>
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<pre style="margin: 0;"> <span id="LC42" class="line" lang="c"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">rv</span><span class="p">;</span></span>
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<pre style="margin: 0;"> <span id="LC43" class="line" lang="c"><span class="p">}</span></span>
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<pre style="margin: 0;"> <span id="LC44" class="line" lang="c"></span>
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<pre style="margin: 0;"> <span id="LC45" class="line" lang="c"><span class="c1" style="color: #998; font-style: italic;">//Read data into a buffer, ideally from a buffer already in memory</span></span>
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<pre style="margin: 0;"> <span id="LC46" class="line" lang="c"><span class="c1" style="color: #998; font-style: italic;">//The loop is likely no longer needed.</span></span>
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<pre style="margin: 0;"> <span id="LC47" class="line" lang="c"><span class="kt" style="color: #458; font-weight: 600;">size_t</span> <span class="nf" style="color: #900; font-weight: 600;">url_fread</span><span class="p">(</span><span class="kt" style="color: #458; font-weight: 600;">void</span> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">obuf</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">size_t</span> <span class="n" style="color: #333;">obufSize</span><span class="p">,</span> <span class="n" style="color: #333;">URL_t</span> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">URL</span><span class="p">)</span> <span class="p">{</span></span>
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<pre style="margin: 0;">-<span id="LC43" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">size_t</span> <span class="n" style="color: #333;">remaining</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">obufSize</span><span class="p">;</span></span>
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<pre style="margin: 0;">+<span id="LC48" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">size_t</span> <span class="n" style="color: #333;">remaining</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">obufSize</span><span class="p"><span class="idiff left">,</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff right">fetchSize</span></span><span class="p">;</span></span>
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<pre style="margin: 0;"> <span id="LC49" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">void</span> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">p</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">obuf</span><span class="p">;</span></span>
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<pre style="margin: 0;"> <span id="LC50" class="line" lang="c"> <span class="n" style="color: #333;">CURLcode</span> <span class="n" style="color: #333;">rv</span><span class="p">;</span></span>
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<pre style="margin: 0;">+<span id="LC51" class="line" lang="c"></span>
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<pre style="margin: 0;"> <span id="LC52" class="line" lang="c"> <span class="k" style="font-weight: 600;">while</span><span class="p">(</span><span class="n" style="color: #333;">remaining</span><span class="p">)</span> <span class="p">{</span></span>
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<pre style="margin: 0;"> <span id="LC53" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="o" style="font-weight: 600;">!</span><span class="n" style="color: #333;">URL</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">bufLen</span><span class="p">)</span> <span class="p">{</span></span>
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<pre style="margin: 0;"> <span id="LC54" class="line" lang="c"> <span class="n" style="color: #333;">rv</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">urlFetchData</span><span class="p">(</span><span class="n" style="color: #333;">URL</span><span class="p">,</span> <span class="n" style="color: #333;">URL</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">bufSize</span><span class="p">);</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -56,7 +62,12 @@ size_t url_fread(void *obuf, size_t obufSize, URL_t *URL) {</td>
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<pre style="margin: 0;"> <span id="LC62" class="line" lang="c"> <span class="n" style="color: #333;">p</span> <span class="o" style="font-weight: 600;">+=</span> <span class="n" style="color: #333;">URL</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">bufLen</span> <span class="o" style="font-weight: 600;">-</span> <span class="n" style="color: #333;">URL</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">bufPos</span><span class="p">;</span></span>
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<pre style="margin: 0;"> <span id="LC63" class="line" lang="c"> <span class="n" style="color: #333;">remaining</span> <span class="o" style="font-weight: 600;">-=</span> <span class="n" style="color: #333;">URL</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">bufLen</span> <span class="o" style="font-weight: 600;">-</span> <span class="n" style="color: #333;">URL</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">bufPos</span><span class="p">;</span></span>
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<pre style="margin: 0;"> <span id="LC64" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">remaining</span><span class="p">)</span> <span class="p">{</span></span>
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<pre style="margin: 0;">-<span id="LC59" class="line" lang="c"> <span class="n" style="color: #333;">rv</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">urlFetchData</span><span class="p">(</span><span class="n" style="color: #333;">URL</span><span class="p">,</span> <span class="p">(</span><span class="n" style="color: #333;">remaining</span><span class="o" style="font-weight: 600;"><</span><span class="n" style="color: #333;">URL</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">bufSize</span><span class="p">)</span><span class="o" style="font-weight: 600;">?</span><span class="n" style="color: #333;">remaining</span><span class="o" style="font-weight: 600;">:</span><span class="n" style="color: #333;">URL</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">bufSize</span><span class="p">);</span></span>
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<pre style="margin: 0;">+<span id="LC65" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="o" style="font-weight: 600;">!</span><span class="n" style="color: #333;">URL</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">isCompressed</span><span class="p">)</span> <span class="p">{</span></span>
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<pre style="margin: 0;">+<span id="LC66" class="line" lang="c"> <span class="n" style="color: #333;">fetchSize</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">URL</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">bufSize</span><span class="p">;</span></span>
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67
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<pre style="margin: 0;">+<span id="LC67" class="line" lang="c"> <span class="p">}</span> <span class="k" style="font-weight: 600;">else</span> <span class="p">{</span></span>
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68
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<pre style="margin: 0;">+<span id="LC68" class="line" lang="c"> <span class="n" style="color: #333;">fetchSize</span> <span class="o" style="font-weight: 600;">=</span> <span class="p">(</span><span class="n" style="color: #333;">remaining</span><span class="o" style="font-weight: 600;"><</span><span class="n" style="color: #333;">URL</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">bufSize</span><span class="p">)</span><span class="o" style="font-weight: 600;">?</span><span class="n" style="color: #333;">remaining</span><span class="o" style="font-weight: 600;">:</span><span class="n" style="color: #333;">URL</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">bufSize</span><span class="p">;</span></span>
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<pre style="margin: 0;">+<span id="LC69" class="line" lang="c"> <span class="p">}</span></span>
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70
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<pre style="margin: 0;">+<span id="LC70" class="line" lang="c"> <span class="n" style="color: #333;">rv</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">urlFetchData</span><span class="p">(</span><span class="n" style="color: #333;">URL</span><span class="p">,</span> <span class="n" style="color: #333;">fetchSize</span><span class="p">);</span></span>
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71
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<pre style="margin: 0;"> <span id="LC71" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">rv</span> <span class="o" style="font-weight: 600;">!=</span> <span class="n" style="color: #333;">CURLE_OK</span><span class="p">)</span> <span class="p">{</span></span>
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72
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<pre style="margin: 0;"> <span id="LC72" class="line" lang="c"> <span class="n" style="color: #333;">fprintf</span><span class="p">(</span><span class="n" style="color: #333;">stderr</span><span class="p">,</span> <span class="s" style="color: #d14;">"[url_fread] urlFetchData (B) returned %s</span><span class="se" style="color: #d14;">\n</span><span class="s" style="color: #d14;">"</span><span class="p">,</span> <span class="n" style="color: #333;">curl_easy_strerror</span><span class="p">(</span><span class="n" style="color: #333;">rv</span><span class="p">));</span></span>
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<pre style="margin: 0;"> <span id="LC73" class="line" lang="c"> <span class="k" style="font-weight: 600;">return</span> <span class="mi" style="color: #099;">0</span><span class="p">;</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -71,15 +82,20 @@ size_t url_fread(void *obuf, size_t obufSize, URL_t *URL) {</td>
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<pre style="margin: 0;"> <span id="LC82" class="line" lang="c"> <span class="p">}</span></span>
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<pre style="margin: 0;"> <span id="LC83" class="line" lang="c"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">obufSize</span><span class="p">;</span></span>
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<pre style="margin: 0;"> <span id="LC84" class="line" lang="c"><span class="p">}</span></span>
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<pre style="margin: 0;">+<span id="LC85" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#endif</span></span>
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<pre style="margin: 0;"> <span id="LC86" class="line" lang="c"></span>
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<pre style="margin: 0;"> <span id="LC87" class="line" lang="c"><span class="c1" style="color: #998; font-style: italic;">//Returns the number of bytes requested or a smaller number on error</span></span>
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<pre style="margin: 0;"> <span id="LC88" class="line" lang="c"><span class="c1" style="color: #998; font-style: italic;">//Note that in the case of remote files, the actual amount read may be less than the return value!</span></span>
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<pre style="margin: 0;"> <span id="LC89" class="line" lang="c"><span class="kt" style="color: #458; font-weight: 600;">size_t</span> <span class="nf" style="color: #900; font-weight: 600;">urlRead</span><span class="p">(</span><span class="n" style="color: #333;">URL_t</span> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">URL</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">void</span> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">buf</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">size_t</span> <span class="n" style="color: #333;">bufSize</span><span class="p">)</span> <span class="p">{</span></span>
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<pre style="margin: 0;">+<span id="LC90" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#ifndef NOCURL</span></span>
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91
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<pre style="margin: 0;"> <span id="LC91" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">URL</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">type</span><span class="o" style="font-weight: 600;">==</span><span class="mi" style="color: #099;">0</span><span class="p">)</span> <span class="p">{</span></span>
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<pre style="margin: 0;"> <span id="LC92" class="line" lang="c"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">fread</span><span class="p">(</span><span class="n" style="color: #333;">buf</span><span class="p">,</span> <span class="n" style="color: #333;">bufSize</span><span class="p">,</span> <span class="mi" style="color: #099;">1</span><span class="p">,</span> <span class="n" style="color: #333;">URL</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">x</span><span class="p">.</span><span class="n" style="color: #333;">fp</span><span class="p">)</span><span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">bufSize</span><span class="p">;</span></span>
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93
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<pre style="margin: 0;"> <span id="LC93" class="line" lang="c"> <span class="p">}</span> <span class="k" style="font-weight: 600;">else</span> <span class="p">{</span></span>
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81
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94
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<pre style="margin: 0;"> <span id="LC94" class="line" lang="c"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">url_fread</span><span class="p">(</span><span class="n" style="color: #333;">buf</span><span class="p">,</span> <span class="n" style="color: #333;">bufSize</span><span class="p">,</span> <span class="n" style="color: #333;">URL</span><span class="p">);</span></span>
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82
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95
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<pre style="margin: 0;"> <span id="LC95" class="line" lang="c"> <span class="p">}</span></span>
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<td class="diff-line-num new new_line" data-linenumber="96" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
96
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<pre style="margin: 0;">+<span id="LC96" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#else</span></span>
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<td class="diff-line-num new new_line" data-linenumber="97" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
97
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<pre style="margin: 0;">+<span id="LC97" class="line" lang="c"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">fread</span><span class="p">(</span><span class="n" style="color: #333;">buf</span><span class="p">,</span> <span class="n" style="color: #333;">bufSize</span><span class="p">,</span> <span class="mi" style="color: #099;">1</span><span class="p">,</span> <span class="n" style="color: #333;">URL</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">x</span><span class="p">.</span><span class="n" style="color: #333;">fp</span><span class="p">)</span><span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">bufSize</span><span class="p">;</span></span>
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<td class="diff-line-num new new_line" data-linenumber="98" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
98
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<pre style="margin: 0;">+<span id="LC98" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#endif</span></span>
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83
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99
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<pre style="margin: 0;"> <span id="LC99" class="line" lang="c"><span class="p">}</span></span>
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84
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100
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<pre style="margin: 0;"> <span id="LC100" class="line" lang="c"></span>
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85
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101
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<pre style="margin: 0;"> <span id="LC101" class="line" lang="c"><span class="kt" style="color: #458; font-weight: 600;">size_t</span> <span class="nf" style="color: #900; font-weight: 600;">bwFillBuffer</span><span class="p">(</span><span class="kt" style="color: #458; font-weight: 600;">void</span> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">inBuf</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">size_t</span> <span class="n" style="color: #333;">l</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">size_t</span> <span class="n" style="color: #333;">nmemb</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">void</span> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">pURL</span><span class="p">)</span> <span class="p">{</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="102" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="118" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -102,15 +118,19 @@ size_t bwFillBuffer(void *inBuf, size_t l, size_t nmemb, void *pURL) {</td>
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102
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118
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<pre style="margin: 0;"> <span id="LC118" class="line" lang="c"><span class="c1" style="color: #998; font-style: italic;">//Seek to an arbitrary location, returning a CURLcode</span></span>
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103
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119
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<pre style="margin: 0;"> <span id="LC119" class="line" lang="c"><span class="c1" style="color: #998; font-style: italic;">//Note that a local file returns CURLE_OK on success or CURLE_FAILED_INIT on any error;</span></span>
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104
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120
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<pre style="margin: 0;"> <span id="LC120" class="line" lang="c"><span class="n" style="color: #333;">CURLcode</span> <span class="nf" style="color: #900; font-weight: 600;">urlSeek</span><span class="p">(</span><span class="n" style="color: #333;">URL_t</span> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">URL</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">size_t</span> <span class="n" style="color: #333;">pos</span><span class="p">)</span> <span class="p">{</span></span>
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121
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<pre style="margin: 0;">+<span id="LC121" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#ifndef NOCURL</span></span>
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105
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122
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<pre style="margin: 0;"> <span id="LC122" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">char</span> <span class="n" style="color: #333;">range</span><span class="p">[</span><span class="mi" style="color: #099;">1024</span><span class="p">];</span></span>
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106
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123
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<pre style="margin: 0;"> <span id="LC123" class="line" lang="c"> <span class="n" style="color: #333;">CURLcode</span> <span class="n" style="color: #333;">rv</span><span class="p">;</span></span>
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107
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124
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<pre style="margin: 0;"> <span id="LC124" class="line" lang="c"></span>
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108
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125
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<pre style="margin: 0;"> <span id="LC125" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">URL</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">type</span> <span class="o" style="font-weight: 600;">==</span> <span class="n" style="color: #333;">BWG_FILE</span><span class="p">)</span> <span class="p">{</span></span>
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126
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<pre style="margin: 0;">+<span id="LC126" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#endif</span></span>
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109
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<td class="diff-line-num new_line" data-linenumber="127" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
127
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<pre style="margin: 0;"> <span id="LC127" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">fseek</span><span class="p">(</span><span class="n" style="color: #333;">URL</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">x</span><span class="p">.</span><span class="n" style="color: #333;">fp</span><span class="p">,</span> <span class="n" style="color: #333;">pos</span><span class="p">,</span> <span class="n" style="color: #333;">SEEK_SET</span><span class="p">)</span> <span class="o" style="font-weight: 600;">==</span> <span class="mi" style="color: #099;">0</span><span class="p">)</span> <span class="p">{</span></span>
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128
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<pre style="margin: 0;">+<span id="LC128" class="line" lang="c"> <span class="n" style="color: #333;">errno</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">0</span><span class="p">;</span></span>
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110
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129
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<pre style="margin: 0;"> <span id="LC129" class="line" lang="c"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">CURLE_OK</span><span class="p">;</span></span>
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<td class="diff-line-num old_line" data-linenumber="111" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
111
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130
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<pre style="margin: 0;"> <span id="LC130" class="line" lang="c"> <span class="p">}</span> <span class="k" style="font-weight: 600;">else</span> <span class="p">{</span></span>
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<td class="diff-line-num old_line" data-linenumber="112" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
112
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<td class="diff-line-num new_line" data-linenumber="131" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
131
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<pre style="margin: 0;"> <span id="LC131" class="line" lang="c"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">CURLE_FAILED_INIT</span><span class="p">;</span> <span class="c1" style="color: #998; font-style: italic;">//This is arbitrary</span></span>
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113
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132
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<pre style="margin: 0;"> <span id="LC132" class="line" lang="c"> <span class="p">}</span></span>
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133
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<pre style="margin: 0;">+<span id="LC133" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#ifndef NOCURL</span></span>
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<td class="diff-line-num old_line" data-linenumber="114" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
114
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134
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<pre style="margin: 0;"> <span id="LC134" class="line" lang="c"> <span class="p">}</span> <span class="k" style="font-weight: 600;">else</span> <span class="p">{</span></span>
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<td class="diff-line-num old_line" data-linenumber="115" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
115
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135
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<pre style="margin: 0;"> <span id="LC135" class="line" lang="c"> <span class="c1" style="color: #998; font-style: italic;">//If the location is covered by the buffer then don't seek!</span></span>
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116
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136
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<pre style="margin: 0;"> <span id="LC136" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">pos</span> <span class="o" style="font-weight: 600;"><</span> <span class="n" style="color: #333;">URL</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">filePos</span> <span class="o" style="font-weight: 600;">||</span> <span class="n" style="color: #333;">pos</span> <span class="o" style="font-weight: 600;">>=</span> <span class="n" style="color: #333;">URL</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">filePos</span><span class="o" style="font-weight: 600;">+</span><span class="n" style="color: #333;">URL</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">bufSize</span><span class="p">)</span> <span class="p">{</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="128" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="148" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -128,29 +148,37 @@ CURLcode urlSeek(URL_t *URL, size_t pos) {</td>
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128
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148
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<pre style="margin: 0;"> <span id="LC148" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">rv</span> <span class="o" style="font-weight: 600;">!=</span> <span class="n" style="color: #333;">CURLE_OK</span><span class="p">)</span> <span class="p">{</span></span>
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129
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<td class="diff-line-num new_line" data-linenumber="149" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
149
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<pre style="margin: 0;"> <span id="LC149" class="line" lang="c"> <span class="n" style="color: #333;">fprintf</span><span class="p">(</span><span class="n" style="color: #333;">stderr</span><span class="p">,</span> <span class="s" style="color: #d14;">"[urlSeek] curl_easy_perform received an error!</span><span class="se" style="color: #d14;">\n</span><span class="s" style="color: #d14;">"</span><span class="p">);</span></span>
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130
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150
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<pre style="margin: 0;"> <span id="LC150" class="line" lang="c"> <span class="p">}</span></span>
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<td class="diff-line-num new new_line" data-linenumber="151" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
151
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<pre style="margin: 0;">+<span id="LC151" class="line" lang="c"> <span class="n" style="color: #333;">errno</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">0</span><span class="p">;</span> <span class="c1" style="color: #998; font-style: italic;">//Don't propogate remnant resolved libCurl errors</span></span>
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131
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<td class="diff-line-num new_line" data-linenumber="152" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
152
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<pre style="margin: 0;"> <span id="LC152" class="line" lang="c"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">rv</span><span class="p">;</span></span>
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132
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<td class="diff-line-num new_line" data-linenumber="153" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
153
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<pre style="margin: 0;"> <span id="LC153" class="line" lang="c"> <span class="p">}</span> <span class="k" style="font-weight: 600;">else</span> <span class="p">{</span></span>
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133
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<td class="diff-line-num new_line" data-linenumber="154" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
154
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<pre style="margin: 0;"> <span id="LC154" class="line" lang="c"> <span class="n" style="color: #333;">URL</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">bufPos</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">pos</span><span class="o" style="font-weight: 600;">-</span><span class="n" style="color: #333;">URL</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">filePos</span><span class="p">;</span></span>
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134
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155
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<pre style="margin: 0;"> <span id="LC155" class="line" lang="c"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">CURLE_OK</span><span class="p">;</span></span>
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135
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156
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<pre style="margin: 0;"> <span id="LC156" class="line" lang="c"> <span class="p">}</span></span>
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136
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157
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<pre style="margin: 0;"> <span id="LC157" class="line" lang="c"> <span class="p">}</span></span>
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158
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<pre style="margin: 0;">+<span id="LC158" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#endif</span></span>
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137
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159
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<pre style="margin: 0;"> <span id="LC159" class="line" lang="c"><span class="p">}</span></span>
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138
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160
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<pre style="margin: 0;"> <span id="LC160" class="line" lang="c"></span>
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139
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161
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<pre style="margin: 0;"> <span id="LC161" class="line" lang="c"><span class="n" style="color: #333;">URL_t</span> <span class="o" style="font-weight: 600;">*</span><span class="nf" style="color: #900; font-weight: 600;">urlOpen</span><span class="p">(</span><span class="kt" style="color: #458; font-weight: 600;">char</span> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">fname</span><span class="p">,</span> <span class="n" style="color: #333;">CURLcode</span> <span class="p">(</span><span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">callBack</span><span class="p">)(</span><span class="n" style="color: #333;">CURL</span><span class="o" style="font-weight: 600;">*</span><span class="p">),</span> <span class="k" style="font-weight: 600;">const</span> <span class="kt" style="color: #458; font-weight: 600;">char</span> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">mode</span><span class="p">)</span> <span class="p">{</span></span>
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140
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162
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<pre style="margin: 0;"> <span id="LC162" class="line" lang="c"> <span class="n" style="color: #333;">URL_t</span> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">URL</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">calloc</span><span class="p">(</span><span class="mi" style="color: #099;">1</span><span class="p">,</span> <span class="k" style="font-weight: 600;">sizeof</span><span class="p">(</span><span class="n" style="color: #333;">URL_t</span><span class="p">));</span></span>
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<td class="diff-line-num old_line" data-linenumber="141" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
141
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163
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<pre style="margin: 0;"> <span id="LC163" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="o" style="font-weight: 600;">!</span><span class="n" style="color: #333;">URL</span><span class="p">)</span> <span class="k" style="font-weight: 600;">return</span> <span class="nb" style="color: #0086b3;">NULL</span><span class="p">;</span></span>
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<td class="diff-line-num old_line" data-linenumber="142" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
142
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<td class="diff-line-num new_line" data-linenumber="164" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
164
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<pre style="margin: 0;"> <span id="LC164" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">char</span> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">url</span> <span class="o" style="font-weight: 600;">=</span> <span class="nb" style="color: #0086b3;">NULL</span><span class="p">,</span> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">req</span> <span class="o" style="font-weight: 600;">=</span> <span class="nb" style="color: #0086b3;">NULL</span><span class="p">;</span></span>
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<td class="diff-line-num new new_line" data-linenumber="165" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
165
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<pre style="margin: 0;">+<span id="LC165" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#ifndef NOCURL</span></span>
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143
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<td class="diff-line-num new_line" data-linenumber="166" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
166
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<pre style="margin: 0;"> <span id="LC166" class="line" lang="c"> <span class="n" style="color: #333;">CURLcode</span> <span class="n" style="color: #333;">code</span><span class="p">;</span></span>
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<td class="diff-line-num old_line" data-linenumber="144" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
144
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<td class="diff-line-num new_line" data-linenumber="167" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
167
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<pre style="margin: 0;"> <span id="LC167" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">char</span> <span class="n" style="color: #333;">range</span><span class="p">[</span><span class="mi" style="color: #099;">1024</span><span class="p">];</span></span>
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<td class="diff-line-num new new_line" data-linenumber="168" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
168
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<pre style="margin: 0;">+<span id="LC168" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#endif</span></span>
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145
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169
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<pre style="margin: 0;"> <span id="LC169" class="line" lang="c"></span>
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146
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170
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<pre style="margin: 0;"> <span id="LC170" class="line" lang="c"> <span class="n" style="color: #333;">URL</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">fname</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">fname</span><span class="p">;</span></span>
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147
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171
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<pre style="margin: 0;"> <span id="LC171" class="line" lang="c"></span>
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<td class="diff-line-num old_line" data-linenumber="148" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
148
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172
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<pre style="margin: 0;"> <span id="LC172" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">((</span><span class="o" style="font-weight: 600;">!</span><span class="n" style="color: #333;">mode</span><span class="p">)</span> <span class="o" style="font-weight: 600;">||</span> <span class="p">(</span><span class="n" style="color: #333;">strchr</span><span class="p">(</span><span class="n" style="color: #333;">mode</span><span class="p">,</span> <span class="sc" style="color: #d14;">'w'</span><span class="p">)</span> <span class="o" style="font-weight: 600;">==</span> <span class="mi" style="color: #099;">0</span><span class="p">))</span> <span class="p">{</span></span>
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149
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173
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<pre style="margin: 0;"> <span id="LC173" class="line" lang="c"> <span class="c1" style="color: #998; font-style: italic;">//Set the protocol</span></span>
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<td class="diff-line-num new new_line" data-linenumber="174" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
174
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<pre style="margin: 0;">+<span id="LC174" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#ifndef NOCURL</span></span>
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150
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<td class="diff-line-num new_line" data-linenumber="175" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
175
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<pre style="margin: 0;"> <span id="LC175" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">strncmp</span><span class="p">(</span><span class="n" style="color: #333;">fname</span><span class="p">,</span> <span class="s" style="color: #d14;">"http://"</span><span class="p">,</span> <span class="mi" style="color: #099;">7</span><span class="p">)</span> <span class="o" style="font-weight: 600;">==</span> <span class="mi" style="color: #099;">0</span><span class="p">)</span> <span class="n" style="color: #333;">URL</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">type</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">BWG_HTTP</span><span class="p">;</span></span>
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<td class="diff-line-num old_line" data-linenumber="151" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
151
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<td class="diff-line-num new_line" data-linenumber="176" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
176
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<pre style="margin: 0;"> <span id="LC176" class="line" lang="c"> <span class="k" style="font-weight: 600;">else</span> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">strncmp</span><span class="p">(</span><span class="n" style="color: #333;">fname</span><span class="p">,</span> <span class="s" style="color: #d14;">"https://"</span><span class="p">,</span> <span class="mi" style="color: #099;">8</span><span class="p">)</span> <span class="o" style="font-weight: 600;">==</span> <span class="mi" style="color: #099;">0</span><span class="p">)</span> <span class="n" style="color: #333;">URL</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">type</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">BWG_HTTPS</span><span class="p">;</span></span>
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<td class="diff-line-num old_line" data-linenumber="152" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
152
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<td class="diff-line-num new_line" data-linenumber="177" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
177
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<pre style="margin: 0;"> <span id="LC177" class="line" lang="c"> <span class="k" style="font-weight: 600;">else</span> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">strncmp</span><span class="p">(</span><span class="n" style="color: #333;">fname</span><span class="p">,</span> <span class="s" style="color: #d14;">"ftp://"</span><span class="p">,</span> <span class="mi" style="color: #099;">6</span><span class="p">)</span> <span class="o" style="font-weight: 600;">==</span> <span class="mi" style="color: #099;">0</span><span class="p">)</span> <span class="n" style="color: #333;">URL</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">type</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">BWG_FTP</span><span class="p">;</span></span>
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<td class="diff-line-num old_line" data-linenumber="153" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
153
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<td class="diff-line-num new_line" data-linenumber="178" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
178
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<pre style="margin: 0;"> <span id="LC178" class="line" lang="c"> <span class="k" style="font-weight: 600;">else</span> <span class="n" style="color: #333;">URL</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">type</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">BWG_FILE</span><span class="p">;</span></span>
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<td class="diff-line-num new new_line" data-linenumber="179" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
179
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<pre style="margin: 0;">+<span id="LC179" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#else</span></span>
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180
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<pre style="margin: 0;">+<span id="LC180" class="line" lang="c"> <span class="n" style="color: #333;">URL</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">type</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">BWG_FILE</span><span class="p">;</span></span>
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<td class="diff-line-num new old_line" data-linenumber="154" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
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<td class="diff-line-num new new_line" data-linenumber="181" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
181
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<pre style="margin: 0;">+<span id="LC181" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#endif</span></span>
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<td class="diff-line-num old_line" data-linenumber="154" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
154
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<td class="diff-line-num new_line" data-linenumber="182" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
182
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<pre style="margin: 0;"> <span id="LC182" class="line" lang="c"></span>
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<td class="diff-line-num old_line" data-linenumber="155" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
155
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<td class="diff-line-num new_line" data-linenumber="183" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
183
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<pre style="margin: 0;"> <span id="LC183" class="line" lang="c"> <span class="c1" style="color: #998; font-style: italic;">//local file?</span></span>
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<td class="diff-line-num old_line" data-linenumber="156" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
156
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<td class="diff-line-num new_line" data-linenumber="184" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
184
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<pre style="margin: 0;"> <span id="LC184" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">URL</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">type</span> <span class="o" style="font-weight: 600;">==</span> <span class="n" style="color: #333;">BWG_FILE</span><span class="p">)</span> <span class="p">{</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="161" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="189" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -161,6 +189,7 @@ URL_t *urlOpen(char *fname, CURLcode (*callBack)(CURL*), const char *mode) {</td>
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<td class="diff-line-num old_line" data-linenumber="161" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
161
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<td class="diff-line-num new_line" data-linenumber="189" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
189
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<pre style="margin: 0;"> <span id="LC189" class="line" lang="c"> <span class="n" style="color: #333;">fprintf</span><span class="p">(</span><span class="n" style="color: #333;">stderr</span><span class="p">,</span> <span class="s" style="color: #d14;">"[urlOpen] Couldn't open %s for reading</span><span class="se" style="color: #d14;">\n</span><span class="s" style="color: #d14;">"</span><span class="p">,</span> <span class="n" style="color: #333;">fname</span><span class="p">);</span></span>
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<td class="diff-line-num old_line" data-linenumber="162" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
162
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<td class="diff-line-num new_line" data-linenumber="190" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
190
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<pre style="margin: 0;"> <span id="LC190" class="line" lang="c"> <span class="k" style="font-weight: 600;">return</span> <span class="nb" style="color: #0086b3;">NULL</span><span class="p">;</span></span>
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<td class="diff-line-num old_line" data-linenumber="163" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
163
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<td class="diff-line-num new_line" data-linenumber="191" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
191
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<pre style="margin: 0;"> <span id="LC191" class="line" lang="c"> <span class="p">}</span></span>
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<td class="diff-line-num new old_line" data-linenumber="164" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
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<td class="diff-line-num new new_line" data-linenumber="192" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
192
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<pre style="margin: 0;">+<span id="LC192" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#ifndef NOCURL</span></span>
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<td class="diff-line-num old_line" data-linenumber="164" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
164
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<td class="diff-line-num new_line" data-linenumber="193" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
193
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<pre style="margin: 0;"> <span id="LC193" class="line" lang="c"> <span class="p">}</span> <span class="k" style="font-weight: 600;">else</span> <span class="p">{</span></span>
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<td class="diff-line-num old_line" data-linenumber="165" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
165
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<td class="diff-line-num new_line" data-linenumber="194" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
194
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<pre style="margin: 0;"> <span id="LC194" class="line" lang="c"> <span class="c1" style="color: #998; font-style: italic;">//Remote file, set up the memory buffer and get CURL ready</span></span>
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<td class="diff-line-num old_line" data-linenumber="166" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
166
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<td class="diff-line-num new_line" data-linenumber="195" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
195
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<pre style="margin: 0;"> <span id="LC195" class="line" lang="c"> <span class="n" style="color: #333;">URL</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">memBuf</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">malloc</span><span class="p">(</span><span class="n" style="color: #333;">GLOBAL_DEFAULTBUFFERSIZE</span><span class="p">);</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="175" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="204" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -175,6 +204,11 @@ URL_t *urlOpen(char *fname, CURLcode (*callBack)(CURL*), const char *mode) {</td>
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175
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<td class="diff-line-num new_line" data-linenumber="204" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
204
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<pre style="margin: 0;"> <span id="LC204" class="line" lang="c"> <span class="n" style="color: #333;">fprintf</span><span class="p">(</span><span class="n" style="color: #333;">stderr</span><span class="p">,</span> <span class="s" style="color: #d14;">"[urlOpen] curl_easy_init() failed!</span><span class="se" style="color: #d14;">\n</span><span class="s" style="color: #d14;">"</span><span class="p">);</span></span>
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<td class="diff-line-num old_line" data-linenumber="176" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
176
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<td class="diff-line-num new_line" data-linenumber="205" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
205
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<pre style="margin: 0;"> <span id="LC205" class="line" lang="c"> <span class="k" style="font-weight: 600;">goto</span> <span class="n" style="color: #333;">error</span><span class="p">;</span></span>
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<td class="diff-line-num old_line" data-linenumber="177" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
177
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<td class="diff-line-num new_line" data-linenumber="206" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
206
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<pre style="margin: 0;"> <span id="LC206" class="line" lang="c"> <span class="p">}</span></span>
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<td class="diff-line-num new old_line" data-linenumber="178" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
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<td class="diff-line-num new new_line" data-linenumber="207" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
207
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<pre style="margin: 0;">+<span id="LC207" class="line" lang="c"> <span class="c1" style="color: #998; font-style: italic;">//Negotiate a reasonable HTTP authentication method</span></span>
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<td class="diff-line-num new old_line" data-linenumber="178" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
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<td class="diff-line-num new new_line" data-linenumber="208" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
208
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<pre style="margin: 0;">+<span id="LC208" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">curl_easy_setopt</span><span class="p">(</span><span class="n" style="color: #333;">URL</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">x</span><span class="p">.</span><span class="n" style="color: #333;">curl</span><span class="p">,</span> <span class="n" style="color: #333;">CURLOPT_HTTPAUTH</span><span class="p">,</span> <span class="n" style="color: #333;">CURLAUTH_ANY</span><span class="p">)</span> <span class="o" style="font-weight: 600;">!=</span> <span class="n" style="color: #333;">CURLE_OK</span><span class="p">)</span> <span class="p">{</span></span>
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<td class="diff-line-num new old_line" data-linenumber="178" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
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<td class="diff-line-num new new_line" data-linenumber="209" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
209
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<pre style="margin: 0;">+<span id="LC209" class="line" lang="c"> <span class="n" style="color: #333;">fprintf</span><span class="p">(</span><span class="n" style="color: #333;">stderr</span><span class="p">,</span> <span class="s" style="color: #d14;">"[urlOpen] Failed instructing curl to use any HTTP authentication it finds to be suitable!</span><span class="se" style="color: #d14;">\n</span><span class="s" style="color: #d14;">"</span><span class="p">);</span></span>
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<td class="diff-line-num new old_line" data-linenumber="178" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
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<td class="diff-line-num new new_line" data-linenumber="210" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
210
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<pre style="margin: 0;">+<span id="LC210" class="line" lang="c"> <span class="k" style="font-weight: 600;">goto</span> <span class="n" style="color: #333;">error</span><span class="p">;</span></span>
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<td class="diff-line-num new old_line" data-linenumber="178" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
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<td class="diff-line-num new new_line" data-linenumber="211" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
211
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<pre style="margin: 0;">+<span id="LC211" class="line" lang="c"> <span class="p">}</span></span>
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<td class="diff-line-num old_line" data-linenumber="178" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
178
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<td class="diff-line-num new_line" data-linenumber="212" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
212
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<pre style="margin: 0;"> <span id="LC212" class="line" lang="c"> <span class="c1" style="color: #998; font-style: italic;">//Follow redirects</span></span>
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179
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<td class="diff-line-num new_line" data-linenumber="213" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
213
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<pre style="margin: 0;"> <span id="LC213" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">curl_easy_setopt</span><span class="p">(</span><span class="n" style="color: #333;">URL</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">x</span><span class="p">.</span><span class="n" style="color: #333;">curl</span><span class="p">,</span> <span class="n" style="color: #333;">CURLOPT_FOLLOWLOCATION</span><span class="p">,</span> <span class="mi" style="color: #099;">1L</span><span class="p">)</span> <span class="o" style="font-weight: 600;">!=</span> <span class="n" style="color: #333;">CURLE_OK</span><span class="p">)</span> <span class="p">{</span></span>
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<td class="diff-line-num old_line" data-linenumber="180" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
180
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<td class="diff-line-num new_line" data-linenumber="214" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
214
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<pre style="margin: 0;"> <span id="LC214" class="line" lang="c"> <span class="n" style="color: #333;">fprintf</span><span class="p">(</span><span class="n" style="color: #333;">stderr</span><span class="p">,</span> <span class="s" style="color: #d14;">"[urlOpen] Failed instructing curl to follow redirects!</span><span class="se" style="color: #d14;">\n</span><span class="s" style="color: #d14;">"</span><span class="p">);</span></span>
</pre>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="200" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="234" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -200,6 +234,15 @@ URL_t *urlOpen(char *fname, CURLcode (*callBack)(CURL*), const char *mode) {</td>
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200
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<td class="diff-line-num new_line" data-linenumber="234" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
234
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<pre style="margin: 0;"> <span id="LC234" class="line" lang="c"> <span class="n" style="color: #333;">fprintf</span><span class="p">(</span><span class="n" style="color: #333;">stderr</span><span class="p">,</span> <span class="s" style="color: #d14;">"[urlOpen] Couldn't set CURLOPT_WRITEDATA!</span><span class="se" style="color: #d14;">\n</span><span class="s" style="color: #d14;">"</span><span class="p">);</span></span>
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<td class="diff-line-num old_line" data-linenumber="201" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
201
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<td class="diff-line-num new_line" data-linenumber="235" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
235
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<pre style="margin: 0;"> <span id="LC235" class="line" lang="c"> <span class="k" style="font-weight: 600;">goto</span> <span class="n" style="color: #333;">error</span><span class="p">;</span></span>
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<td class="diff-line-num old_line" data-linenumber="202" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
202
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<td class="diff-line-num new_line" data-linenumber="236" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
236
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<pre style="margin: 0;"> <span id="LC236" class="line" lang="c"> <span class="p">}</span></span>
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<td class="diff-line-num new new_line" data-linenumber="237" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
237
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<pre style="margin: 0;">+<span id="LC237" class="line" lang="c"> <span class="c1" style="color: #998; font-style: italic;">//Ignore certificate errors with https, libcurl just isn't reliable enough with conda</span></span>
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<td class="diff-line-num new old_line" data-linenumber="203" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
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<td class="diff-line-num new new_line" data-linenumber="238" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
238
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<pre style="margin: 0;">+<span id="LC238" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">curl_easy_setopt</span><span class="p">(</span><span class="n" style="color: #333;">URL</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">x</span><span class="p">.</span><span class="n" style="color: #333;">curl</span><span class="p">,</span> <span class="n" style="color: #333;">CURLOPT_SSL_VERIFYPEER</span><span class="p">,</span> <span class="mi" style="color: #099;">0</span><span class="p">)</span> <span class="o" style="font-weight: 600;">!=</span> <span class="n" style="color: #333;">CURLE_OK</span><span class="p">)</span> <span class="p">{</span></span>
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<td class="diff-line-num new old_line" data-linenumber="203" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
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<td class="diff-line-num new new_line" data-linenumber="239" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
239
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<pre style="margin: 0;">+<span id="LC239" class="line" lang="c"> <span class="n" style="color: #333;">fprintf</span><span class="p">(</span><span class="n" style="color: #333;">stderr</span><span class="p">,</span> <span class="s" style="color: #d14;">"[urlOpen] Couldn't set CURLOPT_SSL_VERIFYPEER to 0!</span><span class="se" style="color: #d14;">\n</span><span class="s" style="color: #d14;">"</span><span class="p">);</span></span>
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<td class="diff-line-num new new_line" data-linenumber="240" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
240
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<pre style="margin: 0;">+<span id="LC240" class="line" lang="c"> <span class="k" style="font-weight: 600;">goto</span> <span class="n" style="color: #333;">error</span><span class="p">;</span></span>
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<td class="diff-line-num new new_line" data-linenumber="241" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
241
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<pre style="margin: 0;">+<span id="LC241" class="line" lang="c"> <span class="p">}</span></span>
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<td class="diff-line-num new old_line" data-linenumber="203" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
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<td class="diff-line-num new new_line" data-linenumber="242" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
242
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<pre style="margin: 0;">+<span id="LC242" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">curl_easy_setopt</span><span class="p">(</span><span class="n" style="color: #333;">URL</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">x</span><span class="p">.</span><span class="n" style="color: #333;">curl</span><span class="p">,</span> <span class="n" style="color: #333;">CURLOPT_SSL_VERIFYHOST</span><span class="p">,</span> <span class="mi" style="color: #099;">0</span><span class="p">)</span> <span class="o" style="font-weight: 600;">!=</span> <span class="n" style="color: #333;">CURLE_OK</span><span class="p">)</span> <span class="p">{</span></span>
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<td class="diff-line-num new new_line" data-linenumber="243" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
243
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<pre style="margin: 0;">+<span id="LC243" class="line" lang="c"> <span class="n" style="color: #333;">fprintf</span><span class="p">(</span><span class="n" style="color: #333;">stderr</span><span class="p">,</span> <span class="s" style="color: #d14;">"[urlOpen] Couldn't set CURLOPT_SSL_VERIFYHOST to 0!</span><span class="se" style="color: #d14;">\n</span><span class="s" style="color: #d14;">"</span><span class="p">);</span></span>
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<td class="diff-line-num new new_line" data-linenumber="244" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
244
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<pre style="margin: 0;">+<span id="LC244" class="line" lang="c"> <span class="k" style="font-weight: 600;">goto</span> <span class="n" style="color: #333;">error</span><span class="p">;</span></span>
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<td class="diff-line-num new new_line" data-linenumber="245" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
245
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<pre style="margin: 0;">+<span id="LC245" class="line" lang="c"> <span class="p">}</span></span>
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<td class="diff-line-num old_line" data-linenumber="203" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
203
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<td class="diff-line-num new_line" data-linenumber="246" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
246
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<pre style="margin: 0;"> <span id="LC246" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">callBack</span><span class="p">)</span> <span class="p">{</span></span>
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<td class="diff-line-num old_line" data-linenumber="204" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
204
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<td class="diff-line-num new_line" data-linenumber="247" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
247
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<pre style="margin: 0;"> <span id="LC247" class="line" lang="c"> <span class="n" style="color: #333;">code</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">callBack</span><span class="p">(</span><span class="n" style="color: #333;">URL</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">x</span><span class="p">.</span><span class="n" style="color: #333;">curl</span><span class="p">);</span></span>
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<td class="diff-line-num old_line" data-linenumber="205" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
205
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<td class="diff-line-num new_line" data-linenumber="248" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
248
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<pre style="margin: 0;"> <span id="LC248" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">code</span> <span class="o" style="font-weight: 600;">!=</span> <span class="n" style="color: #333;">CURLE_OK</span><span class="p">)</span> <span class="p">{</span></span>
</pre>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="208" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="251" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -208,10 +251,12 @@ URL_t *urlOpen(char *fname, CURLcode (*callBack)(CURL*), const char *mode) {</td>
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208
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<td class="diff-line-num new_line" data-linenumber="251" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
251
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<pre style="margin: 0;"> <span id="LC251" class="line" lang="c"> <span class="p">}</span></span>
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<td class="diff-line-num old_line" data-linenumber="209" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
209
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<td class="diff-line-num new_line" data-linenumber="252" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
252
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<pre style="margin: 0;"> <span id="LC252" class="line" lang="c"> <span class="p">}</span></span>
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210
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<td class="diff-line-num new_line" data-linenumber="253" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
253
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<pre style="margin: 0;"> <span id="LC253" class="line" lang="c"> <span class="n" style="color: #333;">code</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">curl_easy_perform</span><span class="p">(</span><span class="n" style="color: #333;">URL</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">x</span><span class="p">.</span><span class="n" style="color: #333;">curl</span><span class="p">);</span></span>
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<td class="diff-line-num new old_line" data-linenumber="211" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
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<td class="diff-line-num new new_line" data-linenumber="254" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
254
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<pre style="margin: 0;">+<span id="LC254" class="line" lang="c"> <span class="n" style="color: #333;">errno</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">0</span><span class="p">;</span> <span class="c1" style="color: #998; font-style: italic;">//Sometimes curl_easy_perform leaves a random errno remnant</span></span>
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<td class="diff-line-num old_line" data-linenumber="211" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
211
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<td class="diff-line-num new_line" data-linenumber="255" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
255
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<pre style="margin: 0;"> <span id="LC255" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">code</span> <span class="o" style="font-weight: 600;">!=</span> <span class="n" style="color: #333;">CURLE_OK</span><span class="p">)</span> <span class="p">{</span></span>
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<td class="diff-line-num old_line" data-linenumber="212" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
212
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<td class="diff-line-num new_line" data-linenumber="256" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
256
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<pre style="margin: 0;"> <span id="LC256" class="line" lang="c"> <span class="n" style="color: #333;">fprintf</span><span class="p">(</span><span class="n" style="color: #333;">stderr</span><span class="p">,</span> <span class="s" style="color: #d14;">"[urlOpen] curl_easy_perform received an error: %s</span><span class="se" style="color: #d14;">\n</span><span class="s" style="color: #d14;">"</span><span class="p">,</span> <span class="n" style="color: #333;">curl_easy_strerror</span><span class="p">(</span><span class="n" style="color: #333;">code</span><span class="p">));</span></span>
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<td class="diff-line-num old_line" data-linenumber="213" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
213
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<td class="diff-line-num new_line" data-linenumber="257" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
257
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<pre style="margin: 0;"> <span id="LC257" class="line" lang="c"> <span class="k" style="font-weight: 600;">goto</span> <span class="n" style="color: #333;">error</span><span class="p">;</span></span>
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214
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258
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<pre style="margin: 0;"> <span id="LC258" class="line" lang="c"> <span class="p">}</span></span>
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<td class="diff-line-num new new_line" data-linenumber="259" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
259
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<pre style="margin: 0;">+<span id="LC259" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#endif</span></span>
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215
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260
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<pre style="margin: 0;"> <span id="LC260" class="line" lang="c"> <span class="p">}</span></span>
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<td class="diff-line-num old_line" data-linenumber="216" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
216
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<td class="diff-line-num new_line" data-linenumber="261" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
261
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<pre style="margin: 0;"> <span id="LC261" class="line" lang="c"> <span class="p">}</span> <span class="k" style="font-weight: 600;">else</span> <span class="p">{</span></span>
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<td class="diff-line-num old_line" data-linenumber="217" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
217
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262
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<pre style="margin: 0;"> <span id="LC262" class="line" lang="c"> <span class="n" style="color: #333;">URL</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">type</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">BWG_FILE</span><span class="p">;</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="226" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="271" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -226,6 +271,7 @@ URL_t *urlOpen(char *fname, CURLcode (*callBack)(CURL*), const char *mode) {</td>
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<td class="diff-line-num old_line" data-linenumber="226" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
226
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<td class="diff-line-num new_line" data-linenumber="271" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
271
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<pre style="margin: 0;"> <span id="LC271" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">req</span><span class="p">)</span> <span class="n" style="color: #333;">free</span><span class="p">(</span><span class="n" style="color: #333;">req</span><span class="p">);</span></span>
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227
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272
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<pre style="margin: 0;"> <span id="LC272" class="line" lang="c"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">URL</span><span class="p">;</span></span>
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228
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<td class="diff-line-num new_line" data-linenumber="273" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
273
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<pre style="margin: 0;"> <span id="LC273" class="line" lang="c"></span>
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<td class="diff-line-num new new_line" data-linenumber="274" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
274
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<pre style="margin: 0;">+<span id="LC274" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#ifndef NOCURL</span></span>
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<td class="diff-line-num old_line" data-linenumber="229" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
229
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<td class="diff-line-num new_line" data-linenumber="275" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
275
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<pre style="margin: 0;"> <span id="LC275" class="line" lang="c"><span class="nl">error:</span></span>
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<td class="diff-line-num old_line" data-linenumber="230" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
230
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<td class="diff-line-num new_line" data-linenumber="276" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
276
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<pre style="margin: 0;"> <span id="LC276" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">url</span><span class="p">)</span> <span class="n" style="color: #333;">free</span><span class="p">(</span><span class="n" style="color: #333;">url</span><span class="p">);</span></span>
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<td class="diff-line-num old_line" data-linenumber="231" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
231
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<td class="diff-line-num new_line" data-linenumber="277" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
277
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<pre style="margin: 0;"> <span id="LC277" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">req</span><span class="p">)</span> <span class="n" style="color: #333;">free</span><span class="p">(</span><span class="n" style="color: #333;">req</span><span class="p">);</span></span>
</pre>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="233" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="279" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -233,15 +279,18 @@ error:</td>
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233
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279
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<pre style="margin: 0;"> <span id="LC279" class="line" lang="c"> <span class="n" style="color: #333;">curl_easy_cleanup</span><span class="p">(</span><span class="n" style="color: #333;">URL</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">x</span><span class="p">.</span><span class="n" style="color: #333;">curl</span><span class="p">);</span></span>
</pre>
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<td class="diff-line-num old_line" data-linenumber="234" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
234
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<td class="diff-line-num new_line" data-linenumber="280" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
280
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<pre style="margin: 0;"> <span id="LC280" class="line" lang="c"> <span class="n" style="color: #333;">free</span><span class="p">(</span><span class="n" style="color: #333;">URL</span><span class="p">);</span></span>
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<td class="diff-line-num old_line" data-linenumber="235" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
235
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<td class="diff-line-num new_line" data-linenumber="281" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
281
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<pre style="margin: 0;"> <span id="LC281" class="line" lang="c"> <span class="k" style="font-weight: 600;">return</span> <span class="nb" style="color: #0086b3;">NULL</span><span class="p">;</span></span>
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<td class="diff-line-num new old_line" data-linenumber="236" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
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282
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<pre style="margin: 0;">+<span id="LC282" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#endif</span></span>
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<pre style="margin: 0;"> <span id="LC283" class="line" lang="c"><span class="p">}</span></span>
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<pre style="margin: 0;"> <span id="LC284" class="line" lang="c"></span>
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<pre style="margin: 0;"> <span id="LC285" class="line" lang="c"><span class="c1" style="color: #998; font-style: italic;">//Performs the necessary free() operations and handles cleaning up curl</span></span>
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286
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<pre style="margin: 0;"> <span id="LC286" class="line" lang="c"><span class="kt" style="color: #458; font-weight: 600;">void</span> <span class="nf" style="color: #900; font-weight: 600;">urlClose</span><span class="p">(</span><span class="n" style="color: #333;">URL_t</span> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">URL</span><span class="p">)</span> <span class="p">{</span></span>
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240
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287
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<pre style="margin: 0;"> <span id="LC287" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">URL</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">type</span> <span class="o" style="font-weight: 600;">==</span> <span class="n" style="color: #333;">BWG_FILE</span><span class="p">)</span> <span class="p">{</span></span>
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241
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288
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<pre style="margin: 0;"> <span id="LC288" class="line" lang="c"> <span class="n" style="color: #333;">fclose</span><span class="p">(</span><span class="n" style="color: #333;">URL</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">x</span><span class="p">.</span><span class="n" style="color: #333;">fp</span><span class="p">);</span></span>
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289
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<pre style="margin: 0;">+<span id="LC289" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#ifndef NOCURL</span></span>
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290
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<pre style="margin: 0;"> <span id="LC290" class="line" lang="c"> <span class="p">}</span> <span class="k" style="font-weight: 600;">else</span> <span class="p">{</span></span>
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291
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<pre style="margin: 0;"> <span id="LC291" class="line" lang="c"> <span class="n" style="color: #333;">free</span><span class="p">(</span><span class="n" style="color: #333;">URL</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">memBuf</span><span class="p">);</span></span>
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244
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292
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<pre style="margin: 0;"> <span id="LC292" class="line" lang="c"> <span class="n" style="color: #333;">curl_easy_cleanup</span><span class="p">(</span><span class="n" style="color: #333;">URL</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">x</span><span class="p">.</span><span class="n" style="color: #333;">curl</span><span class="p">);</span></span>
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<pre style="margin: 0;">+<span id="LC293" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#endif</span></span>
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<pre style="margin: 0;"> <span id="LC294" class="line" lang="c"> <span class="p">}</span></span>
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<pre style="margin: 0;"> <span id="LC295" class="line" lang="c"> <span class="n" style="color: #333;">free</span><span class="p">(</span><span class="n" style="color: #333;">URL</span><span class="p">);</span></span>
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<pre style="margin: 0;"> <span id="LC296" class="line" lang="c"><span class="p">}</span></span></pre>
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<a href="https://salsa.debian.org/med-team/pybigwig/commit/7a3cc3ffe926943e0b3385270e067db9ef3f3967#ae58b3ba4c54b6fadb279decb1690b71b8be4857"><strong>pyBigWig.c</strong></a>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -119,6 +119,7 @@ error:</td>
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<pre style="margin: 0;"> <span id="LC119" class="line" lang="c"> <span class="k" style="font-weight: 600;">return</span> <span class="mi" style="color: #099;">0</span><span class="p">;</span></span>
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<pre style="margin: 0;"> <span id="LC120" class="line" lang="c"><span class="p">}</span></span>
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<pre style="margin: 0;"> <span id="LC121" class="line" lang="c"></span>
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<pre style="margin: 0;">+<span id="LC122" class="line" lang="c"><span class="c1" style="color: #998; font-style: italic;">//The calling function needs to free the result</span></span>
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122
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<pre style="margin: 0;"> <span id="LC123" class="line" lang="c"><span class="kt" style="color: #458; font-weight: 600;">char</span> <span class="o" style="font-weight: 600;">*</span><span class="nf" style="color: #900; font-weight: 600;">getNumpyStr</span><span class="p">(</span><span class="n" style="color: #333;">PyArrayObject</span> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">obj</span><span class="p">,</span> <span class="n" style="color: #333;">Py_ssize_t</span> <span class="n" style="color: #333;">i</span><span class="p">)</span> <span class="p">{</span></span>
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<pre style="margin: 0;"> <span id="LC124" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">char</span> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">p</span> <span class="p">,</span> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">o</span> <span class="o" style="font-weight: 600;">=</span> <span class="nb" style="color: #0086b3;">NULL</span><span class="p">;</span></span>
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124
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<pre style="margin: 0;"> <span id="LC125" class="line" lang="c"> <span class="n" style="color: #333;">npy_intp</span> <span class="n" style="color: #333;">stride</span><span class="p">,</span> <span class="n" style="color: #333;">j</span><span class="p">;</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -137,7 +138,7 @@ char *getNumpyStr(PyArrayObject *obj, Py_ssize_t i) {</td>
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137
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138
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<pre style="margin: 0;"> <span id="LC138" class="line" lang="c"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">o</span><span class="p">;</span></span>
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138
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139
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<pre style="margin: 0;"> <span id="LC139" class="line" lang="c"> <span class="k" style="font-weight: 600;">case</span> <span class="n" style="color: #333;">NPY_UNICODE</span><span class="p">:</span></span>
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139
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140
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<pre style="margin: 0;"> <span id="LC140" class="line" lang="c"> <span class="n" style="color: #333;">o</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">calloc</span><span class="p">(</span><span class="mi" style="color: #099;">1</span><span class="p">,</span> <span class="n" style="color: #333;">stride</span><span class="o" style="font-weight: 600;">/</span><span class="mi" style="color: #099;">4</span> <span class="o" style="font-weight: 600;">+</span> <span class="mi" style="color: #099;">1</span><span class="p">);</span></span>
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140
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<pre style="margin: 0;">-<span id="LC140" class="line" lang="c"> <span class="k" style="font-weight: 600;">for</span><span class="p">(</span><span class="n" style="color: #333;">j</span><span class="o" style="font-weight: 600;">=</span><span class="mi" style="color: #099;">0</span><span class="p">;</span> <span class="n" style="color: #333;">j</span><span class="o" style="font-weight: 600;"><</span><span class="n" style="color: #333;">stride</span><span class="o" style="font-weight: 600;">/</span><span class="mi" style="color: #099;">4</span><span class="p">;</span> <span class="n" style="color: #333;">j</span><span class="o" style="font-weight: 600;">++</span><span class="p">)</span> <span class="n" style="color: #333;">o</span><span class="p">[</span><span class="n" style="color: #333;">j</span><span class="p">]</span> <span class="o" style="font-weight: 600;">=</span> <span class="p">(</span><span class="kt" style="color: #458; font-weight: 600;">char</span><span class="p">)</span> <span class="p">((</span><span class="kt" style="color: #458; font-weight: 600;">uint32_t</span><span class="o" style="font-weight: 600;">*</span><span class="p">)</span><span class="n" style="color: #333;">p</span><span class="p">)[</span><span class="mi" style="color: #099;"><span class="idiff left">4</span></span><span class="o" style="font-weight: 600;"><span class="idiff right">*</span></span><span class="n" style="color: #333;">j</span><span class="p">];</span></span>
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141
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<pre style="margin: 0;">+<span id="LC141" class="line" lang="c"> <span class="k" style="font-weight: 600;">for</span><span class="p">(</span><span class="n" style="color: #333;">j</span><span class="o" style="font-weight: 600;">=</span><span class="mi" style="color: #099;">0</span><span class="p">;</span> <span class="n" style="color: #333;">j</span><span class="o" style="font-weight: 600;"><</span><span class="n" style="color: #333;">stride</span><span class="o" style="font-weight: 600;">/</span><span class="mi" style="color: #099;">4</span><span class="p">;</span> <span class="n" style="color: #333;">j</span><span class="o" style="font-weight: 600;">++</span><span class="p">)</span> <span class="n" style="color: #333;">o</span><span class="p">[</span><span class="n" style="color: #333;">j</span><span class="p">]</span> <span class="o" style="font-weight: 600;">=</span> <span class="p">(</span><span class="kt" style="color: #458; font-weight: 600;">char</span><span class="p">)</span> <span class="p">((</span><span class="kt" style="color: #458; font-weight: 600;">uint32_t</span><span class="o" style="font-weight: 600;">*</span><span class="p">)</span><span class="n" style="color: #333;">p</span><span class="p">)[</span><span class="n" style="color: #333;">j</span><span class="p">];</span></span>
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141
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<pre style="margin: 0;"> <span id="LC142" class="line" lang="c"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">o</span><span class="p">;</span></span>
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142
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143
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<pre style="margin: 0;"> <span id="LC143" class="line" lang="c"> <span class="nl">default:</span></span>
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143
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144
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<pre style="margin: 0;"> <span id="LC144" class="line" lang="c"> <span class="n" style="color: #333;">PyErr_SetString</span><span class="p">(</span><span class="n" style="color: #333;">PyExc_RuntimeError</span><span class="p">,</span> <span class="s" style="color: #d14;">"Received unknown data type!</span><span class="se" style="color: #d14;">\n</span><span class="s" style="color: #d14;">"</span><span class="p">);</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="147" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="148" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -147,6 +148,25 @@ char *getNumpyStr(PyArrayObject *obj, Py_ssize_t i) {</td>
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148
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<pre style="margin: 0;"> <span id="LC148" class="line" lang="c"><span class="p">}</span></span>
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149
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<pre style="margin: 0;"> <span id="LC149" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#endif</span></span>
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150
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<pre style="margin: 0;"> <span id="LC150" class="line" lang="c"></span>
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<pre style="margin: 0;">+<span id="LC151" class="line" lang="c"><span class="c1" style="color: #998; font-style: italic;">//Return 1 if there are any entries at all</span></span>
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152
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<pre style="margin: 0;">+<span id="LC152" class="line" lang="c"><span class="kt" style="color: #458; font-weight: 600;">int</span> <span class="nf" style="color: #900; font-weight: 600;">hasEntries</span><span class="p">(</span><span class="n" style="color: #333;">bigWigFile_t</span> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">bw</span><span class="p">)</span> <span class="p">{</span></span>
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153
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<pre style="margin: 0;">+<span id="LC153" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">bw</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">hdr</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">nBasesCovered</span> <span class="o" style="font-weight: 600;">></span> <span class="mi" style="color: #099;">0</span><span class="p">)</span> <span class="k" style="font-weight: 600;">return</span> <span class="mi" style="color: #099;">1</span><span class="p">;</span></span>
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154
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<pre style="margin: 0;">+<span id="LC154" class="line" lang="c"> <span class="k" style="font-weight: 600;">return</span> <span class="mi" style="color: #099;">0</span><span class="p">;</span></span>
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<pre style="margin: 0;">+<span id="LC155" class="line" lang="c"><span class="p">}</span></span>
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<pre style="margin: 0;">+<span id="LC156" class="line" lang="c"></span>
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<pre style="margin: 0;">+<span id="LC157" class="line" lang="c"><span class="n" style="color: #333;">PyObject</span><span class="o" style="font-weight: 600;">*</span> <span class="nf" style="color: #900; font-weight: 600;">pyBwEnter</span><span class="p">(</span><span class="n" style="color: #333;">pyBigWigFile_t</span><span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">self</span><span class="p">,</span> <span class="n" style="color: #333;">PyObject</span> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">args</span><span class="p">)</span> <span class="p">{</span></span>
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158
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<pre style="margin: 0;">+<span id="LC158" class="line" lang="c"> <span class="n" style="color: #333;">bigWigFile_t</span> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">bw</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">self</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">bw</span><span class="p">;</span></span>
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159
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<pre style="margin: 0;">+<span id="LC159" class="line" lang="c"></span>
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160
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<pre style="margin: 0;">+<span id="LC160" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="o" style="font-weight: 600;">!</span><span class="n" style="color: #333;">bw</span><span class="p">)</span> <span class="p">{</span></span>
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161
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<pre style="margin: 0;">+<span id="LC161" class="line" lang="c"> <span class="n" style="color: #333;">PyErr_SetString</span><span class="p">(</span><span class="n" style="color: #333;">PyExc_RuntimeError</span><span class="p">,</span> <span class="s" style="color: #d14;">"The bigWig file handle is not opened!"</span><span class="p">);</span></span>
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162
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<pre style="margin: 0;">+<span id="LC162" class="line" lang="c"> <span class="k" style="font-weight: 600;">return</span> <span class="nb" style="color: #0086b3;">NULL</span><span class="p">;</span></span>
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163
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<pre style="margin: 0;">+<span id="LC163" class="line" lang="c"> <span class="p">}</span></span>
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164
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<pre style="margin: 0;">+<span id="LC164" class="line" lang="c"></span>
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165
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<pre style="margin: 0;">+<span id="LC165" class="line" lang="c"> <span class="n" style="color: #333;">Py_INCREF</span><span class="p">(</span><span class="n" style="color: #333;">self</span><span class="p">);</span></span>
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166
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<pre style="margin: 0;">+<span id="LC166" class="line" lang="c"></span>
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167
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<pre style="margin: 0;">+<span id="LC167" class="line" lang="c"> <span class="k" style="font-weight: 600;">return</span> <span class="p">(</span><span class="n" style="color: #333;">PyObject</span><span class="o" style="font-weight: 600;">*</span><span class="p">)</span> <span class="n" style="color: #333;">self</span><span class="p">;</span></span>
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168
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<pre style="margin: 0;">+<span id="LC168" class="line" lang="c"><span class="p">}</span></span>
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169
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<pre style="margin: 0;">+<span id="LC169" class="line" lang="c"></span>
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150
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170
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<pre style="margin: 0;"> <span id="LC170" class="line" lang="c"><span class="n" style="color: #333;">PyObject</span><span class="o" style="font-weight: 600;">*</span> <span class="nf" style="color: #900; font-weight: 600;">pyBwOpen</span><span class="p">(</span><span class="n" style="color: #333;">PyObject</span> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">self</span><span class="p">,</span> <span class="n" style="color: #333;">PyObject</span> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">pyFname</span><span class="p">)</span> <span class="p">{</span></span>
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151
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171
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<pre style="margin: 0;"> <span id="LC171" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">char</span> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">fname</span> <span class="o" style="font-weight: 600;">=</span> <span class="nb" style="color: #0086b3;">NULL</span><span class="p">;</span></span>
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152
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172
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<pre style="margin: 0;"> <span id="LC172" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">char</span> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">mode</span> <span class="o" style="font-weight: 600;">=</span> <span class="s" style="color: #d14;">"r"</span><span class="p">;</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="161" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="181" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -161,13 +181,19 @@ PyObject* pyBwOpen(PyObject *self, PyObject *pyFname) {</td>
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161
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181
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<pre style="margin: 0;"> <span id="LC181" class="line" lang="c"> <span class="p">}</span> <span class="k" style="font-weight: 600;">else</span> <span class="p">{</span></span>
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162
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182
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<pre style="margin: 0;"> <span id="LC182" class="line" lang="c"> <span class="n" style="color: #333;">bw</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">bbOpen</span><span class="p">(</span><span class="n" style="color: #333;">fname</span><span class="p">,</span> <span class="nb" style="color: #0086b3;">NULL</span><span class="p">);</span></span>
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163
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183
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<pre style="margin: 0;"> <span id="LC183" class="line" lang="c"> <span class="p">}</span></span>
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164
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<pre style="margin: 0;">-<span id="LC164" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="o" style="font-weight: 600;">!</span><span class="n" style="color: #333;">bw</span><span class="p">)</span> <span class="k" style="font-weight: 600;">goto</span> <span class="n" style="color: #333;">error</span><span class="p">;</span></span>
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<td class="diff-line-num new new_line" data-linenumber="184" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
184
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<pre style="margin: 0;">+<span id="LC184" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="o" style="font-weight: 600;">!</span><span class="n" style="color: #333;">bw</span><span class="p">)</span> <span class="p">{</span></span>
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<td class="diff-line-num new new_line" data-linenumber="185" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
185
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<pre style="margin: 0;">+<span id="LC185" class="line" lang="c"> <span class="n" style="color: #333;">fprintf</span><span class="p">(</span><span class="n" style="color: #333;">stderr</span><span class="p">,</span> <span class="s" style="color: #d14;">"[pyBwOpen] bw is NULL!</span><span class="se" style="color: #d14;">\n</span><span class="s" style="color: #d14;">"</span><span class="p">);</span></span>
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186
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<pre style="margin: 0;">+<span id="LC186" class="line" lang="c"> <span class="k" style="font-weight: 600;">goto</span> <span class="n" style="color: #333;">error</span><span class="p">;</span></span>
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<td class="diff-line-num new new_line" data-linenumber="187" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
187
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<pre style="margin: 0;">+<span id="LC187" class="line" lang="c"> <span class="p">}</span></span>
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165
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<td class="diff-line-num new_line" data-linenumber="188" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
188
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<pre style="margin: 0;"> <span id="LC188" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="o" style="font-weight: 600;">!</span><span class="n" style="color: #333;">mode</span> <span class="o" style="font-weight: 600;">||</span> <span class="o" style="font-weight: 600;">!</span><span class="n" style="color: #333;">strchr</span><span class="p">(</span><span class="n" style="color: #333;">mode</span><span class="p">,</span> <span class="sc" style="color: #d14;">'w'</span><span class="p">))</span> <span class="p">{</span></span>
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<td class="diff-line-num old_line" data-linenumber="166" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
166
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<td class="diff-line-num new_line" data-linenumber="189" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
189
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<pre style="margin: 0;"> <span id="LC189" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="o" style="font-weight: 600;">!</span><span class="n" style="color: #333;">bw</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">cl</span><span class="p">)</span> <span class="k" style="font-weight: 600;">goto</span> <span class="n" style="color: #333;">error</span><span class="p">;</span></span>
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167
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190
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<pre style="margin: 0;"> <span id="LC190" class="line" lang="c"> <span class="p">}</span></span>
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168
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191
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<pre style="margin: 0;"> <span id="LC191" class="line" lang="c"></span>
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169
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<td class="diff-line-num new_line" data-linenumber="192" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
192
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<pre style="margin: 0;"> <span id="LC192" class="line" lang="c"> <span class="n" style="color: #333;">pybw</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">PyObject_New</span><span class="p">(</span><span class="n" style="color: #333;">pyBigWigFile_t</span><span class="p">,</span> <span class="o" style="font-weight: 600;">&</span><span class="n" style="color: #333;">bigWigFile</span><span class="p">);</span></span>
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170
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<td class="diff-line-num new_line old" data-linenumber="193" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC170" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="o" style="font-weight: 600;">!</span><span class="n" style="color: #333;">pybw</span><span class="p">)</span> <span class="k" style="font-weight: 600;">goto</span> <span class="n" style="color: #333;">error</span><span class="p">;</span></span>
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<td class="diff-line-num new new_line" data-linenumber="193" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
193
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<pre style="margin: 0;">+<span id="LC193" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="o" style="font-weight: 600;">!</span><span class="n" style="color: #333;">pybw</span><span class="p">)</span> <span class="p">{</span></span>
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<td class="diff-line-num new old_line" data-linenumber="171" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
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<td class="diff-line-num new new_line" data-linenumber="194" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
194
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<pre style="margin: 0;">+<span id="LC194" class="line" lang="c"> <span class="n" style="color: #333;">fprintf</span><span class="p">(</span><span class="n" style="color: #333;">stderr</span><span class="p">,</span> <span class="s" style="color: #d14;">"[pyBwOpen] PyObject_New() returned NULL (out of memory?)!</span><span class="se" style="color: #d14;">\n</span><span class="s" style="color: #d14;">"</span><span class="p">);</span></span>
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<td class="diff-line-num new new_line" data-linenumber="195" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
195
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<pre style="margin: 0;">+<span id="LC195" class="line" lang="c"> <span class="k" style="font-weight: 600;">goto</span> <span class="n" style="color: #333;">error</span><span class="p">;</span></span>
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<td class="diff-line-num new new_line" data-linenumber="196" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
196
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<pre style="margin: 0;">+<span id="LC196" class="line" lang="c"> <span class="p">}</span></span>
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171
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<td class="diff-line-num new_line" data-linenumber="197" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
197
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<pre style="margin: 0;"> <span id="LC197" class="line" lang="c"> <span class="n" style="color: #333;">pybw</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">bw</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">bw</span><span class="p">;</span></span>
</pre>
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<td class="diff-line-num old_line" data-linenumber="172" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
172
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<td class="diff-line-num new_line" data-linenumber="198" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
198
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<pre style="margin: 0;"> <span id="LC198" class="line" lang="c"> <span class="n" style="color: #333;">pybw</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">lastTid</span> <span class="o" style="font-weight: 600;">=</span> <span class="o" style="font-weight: 600;">-</span><span class="mi" style="color: #099;">1</span><span class="p">;</span></span>
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<td class="diff-line-num old_line" data-linenumber="173" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
173
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<td class="diff-line-num new_line" data-linenumber="199" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
199
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<pre style="margin: 0;"> <span id="LC199" class="line" lang="c"> <span class="n" style="color: #333;">pybw</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">lastType</span> <span class="o" style="font-weight: 600;">=</span> <span class="o" style="font-weight: 600;">-</span><span class="mi" style="color: #099;">1</span><span class="p">;</span></span>
</pre>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="199" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="225" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -199,6 +225,11 @@ static PyObject *pyBwGetHeader(pyBigWigFile_t *self, PyObject *args) {</td>
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<td class="diff-line-num old_line" data-linenumber="199" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
199
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<td class="diff-line-num new_line" data-linenumber="225" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
225
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<pre style="margin: 0;"> <span id="LC225" class="line" lang="c"> <span class="n" style="color: #333;">bigWigFile_t</span> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">bw</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">self</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">bw</span><span class="p">;</span></span>
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<td class="diff-line-num old_line" data-linenumber="200" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
200
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<td class="diff-line-num new_line" data-linenumber="226" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
226
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<pre style="margin: 0;"> <span id="LC226" class="line" lang="c"> <span class="n" style="color: #333;">PyObject</span> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">ret</span><span class="p">,</span> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">val</span><span class="p">;</span></span>
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201
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<td class="diff-line-num new_line" data-linenumber="227" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
227
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<pre style="margin: 0;"> <span id="LC227" class="line" lang="c"></span>
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<td class="diff-line-num new new_line" data-linenumber="228" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
228
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<pre style="margin: 0;">+<span id="LC228" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="o" style="font-weight: 600;">!</span><span class="n" style="color: #333;">bw</span><span class="p">)</span> <span class="p">{</span></span>
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<td class="diff-line-num new new_line" data-linenumber="229" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
229
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<pre style="margin: 0;">+<span id="LC229" class="line" lang="c"> <span class="n" style="color: #333;">PyErr_SetString</span><span class="p">(</span><span class="n" style="color: #333;">PyExc_RuntimeError</span><span class="p">,</span> <span class="s" style="color: #d14;">"The bigWig file handle is not opened!"</span><span class="p">);</span></span>
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230
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<pre style="margin: 0;">+<span id="LC230" class="line" lang="c"> <span class="k" style="font-weight: 600;">return</span> <span class="nb" style="color: #0086b3;">NULL</span><span class="p">;</span></span>
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231
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<pre style="margin: 0;">+<span id="LC231" class="line" lang="c"> <span class="p">}</span></span>
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232
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<pre style="margin: 0;">+<span id="LC232" class="line" lang="c"></span>
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202
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<td class="diff-line-num new_line" data-linenumber="233" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
233
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<pre style="margin: 0;"> <span id="LC233" class="line" lang="c"> <span class="n" style="color: #333;">ret</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">PyDict_New</span><span class="p">();</span></span>
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203
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<td class="diff-line-num new_line" data-linenumber="234" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
234
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<pre style="margin: 0;"> <span id="LC234" class="line" lang="c"> <span class="n" style="color: #333;">val</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">PyLong_FromUnsignedLong</span><span class="p">(</span><span class="n" style="color: #333;">bw</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">hdr</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">version</span><span class="p">);</span></span>
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204
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<td class="diff-line-num new_line" data-linenumber="235" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
235
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<pre style="margin: 0;"> <span id="LC235" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">PyDict_SetItemString</span><span class="p">(</span><span class="n" style="color: #333;">ret</span><span class="p">,</span> <span class="s" style="color: #d14;">"version"</span><span class="p">,</span> <span class="n" style="color: #333;">val</span><span class="p">)</span> <span class="o" style="font-weight: 600;">==</span> <span class="o" style="font-weight: 600;">-</span><span class="mi" style="color: #099;">1</span><span class="p">)</span> <span class="k" style="font-weight: 600;">goto</span> <span class="n" style="color: #333;">error</span><span class="p">;</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="238" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="269" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -238,6 +269,11 @@ static PyObject *pyBwGetChroms(pyBigWigFile_t *self, PyObject *args) {</td>
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238
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<td class="diff-line-num new_line" data-linenumber="269" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
269
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<pre style="margin: 0;"> <span id="LC269" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">char</span> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">chrom</span> <span class="o" style="font-weight: 600;">=</span> <span class="nb" style="color: #0086b3;">NULL</span><span class="p">;</span></span>
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<td class="diff-line-num old_line" data-linenumber="239" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
239
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270
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<pre style="margin: 0;"> <span id="LC270" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">uint32_t</span> <span class="n" style="color: #333;">i</span><span class="p">;</span></span>
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240
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271
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<pre style="margin: 0;"> <span id="LC271" class="line" lang="c"></span>
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272
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<pre style="margin: 0;">+<span id="LC272" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="o" style="font-weight: 600;">!</span><span class="n" style="color: #333;">bw</span><span class="p">)</span> <span class="p">{</span></span>
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<td class="diff-line-num new new_line" data-linenumber="273" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
273
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<pre style="margin: 0;">+<span id="LC273" class="line" lang="c"> <span class="n" style="color: #333;">PyErr_SetString</span><span class="p">(</span><span class="n" style="color: #333;">PyExc_RuntimeError</span><span class="p">,</span> <span class="s" style="color: #d14;">"The bigWig file handle is not opened!"</span><span class="p">);</span></span>
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<td class="diff-line-num new old_line" data-linenumber="241" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
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<td class="diff-line-num new new_line" data-linenumber="274" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
274
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<pre style="margin: 0;">+<span id="LC274" class="line" lang="c"> <span class="k" style="font-weight: 600;">return</span> <span class="nb" style="color: #0086b3;">NULL</span><span class="p">;</span></span>
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275
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<pre style="margin: 0;">+<span id="LC275" class="line" lang="c"> <span class="p">}</span></span>
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<td class="diff-line-num new new_line" data-linenumber="276" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
276
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<pre style="margin: 0;">+<span id="LC276" class="line" lang="c"></span>
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241
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<td class="diff-line-num new_line" data-linenumber="277" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
277
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<pre style="margin: 0;"> <span id="LC277" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="o" style="font-weight: 600;">!</span><span class="p">(</span><span class="n" style="color: #333;">PyArg_ParseTuple</span><span class="p">(</span><span class="n" style="color: #333;">args</span><span class="p">,</span> <span class="s" style="color: #d14;">"|s"</span><span class="p">,</span> <span class="o" style="font-weight: 600;">&</span><span class="n" style="color: #333;">chrom</span><span class="p">))</span> <span class="o" style="font-weight: 600;">||</span> <span class="o" style="font-weight: 600;">!</span><span class="n" style="color: #333;">chrom</span><span class="p">)</span> <span class="p">{</span></span>
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<td class="diff-line-num old_line" data-linenumber="242" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
242
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<td class="diff-line-num new_line" data-linenumber="278" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
278
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<pre style="margin: 0;"> <span id="LC278" class="line" lang="c"> <span class="n" style="color: #333;">ret</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">PyDict_New</span><span class="p">();</span></span>
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<td class="diff-line-num old_line" data-linenumber="243" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
243
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<td class="diff-line-num new_line" data-linenumber="279" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
279
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<pre style="margin: 0;"> <span id="LC279" class="line" lang="c"> <span class="k" style="font-weight: 600;">for</span><span class="p">(</span><span class="n" style="color: #333;">i</span><span class="o" style="font-weight: 600;">=</span><span class="mi" style="color: #099;">0</span><span class="p">;</span> <span class="n" style="color: #333;">i</span><span class="o" style="font-weight: 600;"><</span><span class="n" style="color: #333;">bw</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">cl</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">nKeys</span><span class="p">;</span> <span class="n" style="color: #333;">i</span><span class="o" style="font-weight: 600;">++</span><span class="p">)</span> <span class="p">{</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="276" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="312" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -276,6 +312,7 @@ enum bwStatsType char2enum(char *s) {</td>
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276
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<td class="diff-line-num new_line" data-linenumber="312" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
312
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<pre style="margin: 0;"> <span id="LC312" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">strcmp</span><span class="p">(</span><span class="n" style="color: #333;">s</span><span class="p">,</span> <span class="s" style="color: #d14;">"min"</span><span class="p">)</span> <span class="o" style="font-weight: 600;">==</span> <span class="mi" style="color: #099;">0</span><span class="p">)</span> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">min</span><span class="p">;</span></span>
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<td class="diff-line-num old_line" data-linenumber="277" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
277
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<td class="diff-line-num new_line" data-linenumber="313" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
313
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<pre style="margin: 0;"> <span id="LC313" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">strcmp</span><span class="p">(</span><span class="n" style="color: #333;">s</span><span class="p">,</span> <span class="s" style="color: #d14;">"cov"</span><span class="p">)</span> <span class="o" style="font-weight: 600;">==</span> <span class="mi" style="color: #099;">0</span><span class="p">)</span> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">cov</span><span class="p">;</span></span>
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278
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314
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<pre style="margin: 0;"> <span id="LC314" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">strcmp</span><span class="p">(</span><span class="n" style="color: #333;">s</span><span class="p">,</span> <span class="s" style="color: #d14;">"coverage"</span><span class="p">)</span> <span class="o" style="font-weight: 600;">==</span> <span class="mi" style="color: #099;">0</span><span class="p">)</span> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">cov</span><span class="p">;</span></span>
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<td class="diff-line-num new new_line" data-linenumber="315" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
315
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<pre style="margin: 0;">+<span id="LC315" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">strcmp</span><span class="p">(</span><span class="n" style="color: #333;">s</span><span class="p">,</span> <span class="s" style="color: #d14;">"sum"</span><span class="p">)</span> <span class="o" style="font-weight: 600;">==</span> <span class="mi" style="color: #099;">0</span><span class="p">)</span> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">sum</span><span class="p">;</span></span>
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279
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316
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<pre style="margin: 0;"> <span id="LC316" class="line" lang="c"> <span class="k" style="font-weight: 600;">return</span> <span class="o" style="font-weight: 600;">-</span><span class="mi" style="color: #099;">1</span><span class="p">;</span></span>
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280
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317
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<pre style="margin: 0;"> <span id="LC317" class="line" lang="c"><span class="p">};</span></span>
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281
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318
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<pre style="margin: 0;"> <span id="LC318" class="line" lang="c"></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="291" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="328" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -291,6 +328,11 @@ static PyObject *pyBwGetStats(pyBigWigFile_t *self, PyObject *args, PyObject *kw</td>
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291
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328
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<pre style="margin: 0;"> <span id="LC328" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">int</span> <span class="n" style="color: #333;">i</span><span class="p">,</span> <span class="n" style="color: #333;">nBins</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">1</span><span class="p">;</span></span>
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292
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<td class="diff-line-num new_line" data-linenumber="329" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
329
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<pre style="margin: 0;"> <span id="LC329" class="line" lang="c"> <span class="n" style="color: #333;">errno</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">0</span><span class="p">;</span> <span class="c1" style="color: #998; font-style: italic;">//In the off-chance that something elsewhere got an error and didn't clear it...</span></span>
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293
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330
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<pre style="margin: 0;"> <span id="LC330" class="line" lang="c"></span>
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331
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<pre style="margin: 0;">+<span id="LC331" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="o" style="font-weight: 600;">!</span><span class="n" style="color: #333;">bw</span><span class="p">)</span> <span class="p">{</span></span>
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<td class="diff-line-num new new_line" data-linenumber="332" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
332
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<pre style="margin: 0;">+<span id="LC332" class="line" lang="c"> <span class="n" style="color: #333;">PyErr_SetString</span><span class="p">(</span><span class="n" style="color: #333;">PyExc_RuntimeError</span><span class="p">,</span> <span class="s" style="color: #d14;">"The bigWig file handle is not open!"</span><span class="p">);</span></span>
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333
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<pre style="margin: 0;">+<span id="LC333" class="line" lang="c"> <span class="k" style="font-weight: 600;">return</span> <span class="nb" style="color: #0086b3;">NULL</span><span class="p">;</span></span>
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334
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<pre style="margin: 0;">+<span id="LC334" class="line" lang="c"> <span class="p">}</span></span>
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335
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<pre style="margin: 0;">+<span id="LC335" class="line" lang="c"></span>
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294
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<td class="diff-line-num new_line" data-linenumber="336" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
336
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<pre style="margin: 0;"> <span id="LC336" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">bw</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">type</span> <span class="o" style="font-weight: 600;">==</span> <span class="mi" style="color: #099;">1</span><span class="p">)</span> <span class="p">{</span></span>
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295
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337
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<pre style="margin: 0;"> <span id="LC337" class="line" lang="c"> <span class="n" style="color: #333;">PyErr_SetString</span><span class="p">(</span><span class="n" style="color: #333;">PyExc_RuntimeError</span><span class="p">,</span> <span class="s" style="color: #d14;">"bigBed files have no statistics!"</span><span class="p">);</span></span>
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296
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338
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<pre style="margin: 0;"> <span id="LC338" class="line" lang="c"> <span class="k" style="font-weight: 600;">return</span> <span class="nb" style="color: #0086b3;">NULL</span><span class="p">;</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="322" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="364" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -322,6 +364,16 @@ static PyObject *pyBwGetStats(pyBigWigFile_t *self, PyObject *args, PyObject *kw</td>
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322
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364
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<pre style="margin: 0;"> <span id="LC364" class="line" lang="c"> <span class="k" style="font-weight: 600;">return</span> <span class="nb" style="color: #0086b3;">NULL</span><span class="p">;</span></span>
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323
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365
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<pre style="margin: 0;"> <span id="LC365" class="line" lang="c"> <span class="p">}</span></span>
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324
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366
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<pre style="margin: 0;"> <span id="LC366" class="line" lang="c"></span>
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<pre style="margin: 0;">+<span id="LC367" class="line" lang="c"> <span class="c1" style="color: #998; font-style: italic;">//Return a list of None if there are no entries at all</span></span>
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<pre style="margin: 0;">+<span id="LC368" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="o" style="font-weight: 600;">!</span><span class="n" style="color: #333;">hasEntries</span><span class="p">(</span><span class="n" style="color: #333;">bw</span><span class="p">))</span> <span class="p">{</span></span>
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369
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<pre style="margin: 0;">+<span id="LC369" class="line" lang="c"> <span class="n" style="color: #333;">ret</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">PyList_New</span><span class="p">(</span><span class="n" style="color: #333;">nBins</span><span class="p">);</span></span>
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370
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<pre style="margin: 0;">+<span id="LC370" class="line" lang="c"> <span class="k" style="font-weight: 600;">for</span><span class="p">(</span><span class="n" style="color: #333;">i</span><span class="o" style="font-weight: 600;">=</span><span class="mi" style="color: #099;">0</span><span class="p">;</span> <span class="n" style="color: #333;">i</span><span class="o" style="font-weight: 600;"><</span><span class="n" style="color: #333;">nBins</span><span class="p">;</span> <span class="n" style="color: #333;">i</span><span class="o" style="font-weight: 600;">++</span><span class="p">)</span> <span class="p">{</span></span>
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371
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<pre style="margin: 0;">+<span id="LC371" class="line" lang="c"> <span class="n" style="color: #333;">Py_INCREF</span><span class="p">(</span><span class="n" style="color: #333;">Py_None</span><span class="p">);</span></span>
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372
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<pre style="margin: 0;">+<span id="LC372" class="line" lang="c"> <span class="n" style="color: #333;">PyList_SetItem</span><span class="p">(</span><span class="n" style="color: #333;">ret</span><span class="p">,</span> <span class="n" style="color: #333;">i</span><span class="p">,</span> <span class="n" style="color: #333;">Py_None</span><span class="p">);</span></span>
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373
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<pre style="margin: 0;">+<span id="LC373" class="line" lang="c"> <span class="p">}</span></span>
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374
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<pre style="margin: 0;">+<span id="LC374" class="line" lang="c"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">ret</span><span class="p">;</span></span>
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375
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<pre style="margin: 0;">+<span id="LC375" class="line" lang="c"> <span class="p">}</span></span>
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376
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<pre style="margin: 0;">+<span id="LC376" class="line" lang="c"></span>
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377
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<pre style="margin: 0;"> <span id="LC377" class="line" lang="c"> <span class="c1" style="color: #998; font-style: italic;">//Get the actual statistics</span></span>
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326
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378
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<pre style="margin: 0;"> <span id="LC378" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">exact</span> <span class="o" style="font-weight: 600;">==</span> <span class="n" style="color: #333;">Py_True</span><span class="p">)</span> <span class="p">{</span></span>
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327
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379
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<pre style="margin: 0;"> <span id="LC379" class="line" lang="c"> <span class="n" style="color: #333;">val</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">bwStatsFromFull</span><span class="p">(</span><span class="n" style="color: #333;">bw</span><span class="p">,</span> <span class="n" style="color: #333;">chrom</span><span class="p">,</span> <span class="n" style="color: #333;">start</span><span class="p">,</span> <span class="n" style="color: #333;">end</span><span class="p">,</span> <span class="n" style="color: #333;">nBins</span><span class="p">,</span> <span class="n" style="color: #333;">char2enum</span><span class="p">(</span><span class="n" style="color: #333;">type</span><span class="p">));</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="363" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="415" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -363,6 +415,11 @@ static PyObject *pyBwGetValues(pyBigWigFile_t *self, PyObject *args) {</td>
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<pre style="margin: 0;"> <span id="LC415" class="line" lang="c"> <span class="n" style="color: #333;">PyObject</span> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">ret</span><span class="p">;</span></span>
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416
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<pre style="margin: 0;"> <span id="LC416" class="line" lang="c"> <span class="n" style="color: #333;">bwOverlappingIntervals_t</span> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">o</span><span class="p">;</span></span>
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<pre style="margin: 0;"> <span id="LC417" class="line" lang="c"></span>
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418
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<pre style="margin: 0;">+<span id="LC418" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="o" style="font-weight: 600;">!</span><span class="n" style="color: #333;">bw</span><span class="p">)</span> <span class="p">{</span></span>
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419
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<pre style="margin: 0;">+<span id="LC419" class="line" lang="c"> <span class="n" style="color: #333;">PyErr_SetString</span><span class="p">(</span><span class="n" style="color: #333;">PyExc_RuntimeError</span><span class="p">,</span> <span class="s" style="color: #d14;">"The bigWig file handle is not open!"</span><span class="p">);</span></span>
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<pre style="margin: 0;">+<span id="LC420" class="line" lang="c"> <span class="k" style="font-weight: 600;">return</span> <span class="nb" style="color: #0086b3;">NULL</span><span class="p">;</span></span>
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<pre style="margin: 0;">+<span id="LC421" class="line" lang="c"> <span class="p">}</span></span>
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422
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<pre style="margin: 0;">+<span id="LC422" class="line" lang="c"></span>
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366
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423
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<pre style="margin: 0;"> <span id="LC423" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">bw</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">type</span> <span class="o" style="font-weight: 600;">==</span> <span class="mi" style="color: #099;">1</span><span class="p">)</span> <span class="p">{</span></span>
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367
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424
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<pre style="margin: 0;"> <span id="LC424" class="line" lang="c"> <span class="n" style="color: #333;">PyErr_SetString</span><span class="p">(</span><span class="n" style="color: #333;">PyExc_RuntimeError</span><span class="p">,</span> <span class="s" style="color: #d14;">"bigBed files have no values! Use 'entries' instead."</span><span class="p">);</span></span>
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368
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425
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<pre style="margin: 0;"> <span id="LC425" class="line" lang="c"> <span class="k" style="font-weight: 600;">return</span> <span class="nb" style="color: #0086b3;">NULL</span><span class="p">;</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -393,6 +450,18 @@ static PyObject *pyBwGetValues(pyBigWigFile_t *self, PyObject *args) {</td>
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393
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450
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<pre style="margin: 0;"> <span id="LC450" class="line" lang="c"> <span class="k" style="font-weight: 600;">return</span> <span class="nb" style="color: #0086b3;">NULL</span><span class="p">;</span></span>
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394
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451
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<pre style="margin: 0;"> <span id="LC451" class="line" lang="c"> <span class="p">}</span></span>
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395
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452
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<pre style="margin: 0;"> <span id="LC452" class="line" lang="c"></span>
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453
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<pre style="margin: 0;">+<span id="LC453" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="o" style="font-weight: 600;">!</span><span class="n" style="color: #333;">hasEntries</span><span class="p">(</span><span class="n" style="color: #333;">self</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">bw</span><span class="p">))</span> <span class="p">{</span></span>
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454
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<pre style="margin: 0;">+<span id="LC454" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#ifdef WITHNUMPY</span></span>
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455
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<pre style="margin: 0;">+<span id="LC455" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">outputNumpy</span> <span class="o" style="font-weight: 600;">==</span> <span class="n" style="color: #333;">Py_True</span><span class="p">)</span> <span class="p">{</span></span>
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456
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<pre style="margin: 0;">+<span id="LC456" class="line" lang="c"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">PyArray_SimpleNew</span><span class="p">(</span><span class="mi" style="color: #099;">0</span><span class="p">,</span> <span class="nb" style="color: #0086b3;">NULL</span><span class="p">,</span> <span class="n" style="color: #333;">NPY_FLOAT</span><span class="p">);</span></span>
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457
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<pre style="margin: 0;">+<span id="LC457" class="line" lang="c"> <span class="p">}</span> <span class="k" style="font-weight: 600;">else</span> <span class="p">{</span></span>
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458
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<pre style="margin: 0;">+<span id="LC458" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#endif</span></span>
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<pre style="margin: 0;">+<span id="LC459" class="line" lang="c"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">PyList_New</span><span class="p">(</span><span class="mi" style="color: #099;">0</span><span class="p">);</span></span>
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<pre style="margin: 0;">+<span id="LC460" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#ifdef WITHNUMPY</span></span>
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<pre style="margin: 0;">+<span id="LC461" class="line" lang="c"> <span class="p">}</span></span>
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<pre style="margin: 0;">+<span id="LC462" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#endif</span></span>
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<pre style="margin: 0;">+<span id="LC463" class="line" lang="c"> <span class="p">}</span></span>
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464
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<pre style="margin: 0;">+<span id="LC464" class="line" lang="c"></span>
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396
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<pre style="margin: 0;"> <span id="LC465" class="line" lang="c"> <span class="n" style="color: #333;">o</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">bwGetValues</span><span class="p">(</span><span class="n" style="color: #333;">self</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">bw</span><span class="p">,</span> <span class="n" style="color: #333;">chrom</span><span class="p">,</span> <span class="n" style="color: #333;">start</span><span class="p">,</span> <span class="n" style="color: #333;">end</span><span class="p">,</span> <span class="mi" style="color: #099;">1</span><span class="p">);</span></span>
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397
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<pre style="margin: 0;"> <span id="LC466" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="o" style="font-weight: 600;">!</span><span class="n" style="color: #333;">o</span><span class="p">)</span> <span class="p">{</span></span>
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398
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467
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<pre style="margin: 0;"> <span id="LC467" class="line" lang="c"> <span class="n" style="color: #333;">PyErr_SetString</span><span class="p">(</span><span class="n" style="color: #333;">PyExc_RuntimeError</span><span class="p">,</span> <span class="s" style="color: #d14;">"An error occurred while fetching values!"</span><span class="p">);</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="429" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="498" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -429,6 +498,11 @@ static PyObject *pyBwGetIntervals(pyBigWigFile_t *self, PyObject *args, PyObject</td>
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429
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498
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<pre style="margin: 0;"> <span id="LC498" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">char</span> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">chrom</span><span class="p">;</span></span>
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<pre style="margin: 0;"> <span id="LC499" class="line" lang="c"> <span class="n" style="color: #333;">PyObject</span> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">ret</span><span class="p">;</span></span>
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<pre style="margin: 0;"> <span id="LC500" class="line" lang="c"></span>
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<pre style="margin: 0;">+<span id="LC501" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="o" style="font-weight: 600;">!</span><span class="n" style="color: #333;">bw</span><span class="p">)</span> <span class="p">{</span></span>
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<pre style="margin: 0;">+<span id="LC502" class="line" lang="c"> <span class="n" style="color: #333;">PyErr_SetString</span><span class="p">(</span><span class="n" style="color: #333;">PyExc_RuntimeError</span><span class="p">,</span> <span class="s" style="color: #d14;">"The bigWig file handle is not opened!"</span><span class="p">);</span></span>
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<pre style="margin: 0;">+<span id="LC503" class="line" lang="c"> <span class="k" style="font-weight: 600;">return</span> <span class="nb" style="color: #0086b3;">NULL</span><span class="p">;</span></span>
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<pre style="margin: 0;">+<span id="LC504" class="line" lang="c"> <span class="p">}</span></span>
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<pre style="margin: 0;">+<span id="LC505" class="line" lang="c"></span>
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506
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<pre style="margin: 0;"> <span id="LC506" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">bw</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">type</span> <span class="o" style="font-weight: 600;">==</span> <span class="mi" style="color: #099;">1</span><span class="p">)</span> <span class="p">{</span></span>
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<pre style="margin: 0;"> <span id="LC507" class="line" lang="c"> <span class="n" style="color: #333;">PyErr_SetString</span><span class="p">(</span><span class="n" style="color: #333;">PyExc_RuntimeError</span><span class="p">,</span> <span class="s" style="color: #d14;">"bigBed files have no intervals! Use 'entries()' instead."</span><span class="p">);</span></span>
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<pre style="margin: 0;"> <span id="LC508" class="line" lang="c"> <span class="k" style="font-weight: 600;">return</span> <span class="nb" style="color: #0086b3;">NULL</span><span class="p">;</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -453,6 +527,12 @@ static PyObject *pyBwGetIntervals(pyBigWigFile_t *self, PyObject *args, PyObject</td>
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<pre style="margin: 0;"> <span id="LC527" class="line" lang="c"> <span class="k" style="font-weight: 600;">return</span> <span class="nb" style="color: #0086b3;">NULL</span><span class="p">;</span></span>
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<pre style="margin: 0;"> <span id="LC528" class="line" lang="c"> <span class="p">}</span></span>
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<pre style="margin: 0;"> <span id="LC529" class="line" lang="c"></span>
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<pre style="margin: 0;">+<span id="LC530" class="line" lang="c"> <span class="c1" style="color: #998; font-style: italic;">//Check for empty files</span></span>
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<pre style="margin: 0;">+<span id="LC531" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="o" style="font-weight: 600;">!</span><span class="n" style="color: #333;">hasEntries</span><span class="p">(</span><span class="n" style="color: #333;">bw</span><span class="p">))</span> <span class="p">{</span></span>
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<pre style="margin: 0;">+<span id="LC532" class="line" lang="c"> <span class="n" style="color: #333;">Py_INCREF</span><span class="p">(</span><span class="n" style="color: #333;">Py_None</span><span class="p">);</span></span>
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<pre style="margin: 0;">+<span id="LC533" class="line" lang="c"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">Py_None</span><span class="p">;</span></span>
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<pre style="margin: 0;">+<span id="LC534" class="line" lang="c"> <span class="p">}</span></span>
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<pre style="margin: 0;">+<span id="LC535" class="line" lang="c"></span>
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<pre style="margin: 0;"> <span id="LC536" class="line" lang="c"> <span class="c1" style="color: #998; font-style: italic;">//Get the intervals</span></span>
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<pre style="margin: 0;"> <span id="LC537" class="line" lang="c"> <span class="n" style="color: #333;">intervals</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">bwGetOverlappingIntervals</span><span class="p">(</span><span class="n" style="color: #333;">bw</span><span class="p">,</span> <span class="n" style="color: #333;">chrom</span><span class="p">,</span> <span class="n" style="color: #333;">start</span><span class="p">,</span> <span class="n" style="color: #333;">end</span><span class="p">);</span></span>
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<pre style="margin: 0;"> <span id="LC538" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="o" style="font-weight: 600;">!</span><span class="n" style="color: #333;">intervals</span><span class="p">)</span> <span class="p">{</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -533,6 +613,11 @@ PyObject *pyBwAddHeader(pyBigWigFile_t *self, PyObject *args, PyObject *kwds) {</td>
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613
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<pre style="margin: 0;"> <span id="LC613" class="line" lang="c"> <span class="n" style="color: #333;">PyObject</span> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">InputTuple</span> <span class="o" style="font-weight: 600;">=</span> <span class="nb" style="color: #0086b3;">NULL</span><span class="p">,</span> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">tmpObject</span><span class="p">,</span> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">tmpObject2</span><span class="p">;</span></span>
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614
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<pre style="margin: 0;"> <span id="LC614" class="line" lang="c"> <span class="n" style="color: #333;">Py_ssize_t</span> <span class="n" style="color: #333;">i</span><span class="p">,</span> <span class="n" style="color: #333;">pyLen</span><span class="p">;</span></span>
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615
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<pre style="margin: 0;"> <span id="LC615" class="line" lang="c"></span>
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<pre style="margin: 0;">+<span id="LC616" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="o" style="font-weight: 600;">!</span><span class="n" style="color: #333;">bw</span><span class="p">)</span> <span class="p">{</span></span>
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617
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<pre style="margin: 0;">+<span id="LC617" class="line" lang="c"> <span class="n" style="color: #333;">PyErr_SetString</span><span class="p">(</span><span class="n" style="color: #333;">PyExc_RuntimeError</span><span class="p">,</span> <span class="s" style="color: #d14;">"The bigWig file handle is not open!"</span><span class="p">);</span></span>
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618
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<pre style="margin: 0;">+<span id="LC618" class="line" lang="c"> <span class="k" style="font-weight: 600;">return</span> <span class="nb" style="color: #0086b3;">NULL</span><span class="p">;</span></span>
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<pre style="margin: 0;">+<span id="LC619" class="line" lang="c"> <span class="p">}</span></span>
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<pre style="margin: 0;">+<span id="LC620" class="line" lang="c"></span>
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536
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621
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<pre style="margin: 0;"> <span id="LC621" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="o" style="font-weight: 600;">!</span><span class="n" style="color: #333;">PyArg_ParseTupleAndKeywords</span><span class="p">(</span><span class="n" style="color: #333;">args</span><span class="p">,</span> <span class="n" style="color: #333;">kwds</span><span class="p">,</span> <span class="s" style="color: #d14;">"O|k"</span><span class="p">,</span> <span class="n" style="color: #333;">kwd_list</span><span class="p">,</span> <span class="o" style="font-weight: 600;">&</span><span class="n" style="color: #333;">InputTuple</span><span class="p">,</span> <span class="o" style="font-weight: 600;">&</span><span class="n" style="color: #333;">zoomTmp</span><span class="p">))</span> <span class="p">{</span></span>
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<pre style="margin: 0;"> <span id="LC622" class="line" lang="c"> <span class="n" style="color: #333;">PyErr_SetString</span><span class="p">(</span><span class="n" style="color: #333;">PyExc_RuntimeError</span><span class="p">,</span> <span class="s" style="color: #d14;">"Illegal arguments"</span><span class="p">);</span></span>
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<pre style="margin: 0;"> <span id="LC623" class="line" lang="c"> <span class="k" style="font-weight: 600;">return</span> <span class="nb" style="color: #0086b3;">NULL</span><span class="p">;</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="824" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="909" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -824,7 +909,7 @@ int canAppend(pyBigWigFile_t *self, int desiredType, PyObject *chroms, PyObject </td>
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824
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909
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<pre style="margin: 0;"> <span id="LC909" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">uint32_t</span> <span class="n" style="color: #333;">tid</span><span class="p">,</span> <span class="n" style="color: #333;">uspan</span><span class="p">,</span> <span class="n" style="color: #333;">ustep</span><span class="p">,</span> <span class="n" style="color: #333;">ustart</span><span class="p">;</span></span>
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825
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910
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<pre style="margin: 0;"> <span id="LC910" class="line" lang="c"> <span class="n" style="color: #333;">PyObject</span> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">tmp</span><span class="p">;</span></span>
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826
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911
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<pre style="margin: 0;"> <span id="LC911" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#ifdef WITHNUMPY</span></span>
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827
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<pre style="margin: 0;">-<span id="LC827" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;"><span class="idiff left">void</span></span><span class="idiff"> </span><span class="o" style="font-weight: 600;"><span class="idiff">*</span></span><span class="n" style="color: #333;"><span class="idiff right">foo</span></span><span class="p">;</span></span>
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912
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<pre style="margin: 0;">+<span id="LC912" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;"><span class="idiff left">char</span></span><span class="idiff"> </span><span class="o" style="font-weight: 600;"><span class="idiff">*</span></span><span class="n" style="color: #333;"><span class="idiff right">chrom</span></span><span class="p">;</span></span>
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828
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913
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<pre style="margin: 0;"> <span id="LC913" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#endif</span></span>
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829
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914
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<pre style="margin: 0;"> <span id="LC914" class="line" lang="c"></span>
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830
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915
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<pre style="margin: 0;"> <span id="LC915" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">self</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">lastType</span> <span class="o" style="font-weight: 600;">==</span> <span class="o" style="font-weight: 600;">-</span><span class="mi" style="color: #099;">1</span><span class="p">)</span> <span class="k" style="font-weight: 600;">return</span> <span class="mi" style="color: #099;">0</span><span class="p">;</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -838,11 +923,13 @@ int canAppend(pyBigWigFile_t *self, int desiredType, PyObject *chroms, PyObject </td>
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838
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<pre style="margin: 0;"> <span id="LC923" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#ifdef WITHNUMPY</span></span>
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839
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<pre style="margin: 0;"> <span id="LC924" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">PyArray_Check</span><span class="p">(</span><span class="n" style="color: #333;">chroms</span><span class="p">))</span> <span class="n" style="color: #333;">sz</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">PyArray_Size</span><span class="p">(</span><span class="n" style="color: #333;">chroms</span><span class="p">);</span></span>
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840
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925
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<pre style="margin: 0;"> <span id="LC925" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#endif</span></span>
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926
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<pre style="margin: 0;">+<span id="LC926" class="line" lang="c"></span>
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841
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927
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<pre style="margin: 0;"> <span id="LC927" class="line" lang="c"> <span class="k" style="font-weight: 600;">for</span><span class="p">(</span><span class="n" style="color: #333;">i</span><span class="o" style="font-weight: 600;">=</span><span class="mi" style="color: #099;">0</span><span class="p">;</span> <span class="n" style="color: #333;">i</span><span class="o" style="font-weight: 600;"><</span><span class="n" style="color: #333;">sz</span><span class="p">;</span> <span class="n" style="color: #333;">i</span><span class="o" style="font-weight: 600;">++</span><span class="p">)</span> <span class="p">{</span></span>
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842
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928
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<pre style="margin: 0;"> <span id="LC928" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#ifdef WITHNUMPY</span></span>
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843
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929
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<pre style="margin: 0;"> <span id="LC929" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">PyArray_Check</span><span class="p">(</span><span class="n" style="color: #333;">chroms</span><span class="p">))</span> <span class="p">{</span></span>
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844
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<pre style="margin: 0;">-<span id="LC844" class="line" lang="c"> <span class="n" style="color: #333;">foo</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">PyArray_GETPTR1</span><span class="p">((</span><span class="n" style="color: #333;">PyArrayObject</span><span class="o" style="font-weight: 600;">*</span><span class="p">)</span><span class="n" style="color: #333;">chroms</span><span class="p">,</span> <span class="n" style="color: #333;">i</span><span class="p">);</span></span>
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845
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<pre style="margin: 0;">-<span id="LC845" class="line" lang="c"> <span class="n" style="color: #333;">tid</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">bwGetTid</span><span class="p">(</span><span class="n" style="color: #333;">bw</span><span class="p">,</span> <span class="n" style="color: #333;">PyString_AsString</span><span class="p">(</span><span class="n" style="color: #333;">PyArray_GETITEM</span><span class="p">((</span><span class="n" style="color: #333;">PyArrayObject</span><span class="o" style="font-weight: 600;">*</span><span class="p">)</span><span class="n" style="color: #333;">chroms</span><span class="p">,</span> <span class="n" style="color: #333;">foo</span><span class="p">)));</span></span>
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<pre style="margin: 0;">+<span id="LC930" class="line" lang="c"> <span class="n" style="color: #333;">chrom</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">getNumpyStr</span><span class="p">((</span><span class="n" style="color: #333;">PyArrayObject</span><span class="o" style="font-weight: 600;">*</span><span class="p">)</span><span class="n" style="color: #333;">chroms</span><span class="p">,</span> <span class="n" style="color: #333;">i</span><span class="p">);</span></span>
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<td class="diff-line-num new new_line" data-linenumber="931" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
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<pre style="margin: 0;">+<span id="LC931" class="line" lang="c"> <span class="n" style="color: #333;">tid</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">bwGetTid</span><span class="p">(</span><span class="n" style="color: #333;">bw</span><span class="p">,</span> <span class="n" style="color: #333;">chrom</span><span class="p">);</span></span>
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932
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<pre style="margin: 0;">+<span id="LC932" class="line" lang="c"> <span class="n" style="color: #333;">free</span><span class="p">(</span><span class="n" style="color: #333;">chrom</span><span class="p">);</span></span>
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933
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<pre style="margin: 0;"> <span id="LC933" class="line" lang="c"> <span class="p">}</span> <span class="k" style="font-weight: 600;">else</span> <span class="p">{</span></span>
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847
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934
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<pre style="margin: 0;"> <span id="LC934" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#endif</span></span>
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935
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<pre style="margin: 0;"> <span id="LC935" class="line" lang="c"> <span class="n" style="color: #333;">tmp</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">PyList_GetItem</span><span class="p">(</span><span class="n" style="color: #333;">chroms</span><span class="p">,</span> <span class="n" style="color: #333;">i</span><span class="p">);</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="852" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="939" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -852,6 +939,7 @@ int canAppend(pyBigWigFile_t *self, int desiredType, PyObject *chroms, PyObject </td>
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852
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939
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<pre style="margin: 0;"> <span id="LC939" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#endif</span></span>
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853
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940
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<pre style="margin: 0;"> <span id="LC940" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">tid</span> <span class="o" style="font-weight: 600;">!=</span> <span class="p">(</span><span class="kt" style="color: #458; font-weight: 600;">uint32_t</span><span class="p">)</span> <span class="n" style="color: #333;">self</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">lastTid</span><span class="p">)</span> <span class="k" style="font-weight: 600;">return</span> <span class="mi" style="color: #099;">0</span><span class="p">;</span></span>
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854
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941
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<pre style="margin: 0;"> <span id="LC941" class="line" lang="c"> <span class="p">}</span></span>
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<pre style="margin: 0;">+<span id="LC942" class="line" lang="c"></span>
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855
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943
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<pre style="margin: 0;"> <span id="LC943" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#ifdef WITHNUMPY</span></span>
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856
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944
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<pre style="margin: 0;"> <span id="LC944" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">PyArray_Check</span><span class="p">(</span><span class="n" style="color: #333;">starts</span><span class="p">))</span> <span class="p">{</span></span>
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<td class="diff-line-num old_line" data-linenumber="857" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
857
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<td class="diff-line-num new_line" data-linenumber="945" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
945
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<pre style="margin: 0;"> <span id="LC945" class="line" lang="c"> <span class="n" style="color: #333;">ustart</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">getNumpyU32</span><span class="p">((</span><span class="n" style="color: #333;">PyArrayObject</span><span class="o" style="font-weight: 600;">*</span><span class="p">)</span><span class="n" style="color: #333;">starts</span><span class="p">,</span> <span class="mi" style="color: #099;">0</span><span class="p">);</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="911" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="999" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -911,9 +999,6 @@ int PyAddIntervals(pyBigWigFile_t *self, PyObject *chroms, PyObject *starts, PyO</td>
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911
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999
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<pre style="margin: 0;"> <span id="LC999" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">uint32_t</span> <span class="n" style="color: #333;">n</span><span class="p">,</span> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">ustarts</span> <span class="o" style="font-weight: 600;">=</span> <span class="nb" style="color: #0086b3;">NULL</span><span class="p">,</span> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">uends</span> <span class="o" style="font-weight: 600;">=</span> <span class="nb" style="color: #0086b3;">NULL</span><span class="p">;</span></span>
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<td class="diff-line-num old_line" data-linenumber="912" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
912
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<td class="diff-line-num new_line" data-linenumber="1000" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1000
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<pre style="margin: 0;"> <span id="LC1000" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">float</span> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">fvalues</span> <span class="o" style="font-weight: 600;">=</span> <span class="nb" style="color: #0086b3;">NULL</span><span class="p">;</span></span>
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<td class="diff-line-num old_line" data-linenumber="913" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
913
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<td class="diff-line-num new_line" data-linenumber="1001" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1001
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<pre style="margin: 0;"> <span id="LC1001" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">int</span> <span class="n" style="color: #333;">rv</span><span class="p">;</span></span>
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914
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<pre style="margin: 0;">-<span id="LC914" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#ifdef WITHNUMPY</span></span>
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915
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<td class="diff-line-num new_line old" data-linenumber="1002" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC915" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">void</span> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">foo</span><span class="p">;</span></span>
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<td class="diff-line-num old old_line" data-linenumber="916" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
916
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<td class="diff-line-num new_line old" data-linenumber="1002" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC916" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#endif</span></span>
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917
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1002
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<pre style="margin: 0;"> <span id="LC1002" class="line" lang="c"></span>
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918
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1003
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<pre style="margin: 0;"> <span id="LC1003" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">PyList_Check</span><span class="p">(</span><span class="n" style="color: #333;">starts</span><span class="p">))</span> <span class="n" style="color: #333;">sz</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">PyList_Size</span><span class="p">(</span><span class="n" style="color: #333;">starts</span><span class="p">);</span></span>
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<td class="diff-line-num old_line" data-linenumber="919" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
919
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1004
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<pre style="margin: 0;"> <span id="LC1004" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#ifdef WITHNUMPY</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="933" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="1018" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -933,8 +1018,7 @@ int PyAddIntervals(pyBigWigFile_t *self, PyObject *chroms, PyObject *starts, PyO</td>
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933
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1018
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<pre style="margin: 0;"> <span id="LC1018" class="line" lang="c"> <span class="n" style="color: #333;">cchroms</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">]</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">PyString_AsString</span><span class="p">(</span><span class="n" style="color: #333;">PyList_GetItem</span><span class="p">(</span><span class="n" style="color: #333;">chroms</span><span class="p">,</span> <span class="n" style="color: #333;">i</span><span class="p">));</span></span>
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934
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1019
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<pre style="margin: 0;"> <span id="LC1019" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#ifdef WITHNUMPY</span></span>
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935
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<td class="diff-line-num new_line" data-linenumber="1020" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1020
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<pre style="margin: 0;"> <span id="LC1020" class="line" lang="c"> <span class="p">}</span> <span class="k" style="font-weight: 600;">else</span> <span class="p">{</span></span>
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936
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<td class="diff-line-num new_line old" data-linenumber="1021" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC936" class="line" lang="c"> <span class="n" style="color: #333;">foo</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">PyArray_GETPTR1</span><span class="p">((</span><span class="n" style="color: #333;">PyArrayObject</span><span class="o" style="font-weight: 600;">*</span><span class="p">)</span><span class="n" style="color: #333;">chroms</span><span class="p">,</span> <span class="n" style="color: #333;">i</span><span class="p">);</span></span>
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937
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<td class="diff-line-num new_line old" data-linenumber="1021" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC937" class="line" lang="c"> <span class="n" style="color: #333;">cchroms</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">]</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">PyString_AsString</span><span class="p">(</span><span class="n" style="color: #333;">PyArray_GETITEM</span><span class="p">((</span><span class="n" style="color: #333;">PyArrayObject</span><span class="o" style="font-weight: 600;">*</span><span class="p">)</span><span class="n" style="color: #333;">chroms</span><span class="p">,</span> <span class="n" style="color: #333;">foo</span><span class="p">));</span></span>
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<td class="diff-line-num new old_line" data-linenumber="938" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
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<td class="diff-line-num new new_line" data-linenumber="1021" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1021
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<pre style="margin: 0;">+<span id="LC1021" class="line" lang="c"> <span class="n" style="color: #333;">cchroms</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">]</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">getNumpyStr</span><span class="p">((</span><span class="n" style="color: #333;">PyArrayObject</span><span class="o" style="font-weight: 600;">*</span><span class="p">)</span><span class="n" style="color: #333;">chroms</span><span class="p">,</span> <span class="n" style="color: #333;">i</span><span class="p">);</span></span>
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938
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<td class="diff-line-num new_line" data-linenumber="1022" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1022
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<pre style="margin: 0;"> <span id="LC1022" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#endif</span></span>
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939
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<td class="diff-line-num new_line" data-linenumber="1023" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1023
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<pre style="margin: 0;"> <span id="LC1023" class="line" lang="c"> <span class="p">}</span></span>
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<td class="diff-line-num old_line" data-linenumber="940" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
940
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<td class="diff-line-num new_line" data-linenumber="1024" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1024
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<pre style="margin: 0;"> <span id="LC1024" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">PyList_Check</span><span class="p">(</span><span class="n" style="color: #333;">starts</span><span class="p">))</span> <span class="p">{</span></span>
</pre>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="968" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="1052" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -968,6 +1052,9 @@ int PyAddIntervals(pyBigWigFile_t *self, PyObject *chroms, PyObject *starts, PyO</td>
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<td class="diff-line-num old_line" data-linenumber="968" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
968
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<td class="diff-line-num new_line" data-linenumber="1052" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1052
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<pre style="margin: 0;"> <span id="LC1052" class="line" lang="c"> <span class="n" style="color: #333;">self</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">lastTid</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">bwGetTid</span><span class="p">(</span><span class="n" style="color: #333;">bw</span><span class="p">,</span> <span class="n" style="color: #333;">cchroms</span><span class="p">[</span><span class="n" style="color: #333;">n</span><span class="o" style="font-weight: 600;">-</span><span class="mi" style="color: #099;">1</span><span class="p">]);</span></span>
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<td class="diff-line-num old_line" data-linenumber="969" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
969
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<td class="diff-line-num new_line" data-linenumber="1053" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1053
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<pre style="margin: 0;"> <span id="LC1053" class="line" lang="c"> <span class="n" style="color: #333;">self</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">lastStart</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">uends</span><span class="p">[</span><span class="n" style="color: #333;">n</span><span class="o" style="font-weight: 600;">-</span><span class="mi" style="color: #099;">1</span><span class="p">];</span></span>
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<td class="diff-line-num old_line" data-linenumber="970" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
970
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<td class="diff-line-num new_line" data-linenumber="1054" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1054
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<pre style="margin: 0;"> <span id="LC1054" class="line" lang="c"> <span class="p">}</span></span>
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<td class="diff-line-num new old_line" data-linenumber="971" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
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<td class="diff-line-num new new_line" data-linenumber="1055" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1055
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<pre style="margin: 0;">+<span id="LC1055" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="o" style="font-weight: 600;">!</span><span class="n" style="color: #333;">PyList_Check</span><span class="p">(</span><span class="n" style="color: #333;">chroms</span><span class="p">))</span> <span class="p">{</span></span>
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<td class="diff-line-num new old_line" data-linenumber="971" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
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<td class="diff-line-num new new_line" data-linenumber="1056" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1056
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<pre style="margin: 0;">+<span id="LC1056" class="line" lang="c"> <span class="k" style="font-weight: 600;">for</span><span class="p">(</span><span class="n" style="color: #333;">i</span><span class="o" style="font-weight: 600;">=</span><span class="mi" style="color: #099;">0</span><span class="p">;</span> <span class="n" style="color: #333;">i</span><span class="o" style="font-weight: 600;"><</span><span class="n" style="color: #333;">n</span><span class="p">;</span> <span class="n" style="color: #333;">i</span><span class="o" style="font-weight: 600;">++</span><span class="p">)</span> <span class="n" style="color: #333;">free</span><span class="p">(</span><span class="n" style="color: #333;">cchroms</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">]);</span></span>
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<td class="diff-line-num new old_line" data-linenumber="971" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
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<td class="diff-line-num new new_line" data-linenumber="1057" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1057
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<pre style="margin: 0;">+<span id="LC1057" class="line" lang="c"> <span class="p">}</span></span>
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<td class="diff-line-num old_line" data-linenumber="971" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
971
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<td class="diff-line-num new_line" data-linenumber="1058" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1058
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<pre style="margin: 0;"> <span id="LC1058" class="line" lang="c"> <span class="n" style="color: #333;">free</span><span class="p">(</span><span class="n" style="color: #333;">cchroms</span><span class="p">);</span></span>
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<td class="diff-line-num old_line" data-linenumber="972" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
972
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<td class="diff-line-num new_line" data-linenumber="1059" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1059
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<pre style="margin: 0;"> <span id="LC1059" class="line" lang="c"> <span class="n" style="color: #333;">free</span><span class="p">(</span><span class="n" style="color: #333;">ustarts</span><span class="p">);</span></span>
</pre>
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<td class="diff-line-num old_line" data-linenumber="973" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
973
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<td class="diff-line-num new_line" data-linenumber="1060" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1060
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<pre style="margin: 0;"> <span id="LC1060" class="line" lang="c"> <span class="n" style="color: #333;">free</span><span class="p">(</span><span class="n" style="color: #333;">uends</span><span class="p">);</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="1389" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="1476" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -1389,6 +1476,11 @@ PyObject *pyBwAddEntries(pyBigWigFile_t *self, PyObject *args, PyObject *kwds) {</td>
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1389
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<td class="diff-line-num new_line" data-linenumber="1476" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1476
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<pre style="margin: 0;"> <span id="LC1476" class="line" lang="c"> <span class="n" style="color: #333;">PyObject</span> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">validate</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">Py_True</span><span class="p">;</span></span>
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<td class="diff-line-num old_line" data-linenumber="1390" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1390
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<td class="diff-line-num new_line" data-linenumber="1477" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1477
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<pre style="margin: 0;"> <span id="LC1477" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">int</span> <span class="n" style="color: #333;">desiredType</span><span class="p">;</span></span>
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<td class="diff-line-num old_line" data-linenumber="1391" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1391
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<td class="diff-line-num new_line" data-linenumber="1478" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1478
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<pre style="margin: 0;"> <span id="LC1478" class="line" lang="c"></span>
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<td class="diff-line-num new old_line" data-linenumber="1392" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
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<td class="diff-line-num new new_line" data-linenumber="1479" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1479
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<pre style="margin: 0;">+<span id="LC1479" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="o" style="font-weight: 600;">!</span><span class="n" style="color: #333;">self</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">bw</span><span class="p">)</span> <span class="p">{</span></span>
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<td class="diff-line-num new old_line" data-linenumber="1392" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
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<td class="diff-line-num new new_line" data-linenumber="1480" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1480
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<pre style="margin: 0;">+<span id="LC1480" class="line" lang="c"> <span class="n" style="color: #333;">PyErr_SetString</span><span class="p">(</span><span class="n" style="color: #333;">PyExc_RuntimeError</span><span class="p">,</span> <span class="s" style="color: #d14;">"The bigWig file handle is not open!"</span><span class="p">);</span></span>
</pre>
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<td class="diff-line-num new old_line" data-linenumber="1392" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
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<td class="diff-line-num new new_line" data-linenumber="1481" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1481
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<pre style="margin: 0;">+<span id="LC1481" class="line" lang="c"> <span class="k" style="font-weight: 600;">return</span> <span class="nb" style="color: #0086b3;">NULL</span><span class="p">;</span></span>
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1482
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<pre style="margin: 0;">+<span id="LC1482" class="line" lang="c"> <span class="p">}</span></span>
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1483
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<pre style="margin: 0;">+<span id="LC1483" class="line" lang="c"></span>
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1392
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<td class="diff-line-num new_line" data-linenumber="1484" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1484
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<pre style="margin: 0;"> <span id="LC1484" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="o" style="font-weight: 600;">!</span><span class="n" style="color: #333;">PyArg_ParseTupleAndKeywords</span><span class="p">(</span><span class="n" style="color: #333;">args</span><span class="p">,</span> <span class="n" style="color: #333;">kwds</span><span class="p">,</span> <span class="s" style="color: #d14;">"OO|OOOOO"</span><span class="p">,</span> <span class="n" style="color: #333;">kwd_list</span><span class="p">,</span> <span class="o" style="font-weight: 600;">&</span><span class="n" style="color: #333;">chroms</span><span class="p">,</span> <span class="o" style="font-weight: 600;">&</span><span class="n" style="color: #333;">starts</span><span class="p">,</span> <span class="o" style="font-weight: 600;">&</span><span class="n" style="color: #333;">ends</span><span class="p">,</span> <span class="o" style="font-weight: 600;">&</span><span class="n" style="color: #333;">values</span><span class="p">,</span> <span class="o" style="font-weight: 600;">&</span><span class="n" style="color: #333;">span</span><span class="p">,</span> <span class="o" style="font-weight: 600;">&</span><span class="n" style="color: #333;">step</span><span class="p">,</span> <span class="o" style="font-weight: 600;">&</span><span class="n" style="color: #333;">validate</span><span class="p">))</span> <span class="p">{</span></span>
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<td class="diff-line-num old_line" data-linenumber="1393" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1393
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<td class="diff-line-num new_line" data-linenumber="1485" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1485
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<pre style="margin: 0;"> <span id="LC1485" class="line" lang="c"> <span class="n" style="color: #333;">PyErr_SetString</span><span class="p">(</span><span class="n" style="color: #333;">PyExc_RuntimeError</span><span class="p">,</span> <span class="s" style="color: #d14;">"Illegal arguments"</span><span class="p">);</span></span>
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<td class="diff-line-num old_line" data-linenumber="1394" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1394
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<td class="diff-line-num new_line" data-linenumber="1486" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1486
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<pre style="margin: 0;"> <span id="LC1486" class="line" lang="c"> <span class="k" style="font-weight: 600;">return</span> <span class="nb" style="color: #0086b3;">NULL</span><span class="p">;</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="1461" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="1553" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -1461,6 +1553,11 @@ static PyObject *pyBBGetEntries(pyBigWigFile_t *self, PyObject *args, PyObject *</td>
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1461
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<td class="diff-line-num new_line" data-linenumber="1553" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1553
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<pre style="margin: 0;"> <span id="LC1553" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">int</span> <span class="n" style="color: #333;">withString</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">1</span><span class="p">;</span></span>
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<td class="diff-line-num old_line" data-linenumber="1462" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1462
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<td class="diff-line-num new_line" data-linenumber="1554" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1554
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<pre style="margin: 0;"> <span id="LC1554" class="line" lang="c"> <span class="n" style="color: #333;">bbOverlappingEntries_t</span> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">o</span><span class="p">;</span></span>
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<td class="diff-line-num old_line" data-linenumber="1463" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1463
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<td class="diff-line-num new_line" data-linenumber="1555" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1555
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<pre style="margin: 0;"> <span id="LC1555" class="line" lang="c"></span>
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<td class="diff-line-num new new_line" data-linenumber="1556" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1556
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<pre style="margin: 0;">+<span id="LC1556" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="o" style="font-weight: 600;">!</span><span class="n" style="color: #333;">bw</span><span class="p">)</span> <span class="p">{</span></span>
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<td class="diff-line-num new old_line" data-linenumber="1464" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
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<td class="diff-line-num new new_line" data-linenumber="1557" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1557
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<pre style="margin: 0;">+<span id="LC1557" class="line" lang="c"> <span class="n" style="color: #333;">PyErr_SetString</span><span class="p">(</span><span class="n" style="color: #333;">PyExc_RuntimeError</span><span class="p">,</span> <span class="s" style="color: #d14;">"The bigBed file handle is not open!"</span><span class="p">);</span></span>
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<td class="diff-line-num new old_line" data-linenumber="1464" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
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<td class="diff-line-num new new_line" data-linenumber="1558" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1558
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<pre style="margin: 0;">+<span id="LC1558" class="line" lang="c"> <span class="k" style="font-weight: 600;">return</span> <span class="nb" style="color: #0086b3;">NULL</span><span class="p">;</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1559" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1559
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<pre style="margin: 0;">+<span id="LC1559" class="line" lang="c"> <span class="p">}</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1560" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1560
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<pre style="margin: 0;">+<span id="LC1560" class="line" lang="c"></span>
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1464
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<td class="diff-line-num new_line" data-linenumber="1561" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1561
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<pre style="margin: 0;"> <span id="LC1561" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">bw</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">type</span> <span class="o" style="font-weight: 600;">==</span> <span class="mi" style="color: #099;">0</span><span class="p">)</span> <span class="p">{</span></span>
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<td class="diff-line-num old_line" data-linenumber="1465" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1465
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<td class="diff-line-num new_line" data-linenumber="1562" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1562
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<pre style="margin: 0;"> <span id="LC1562" class="line" lang="c"> <span class="n" style="color: #333;">PyErr_SetString</span><span class="p">(</span><span class="n" style="color: #333;">PyExc_RuntimeError</span><span class="p">,</span> <span class="s" style="color: #d14;">"bigWig files have no entries! Use 'intervals' or 'values' instead."</span><span class="p">);</span></span>
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<td class="diff-line-num old_line" data-linenumber="1466" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1466
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<td class="diff-line-num new_line" data-linenumber="1563" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1563
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<pre style="margin: 0;"> <span id="LC1563" class="line" lang="c"> <span class="k" style="font-weight: 600;">return</span> <span class="nb" style="color: #0086b3;">NULL</span><span class="p">;</span> </span>
</pre>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="1525" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="1622" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -1525,6 +1622,11 @@ static PyObject *pyBBGetSQL(pyBigWigFile_t *self, PyObject *args) {</td>
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1525
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1622
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<pre style="margin: 0;"> <span id="LC1622" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">size_t</span> <span class="n" style="color: #333;">len</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">0</span><span class="p">;</span></span>
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<td class="diff-line-num old_line" data-linenumber="1526" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1526
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<td class="diff-line-num new_line" data-linenumber="1623" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1623
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<pre style="margin: 0;"> <span id="LC1623" class="line" lang="c"> <span class="n" style="color: #333;">PyObject</span> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">o</span> <span class="o" style="font-weight: 600;">=</span> <span class="nb" style="color: #0086b3;">NULL</span><span class="p">;</span></span>
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1527
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1624
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<pre style="margin: 0;"> <span id="LC1624" class="line" lang="c"></span>
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1625
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<pre style="margin: 0;">+<span id="LC1625" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="o" style="font-weight: 600;">!</span><span class="n" style="color: #333;">bw</span><span class="p">)</span> <span class="p">{</span></span>
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1626
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<pre style="margin: 0;">+<span id="LC1626" class="line" lang="c"> <span class="n" style="color: #333;">PyErr_SetString</span><span class="p">(</span><span class="n" style="color: #333;">PyExc_RuntimeError</span><span class="p">,</span> <span class="s" style="color: #d14;">"The bigBed file handle is not open!"</span><span class="p">);</span></span>
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1627
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<pre style="margin: 0;">+<span id="LC1627" class="line" lang="c"> <span class="k" style="font-weight: 600;">return</span> <span class="nb" style="color: #0086b3;">NULL</span><span class="p">;</span></span>
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1628
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<pre style="margin: 0;">+<span id="LC1628" class="line" lang="c"> <span class="p">}</span></span>
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1629
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<pre style="margin: 0;">+<span id="LC1629" class="line" lang="c"></span>
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1528
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1630
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<pre style="margin: 0;"> <span id="LC1630" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="o" style="font-weight: 600;">!</span><span class="n" style="color: #333;">str</span><span class="p">)</span> <span class="p">{</span></span>
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1529
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<td class="diff-line-num new_line" data-linenumber="1631" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1631
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<pre style="margin: 0;"> <span id="LC1631" class="line" lang="c"> <span class="n" style="color: #333;">Py_INCREF</span><span class="p">(</span><span class="n" style="color: #333;">Py_None</span><span class="p">);</span></span>
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1530
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1632
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<pre style="margin: 0;"> <span id="LC1632" class="line" lang="c"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">Py_None</span><span class="p">;</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="1554" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="1656" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -1554,6 +1656,12 @@ static PyObject *pyIsBigWig(pyBigWigFile_t *self, PyObject *args) {</td>
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1554
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1656
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<pre style="margin: 0;"> <span id="LC1656" class="line" lang="c"></span>
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<td class="diff-line-num old_line" data-linenumber="1555" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1555
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<td class="diff-line-num new_line" data-linenumber="1657" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1657
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<pre style="margin: 0;"> <span id="LC1657" class="line" lang="c"><span class="k" style="font-weight: 600;">static</span> <span class="n" style="color: #333;">PyObject</span> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">pyIsBigBed</span><span class="p">(</span><span class="n" style="color: #333;">pyBigWigFile_t</span> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">self</span><span class="p">,</span> <span class="n" style="color: #333;">PyObject</span> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">args</span><span class="p">)</span> <span class="p">{</span></span>
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1556
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<td class="diff-line-num new_line" data-linenumber="1658" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1658
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<pre style="margin: 0;"> <span id="LC1658" class="line" lang="c"> <span class="n" style="color: #333;">bigWigFile_t</span> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">bw</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">self</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">bw</span><span class="p">;</span></span>
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1659
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<pre style="margin: 0;">+<span id="LC1659" class="line" lang="c"></span>
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<td class="diff-line-num new new_line" data-linenumber="1660" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1660
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<pre style="margin: 0;">+<span id="LC1660" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="o" style="font-weight: 600;">!</span><span class="n" style="color: #333;">bw</span><span class="p">)</span> <span class="p">{</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1661" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1661
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<pre style="margin: 0;">+<span id="LC1661" class="line" lang="c"> <span class="n" style="color: #333;">PyErr_SetString</span><span class="p">(</span><span class="n" style="color: #333;">PyExc_RuntimeError</span><span class="p">,</span> <span class="s" style="color: #d14;">"The bigBed file handle is not open!"</span><span class="p">);</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1662" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1662
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<pre style="margin: 0;">+<span id="LC1662" class="line" lang="c"> <span class="k" style="font-weight: 600;">return</span> <span class="nb" style="color: #0086b3;">NULL</span><span class="p">;</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1663" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1663
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<pre style="margin: 0;">+<span id="LC1663" class="line" lang="c"> <span class="p">}</span></span>
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1664
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<pre style="margin: 0;">+<span id="LC1664" class="line" lang="c"></span>
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1557
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<td class="diff-line-num new_line" data-linenumber="1665" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1665
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<pre style="margin: 0;"> <span id="LC1665" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">bw</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">type</span> <span class="o" style="font-weight: 600;">==</span> <span class="mi" style="color: #099;">1</span><span class="p">)</span> <span class="p">{</span></span>
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1558
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<td class="diff-line-num new_line" data-linenumber="1666" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1666
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<pre style="margin: 0;"> <span id="LC1666" class="line" lang="c"> <span class="n" style="color: #333;">Py_INCREF</span><span class="p">(</span><span class="n" style="color: #333;">Py_True</span><span class="p">);</span></span>
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<td class="diff-line-num old_line" data-linenumber="1559" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1559
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1667
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<pre style="margin: 0;"> <span id="LC1667" class="line" lang="c"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">Py_True</span><span class="p">;</span></span>
</pre>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="1571" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="1679" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -1571,16 +1679,24 @@ static PyObject *pyIsBigBed(pyBigWigFile_t *self, PyObject *args) {</td>
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<td class="diff-line-num old_line" data-linenumber="1571" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1571
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1679
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<pre style="margin: 0;"> <span id="LC1679" class="line" lang="c"></span>
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<td class="diff-line-num old_line" data-linenumber="1572" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1572
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<td class="diff-line-num new_line" data-linenumber="1680" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1680
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<pre style="margin: 0;"> <span id="LC1680" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#if PY_MAJOR_VERSION >= 3</span></span>
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<td class="diff-line-num old_line" data-linenumber="1573" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1573
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<td class="diff-line-num new_line" data-linenumber="1681" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1681
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<pre style="margin: 0;"> <span id="LC1681" class="line" lang="c"><span class="n" style="color: #333;">PyMODINIT_FUNC</span> <span class="n" style="color: #333;">PyInit_pyBigWig</span><span class="p">(</span><span class="kt" style="color: #458; font-weight: 600;">void</span><span class="p">)</span> <span class="p">{</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1682" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1682
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<pre style="margin: 0;">+<span id="LC1682" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#else</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1683" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1683
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<pre style="margin: 0;">+<span id="LC1683" class="line" lang="c"><span class="n" style="color: #333;">PyMODINIT_FUNC</span> <span class="n" style="color: #333;">initpyBigWig</span><span class="p">(</span><span class="kt" style="color: #458; font-weight: 600;">void</span><span class="p">)</span> <span class="p">{</span></span>
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<td class="diff-line-num new old_line" data-linenumber="1574" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
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<td class="diff-line-num new new_line" data-linenumber="1684" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1684
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<pre style="margin: 0;">+<span id="LC1684" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#endif</span></span>
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1574
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<td class="diff-line-num new_line" data-linenumber="1685" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1685
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<pre style="margin: 0;"> <span id="LC1685" class="line" lang="c"> <span class="n" style="color: #333;">PyObject</span> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">res</span><span class="p">;</span></span>
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<td class="diff-line-num old_line" data-linenumber="1575" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1575
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<td class="diff-line-num new_line" data-linenumber="1686" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1686
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<pre style="margin: 0;"> <span id="LC1686" class="line" lang="c"> <span class="n" style="color: #333;">errno</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">0</span><span class="p">;</span> <span class="c1" style="color: #998; font-style: italic;">//just in case</span></span>
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<td class="diff-line-num old_line" data-linenumber="1576" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1576
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<td class="diff-line-num new_line" data-linenumber="1687" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1687
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<pre style="margin: 0;"> <span id="LC1687" class="line" lang="c"></span>
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<td class="diff-line-num new old_line" data-linenumber="1577" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
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<td class="diff-line-num new new_line" data-linenumber="1688" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1688
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<pre style="margin: 0;">+<span id="LC1688" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#if PY_MAJOR_VERSION >= 3</span></span>
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1577
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<td class="diff-line-num new_line" data-linenumber="1689" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1689
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<pre style="margin: 0;"> <span id="LC1689" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">Py_AtExit</span><span class="p">(</span><span class="n" style="color: #333;">bwCleanup</span><span class="p">))</span> <span class="k" style="font-weight: 600;">return</span> <span class="nb" style="color: #0086b3;">NULL</span><span class="p">;</span></span>
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<td class="diff-line-num old old_line" data-linenumber="1578" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
1578
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<td class="diff-line-num new_line old" data-linenumber="1690" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC1578" class="line" lang="c"></span>
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<td class="diff-line-num old_line" data-linenumber="1579" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1579
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<td class="diff-line-num new_line" data-linenumber="1690" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1690
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<pre style="margin: 0;"> <span id="LC1690" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">PyType_Ready</span><span class="p">(</span><span class="o" style="font-weight: 600;">&</span><span class="n" style="color: #333;">bigWigFile</span><span class="p">)</span> <span class="o" style="font-weight: 600;"><</span> <span class="mi" style="color: #099;">0</span><span class="p">)</span> <span class="k" style="font-weight: 600;">return</span> <span class="nb" style="color: #0086b3;">NULL</span><span class="p">;</span></span>
</pre>
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<td class="diff-line-num old old_line" data-linenumber="1580" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
1580
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<td class="diff-line-num new_line old" data-linenumber="1691" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC1580" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">Py_AtExit</span><span class="p">(</span><span class="n" style="color: #333;">bwCleanup</span><span class="p">))</span> <span class="k" style="font-weight: 600;">return</span> <span class="nb" style="color: #0086b3;">NULL</span><span class="p">;</span></span>
</pre>
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<td class="diff-line-num old_line" data-linenumber="1581" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1581
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<td class="diff-line-num new_line" data-linenumber="1691" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1691
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<pre style="margin: 0;"> <span id="LC1691" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">bwInit</span><span class="p">(</span><span class="mi" style="color: #099;">128000</span><span class="p">))</span> <span class="k" style="font-weight: 600;">return</span> <span class="nb" style="color: #0086b3;">NULL</span><span class="p">;</span></span>
</pre>
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<td class="diff-line-num old_line" data-linenumber="1582" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1582
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<td class="diff-line-num new_line" data-linenumber="1692" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1692
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<pre style="margin: 0;"> <span id="LC1692" class="line" lang="c"> <span class="n" style="color: #333;">res</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">PyModule_Create</span><span class="p">(</span><span class="o" style="font-weight: 600;">&</span><span class="n" style="color: #333;">pyBigWigmodule</span><span class="p">);</span></span>
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<td class="diff-line-num old_line" data-linenumber="1583" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1583
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<td class="diff-line-num new_line" data-linenumber="1693" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1693
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<pre style="margin: 0;"> <span id="LC1693" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="o" style="font-weight: 600;">!</span><span class="n" style="color: #333;">res</span><span class="p">)</span> <span class="k" style="font-weight: 600;">return</span> <span class="nb" style="color: #0086b3;">NULL</span><span class="p">;</span></span>
</pre>
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<td class="diff-line-num new old_line" data-linenumber="1584" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
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<td class="diff-line-num new new_line" data-linenumber="1694" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1694
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<pre style="margin: 0;">+<span id="LC1694" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#else</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1695" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1695
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<pre style="margin: 0;">+<span id="LC1695" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">Py_AtExit</span><span class="p">(</span><span class="n" style="color: #333;">bwCleanup</span><span class="p">))</span> <span class="k" style="font-weight: 600;">return</span><span class="p">;</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1696" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1696
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<pre style="margin: 0;">+<span id="LC1696" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">PyType_Ready</span><span class="p">(</span><span class="o" style="font-weight: 600;">&</span><span class="n" style="color: #333;">bigWigFile</span><span class="p">)</span> <span class="o" style="font-weight: 600;"><</span> <span class="mi" style="color: #099;">0</span><span class="p">)</span> <span class="k" style="font-weight: 600;">return</span><span class="p">;</span></span>
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<td class="diff-line-num new old_line" data-linenumber="1584" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
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<td class="diff-line-num new new_line" data-linenumber="1697" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1697
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<pre style="margin: 0;">+<span id="LC1697" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">bwInit</span><span class="p">(</span><span class="mi" style="color: #099;">128000</span><span class="p">))</span> <span class="k" style="font-weight: 600;">return</span><span class="p">;</span></span>
</pre>
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<td class="diff-line-num new old_line" data-linenumber="1584" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
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<td class="diff-line-num new new_line" data-linenumber="1698" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1698
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<pre style="margin: 0;">+<span id="LC1698" class="line" lang="c"> <span class="n" style="color: #333;">res</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">Py_InitModule3</span><span class="p">(</span><span class="s" style="color: #d14;">"pyBigWig"</span><span class="p">,</span> <span class="n" style="color: #333;">bwMethods</span><span class="p">,</span> <span class="s" style="color: #d14;">"A module for handling bigWig files"</span><span class="p">);</span></span>
</pre>
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<td class="diff-line-num new old_line" data-linenumber="1584" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
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<td class="diff-line-num new new_line" data-linenumber="1699" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1699
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<pre style="margin: 0;">+<span id="LC1699" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#endif</span></span>
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1584
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<td class="diff-line-num new_line" data-linenumber="1700" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1700
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<pre style="margin: 0;"> <span id="LC1700" class="line" lang="c"></span>
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<pre style="margin: 0;"> <span id="LC1701" class="line" lang="c"> <span class="n" style="color: #333;">Py_INCREF</span><span class="p">(</span><span class="o" style="font-weight: 600;">&</span><span class="n" style="color: #333;">bigWigFile</span><span class="p">);</span></span>
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1586
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1702
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<pre style="margin: 0;"> <span id="LC1702" class="line" lang="c"> <span class="n" style="color: #333;">PyModule_AddObject</span><span class="p">(</span><span class="n" style="color: #333;">res</span><span class="p">,</span> <span class="s" style="color: #d14;">"pyBigWig"</span><span class="p">,</span> <span class="p">(</span><span class="n" style="color: #333;">PyObject</span> <span class="o" style="font-weight: 600;">*</span><span class="p">)</span> <span class="o" style="font-weight: 600;">&</span><span class="n" style="color: #333;">bigWigFile</span><span class="p">);</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="1592" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="1708" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -1592,25 +1708,14 @@ PyMODINIT_FUNC PyInit_pyBigWig(void) {</td>
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1592
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1708
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<pre style="margin: 0;"> <span id="LC1708" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#else</span></span>
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1593
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1709
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<pre style="margin: 0;"> <span id="LC1709" class="line" lang="c"> <span class="n" style="color: #333;">PyModule_AddIntConstant</span><span class="p">(</span><span class="n" style="color: #333;">res</span><span class="p">,</span> <span class="s" style="color: #d14;">"numpy"</span><span class="p">,</span> <span class="mi" style="color: #099;">0</span><span class="p">);</span></span>
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1594
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<td class="diff-line-num new_line" data-linenumber="1710" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1710
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<pre style="margin: 0;"> <span id="LC1710" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#endif</span></span>
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1595
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<td class="diff-line-num new_line old" data-linenumber="1711" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC1595" class="line" lang="c"></span>
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1596
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<pre style="margin: 0;">-<span id="LC1596" class="line" lang="c"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">res</span><span class="p">;</span></span>
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1597
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<pre style="margin: 0;">-<span id="LC1597" class="line" lang="c"><span class="p">}</span></span>
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1711
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<pre style="margin: 0;">+<span id="LC1711" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#ifdef NOCURL</span></span>
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1712
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<pre style="margin: 0;">+<span id="LC1712" class="line" lang="c"> <span class="n" style="color: #333;">PyModule_AddIntConstant</span><span class="p">(</span><span class="n" style="color: #333;">res</span><span class="p">,</span> <span class="s" style="color: #d14;">"remote"</span><span class="p">,</span> <span class="mi" style="color: #099;">0</span><span class="p">);</span></span>
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1598
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1713
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<pre style="margin: 0;"> <span id="LC1713" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#else</span></span>
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<pre style="margin: 0;">-<span id="LC1599" class="line" lang="c"><span class="c1" style="color: #998; font-style: italic;">//Python2 initialization</span></span>
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<pre style="margin: 0;">-<span id="LC1600" class="line" lang="c"><span class="n" style="color: #333;">PyMODINIT_FUNC</span> <span class="n" style="color: #333;">initpyBigWig</span><span class="p">(</span><span class="kt" style="color: #458; font-weight: 600;">void</span><span class="p">)</span> <span class="p">{</span></span>
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<pre style="margin: 0;">-<span id="LC1601" class="line" lang="c"> <span class="n" style="color: #333;">PyObject</span> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">res</span><span class="p">;</span></span>
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1602
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<pre style="margin: 0;">-<span id="LC1602" class="line" lang="c"> <span class="n" style="color: #333;">errno</span><span class="o" style="font-weight: 600;">=</span><span class="mi" style="color: #099;">0</span><span class="p">;</span> <span class="c1" style="color: #998; font-style: italic;">//Sometimes libpython2.7.so is missing some links...</span></span>
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1603
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<pre style="margin: 0;">-<span id="LC1603" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">Py_AtExit</span><span class="p">(</span><span class="n" style="color: #333;">bwCleanup</span><span class="p">))</span> <span class="k" style="font-weight: 600;">return</span><span class="p">;</span></span>
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1604
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<pre style="margin: 0;">-<span id="LC1604" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">PyType_Ready</span><span class="p">(</span><span class="o" style="font-weight: 600;">&</span><span class="n" style="color: #333;">bigWigFile</span><span class="p">)</span> <span class="o" style="font-weight: 600;"><</span> <span class="mi" style="color: #099;">0</span><span class="p">)</span> <span class="k" style="font-weight: 600;">return</span><span class="p">;</span></span>
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1605
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<pre style="margin: 0;">-<span id="LC1605" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">bwInit</span><span class="p">(</span><span class="mi" style="color: #099;">128000</span><span class="p">))</span> <span class="k" style="font-weight: 600;">return</span><span class="p">;</span> <span class="c1" style="color: #998; font-style: italic;">//This is temporary</span></span>
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1606
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<td class="diff-line-num new_line old" data-linenumber="1714" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC1606" class="line" lang="c"> <span class="n" style="color: #333;">res</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">Py_InitModule3</span><span class="p">(</span><span class="s" style="color: #d14;">"pyBigWig"</span><span class="p">,</span> <span class="n" style="color: #333;">bwMethods</span><span class="p">,</span> <span class="s" style="color: #d14;">"A module for handling bigWig files"</span><span class="p">);</span></span>
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<td class="diff-line-num new old_line" data-linenumber="1607" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
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1714
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<pre style="margin: 0;">+<span id="LC1714" class="line" lang="c"> <span class="n" style="color: #333;">PyModule_AddIntConstant</span><span class="p">(</span><span class="n" style="color: #333;">res</span><span class="p">,</span> <span class="s" style="color: #d14;">"remote"</span><span class="p">,</span> <span class="mi" style="color: #099;">1</span><span class="p">);</span></span>
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<pre style="margin: 0;">+<span id="LC1715" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#endif</span></span>
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<pre style="margin: 0;">+<span id="LC1716" class="line" lang="c"> <span class="n" style="color: #333;">PyModule_AddStringConstant</span><span class="p">(</span><span class="n" style="color: #333;">res</span><span class="p">,</span> <span class="s" style="color: #d14;">"__version__"</span><span class="p">,</span> <span class="n" style="color: #333;">pyBigWigVersion</span><span class="p">);</span></span>
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1607
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1717
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<pre style="margin: 0;"> <span id="LC1717" class="line" lang="c"></span>
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1608
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<pre style="margin: 0;">-<span id="LC1608" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#ifdef WITHNUMPY</span></span>
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1609
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<pre style="margin: 0;">-<span id="LC1609" class="line" lang="c"> <span class="c1" style="color: #998; font-style: italic;">//Add the numpy constant</span></span>
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1610
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<pre style="margin: 0;">-<span id="LC1610" class="line" lang="c"> <span class="n" style="color: #333;">import_array</span><span class="p">();</span> <span class="c1" style="color: #998; font-style: italic;">//Needed for numpy stuff to work</span></span>
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1611
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<pre style="margin: 0;">-<span id="LC1611" class="line" lang="c"> <span class="n" style="color: #333;">PyModule_AddIntConstant</span><span class="p">(</span><span class="n" style="color: #333;">res</span><span class="p">,</span> <span class="s" style="color: #d14;">"numpy"</span><span class="p">,</span> <span class="mi" style="color: #099;">1</span><span class="p">);</span></span>
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1612
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<pre style="margin: 0;">-<span id="LC1612" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#else</span></span>
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1613
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<pre style="margin: 0;">-<span id="LC1613" class="line" lang="c"> <span class="n" style="color: #333;">PyModule_AddIntConstant</span><span class="p">(</span><span class="n" style="color: #333;">res</span><span class="p">,</span> <span class="s" style="color: #d14;">"numpy"</span><span class="p">,</span> <span class="mi" style="color: #099;">0</span><span class="p">);</span></span>
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1718
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<pre style="margin: 0;">+<span id="LC1718" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#if PY_MAJOR_VERSION >= 3</span></span>
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1719
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<pre style="margin: 0;">+<span id="LC1719" class="line" lang="c"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">res</span><span class="p">;</span></span>
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1614
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1720
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<pre style="margin: 0;"> <span id="LC1720" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#endif</span></span>
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1721
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<pre style="margin: 0;"> <span id="LC1721" class="line" lang="c"><span class="p">}</span></span></pre>
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<pre style="margin: 0;">-<span id="LC1616" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#endif</span></span></pre>
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<li id="b41ee24ca452384204db3e3895e4ba6868fa4a68">
<a href="https://salsa.debian.org/med-team/pybigwig/commit/7a3cc3ffe926943e0b3385270e067db9ef3f3967#b41ee24ca452384204db3e3895e4ba6868fa4a68"><strong>pyBigWig.egg-info/SOURCES.txt</strong></a>
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<td class="diff-line-num unfold js-unfold new_line" data-linenumber="8" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -8,6 +8,7 @@ setup.py</td>
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8
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8
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<pre style="margin: 0;"> <span id="LC8" class="line" lang="plaintext">libBigWig/LICENSE</span>
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9
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9
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<pre style="margin: 0;"> <span id="LC9" class="line" lang="plaintext">libBigWig/README.md</span>
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10
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<pre style="margin: 0;"> <span id="LC10" class="line" lang="plaintext">libBigWig/bigWig.h</span>
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11
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<pre style="margin: 0;">+<span id="LC11" class="line" lang="plaintext">libBigWig/bigWigIO.h</span>
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11
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12
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<pre style="margin: 0;"> <span id="LC12" class="line" lang="plaintext">libBigWig/bwCommon.h</span>
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12
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13
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<pre style="margin: 0;"> <span id="LC13" class="line" lang="plaintext">libBigWig/bwRead.c</span>
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13
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14
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<pre style="margin: 0;"> <span id="LC14" class="line" lang="plaintext">libBigWig/bwStats.c</span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="15" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="16" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -15,7 +16,7 @@ libBigWig/bwValues.c</td>
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15
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<pre style="margin: 0;"> <span id="LC16" class="line" lang="plaintext">libBigWig/bwValues.h</span>
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<pre style="margin: 0;"> <span id="LC17" class="line" lang="plaintext">libBigWig/bwWrite.c</span>
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<pre style="margin: 0;"> <span id="LC18" class="line" lang="plaintext">libBigWig/io.c</span>
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<pre style="margin: 0;">-<span id="LC18" class="line" lang="plaintext">libBigWig/io.h</span>
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<pre style="margin: 0;"> <span id="LC19" class="line" lang="plaintext">pyBigWigTest/__init__.py</span>
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<pre style="margin: 0;">+<span id="LC20" class="line" lang="plaintext">pyBigWigTest/test.bigBed</span>
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<pre style="margin: 0;"> <span id="LC21" class="line" lang="plaintext">pyBigWigTest/test.bw</span>
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<pre style="margin: 0;"> <span id="LC22" class="line" lang="plaintext">pyBigWigTest/test.py</span></pre>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -2,6 +2,8 @@</td>
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<pre style="margin: 0;"> <span id="LC2" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#include <structmember.h></span></span>
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<pre style="margin: 0;"> <span id="LC3" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#include "bigWig.h"</span></span>
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<pre style="margin: 0;"> <span id="LC4" class="line" lang="c"></span>
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<pre style="margin: 0;">+<span id="LC5" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#define pyBigWigVersion "0.3.11"</span></span>
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<pre style="margin: 0;">+<span id="LC6" class="line" lang="c"></span>
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<pre style="margin: 0;"> <span id="LC7" class="line" lang="c"><span class="k" style="font-weight: 600;">typedef</span> <span class="k" style="font-weight: 600;">struct</span> <span class="p">{</span></span>
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<pre style="margin: 0;"> <span id="LC8" class="line" lang="c"> <span class="n" style="color: #333;">PyObject_HEAD</span></span>
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<pre style="margin: 0;"> <span id="LC9" class="line" lang="c"> <span class="n" style="color: #333;">bigWigFile_t</span> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">bw</span><span class="p">;</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -13,6 +15,7 @@ typedef struct {</td>
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<pre style="margin: 0;"> <span id="LC15" class="line" lang="c"><span class="p">}</span> <span class="n" style="color: #333;">pyBigWigFile_t</span><span class="p">;</span></span>
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<pre style="margin: 0;"> <span id="LC16" class="line" lang="c"></span>
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<pre style="margin: 0;"> <span id="LC17" class="line" lang="c"><span class="k" style="font-weight: 600;">static</span> <span class="n" style="color: #333;">PyObject</span> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">pyBwOpen</span><span class="p">(</span><span class="n" style="color: #333;">PyObject</span> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">self</span><span class="p">,</span> <span class="n" style="color: #333;">PyObject</span> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">pyFname</span><span class="p">);</span></span>
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<pre style="margin: 0;">+<span id="LC18" class="line" lang="c"><span class="k" style="font-weight: 600;">static</span> <span class="n" style="color: #333;">PyObject</span> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">pyBwEnter</span><span class="p">(</span><span class="n" style="color: #333;">pyBigWigFile_t</span> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">self</span><span class="p">,</span> <span class="n" style="color: #333;">PyObject</span> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">args</span><span class="p">);</span></span>
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<pre style="margin: 0;"> <span id="LC19" class="line" lang="c"><span class="k" style="font-weight: 600;">static</span> <span class="n" style="color: #333;">PyObject</span> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">pyBwClose</span><span class="p">(</span><span class="n" style="color: #333;">pyBigWigFile_t</span> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">pybw</span><span class="p">,</span> <span class="n" style="color: #333;">PyObject</span> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">args</span><span class="p">);</span></span>
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<pre style="margin: 0;"> <span id="LC20" class="line" lang="c"><span class="k" style="font-weight: 600;">static</span> <span class="n" style="color: #333;">PyObject</span> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">pyBwGetChroms</span><span class="p">(</span><span class="n" style="color: #333;">pyBigWigFile_t</span> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">pybw</span><span class="p">,</span> <span class="n" style="color: #333;">PyObject</span> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">args</span><span class="p">);</span></span>
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18
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21
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<pre style="margin: 0;"> <span id="LC21" class="line" lang="c"><span class="k" style="font-weight: 600;">static</span> <span class="n" style="color: #333;">PyObject</span> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">pyIsBigWig</span><span class="p">(</span><span class="n" style="color: #333;">pyBigWigFile_t</span> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">pybw</span><span class="p">,</span> <span class="n" style="color: #333;">PyObject</span> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">args</span><span class="p">);</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -51,6 +54,10 @@ Arguments:\n\</td>
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51
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54
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<pre style="margin: 0;"> <span id="LC54" class="line" lang="c"><span class="se" style="color: #d14;">\n</span><span class="s" style="color: #d14;">\</span></span>
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<pre style="margin: 0;"> <span id="LC55" class="line" lang="c"><span class="s" style="color: #d14;">>>> import pyBigWig</span><span class="se" style="color: #d14;">\n</span><span class="s" style="color: #d14;">\</span></span>
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56
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<pre style="margin: 0;"> <span id="LC56" class="line" lang="c"><span class="s" style="color: #d14;">>>> bw = pyBigWig.open(</span><span class="se" style="color: #d14;">\"</span><span class="s" style="color: #d14;">some_file.bw</span><span class="se" style="color: #d14;">\"</span><span class="s" style="color: #d14;">)</span><span class="se" style="color: #d14;">\n</span><span class="s" style="color: #d14;">"</span><span class="p">},</span></span>
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57
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<pre style="margin: 0;">+<span id="LC57" class="line" lang="c"> <span class="p">{</span><span class="nb" style="color: #0086b3;">NULL</span><span class="p">,</span> <span class="nb" style="color: #0086b3;">NULL</span><span class="p">,</span> <span class="mi" style="color: #099;">0</span><span class="p">,</span> <span class="nb" style="color: #0086b3;">NULL</span><span class="p">}</span></span>
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58
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<pre style="margin: 0;">+<span id="LC58" class="line" lang="c"><span class="p">};</span></span>
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59
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<pre style="margin: 0;">+<span id="LC59" class="line" lang="c"></span>
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60
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<pre style="margin: 0;">+<span id="LC60" class="line" lang="c"><span class="k" style="font-weight: 600;">static</span> <span class="n" style="color: #333;">PyMethodDef</span> <span class="n" style="color: #333;">bwObjMethods</span><span class="p">[]</span> <span class="o" style="font-weight: 600;">=</span> <span class="p">{</span></span>
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54
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61
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<pre style="margin: 0;"> <span id="LC61" class="line" lang="c"> <span class="p">{</span><span class="s" style="color: #d14;">"header"</span><span class="p">,</span> <span class="p">(</span><span class="n" style="color: #333;">PyCFunction</span><span class="p">)</span><span class="n" style="color: #333;">pyBwGetHeader</span><span class="p">,</span> <span class="n" style="color: #333;">METH_VARARGS</span><span class="p">,</span></span>
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55
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62
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<pre style="margin: 0;"> <span id="LC62" class="line" lang="c"><span class="s" style="color: #d14;">"Returns the header of a bigWig file. This contains information such as: </span><span class="se" style="color: #d14;">\n</span><span class="s" style="color: #d14;">\</span></span>
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56
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63
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<pre style="margin: 0;"> <span id="LC63" class="line" lang="c"><span class="s" style="color: #d14;"> * The version number of the file ('version').</span><span class="se" style="color: #d14;">\n</span><span class="s" style="color: #d14;">\</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="375" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="382" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -375,6 +382,8 @@ Keyword arguments:\n\</td>
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375
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382
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<pre style="margin: 0;"> <span id="LC382" class="line" lang="c"><span class="s" style="color: #d14;">>>> bw.addEntries([</span><span class="se" style="color: #d14;">\"</span><span class="s" style="color: #d14;">1</span><span class="se" style="color: #d14;">\"</span><span class="s" style="color: #d14;">, </span><span class="se" style="color: #d14;">\"</span><span class="s" style="color: #d14;">1</span><span class="se" style="color: #d14;">\"</span><span class="s" style="color: #d14;">, </span><span class="se" style="color: #d14;">\"</span><span class="s" style="color: #d14;">1</span><span class="se" style="color: #d14;">\"</span><span class="s" style="color: #d14;">], [0, 100, 125], ends=[5, 120, 126], values=[0.0, 1.0, 200.0], validate=False)</span><span class="se" style="color: #d14;">\n</span><span class="s" style="color: #d14;">\</span></span>
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376
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383
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<pre style="margin: 0;"> <span id="LC383" class="line" lang="c"><span class="s" style="color: #d14;">>>> bw.close()</span><span class="se" style="color: #d14;">\n</span><span class="s" style="color: #d14;">\</span></span>
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377
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384
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<pre style="margin: 0;"> <span id="LC384" class="line" lang="c"><span class="s" style="color: #d14;">>>> os.remove(oname)"</span><span class="p">},</span></span>
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385
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<pre style="margin: 0;">+<span id="LC385" class="line" lang="c"> <span class="p">{</span><span class="s" style="color: #d14;">"__enter__"</span><span class="p">,</span> <span class="p">(</span><span class="n" style="color: #333;">PyCFunction</span><span class="p">)</span><span class="n" style="color: #333;">pyBwEnter</span><span class="p">,</span> <span class="n" style="color: #333;">METH_NOARGS</span><span class="p">,</span> <span class="nb" style="color: #0086b3;">NULL</span><span class="p">},</span></span>
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386
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<pre style="margin: 0;">+<span id="LC386" class="line" lang="c"> <span class="p">{</span><span class="s" style="color: #d14;">"__exit__"</span><span class="p">,</span> <span class="p">(</span><span class="n" style="color: #333;">PyCFunction</span><span class="p">)</span><span class="n" style="color: #333;">pyBwClose</span><span class="p">,</span> <span class="n" style="color: #333;">METH_VARARGS</span><span class="p">,</span> <span class="nb" style="color: #0086b3;">NULL</span><span class="p">},</span></span>
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378
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387
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<pre style="margin: 0;"> <span id="LC387" class="line" lang="c"> <span class="p">{</span><span class="nb" style="color: #0086b3;">NULL</span><span class="p">,</span> <span class="nb" style="color: #0086b3;">NULL</span><span class="p">,</span> <span class="mi" style="color: #099;">0</span><span class="p">,</span> <span class="nb" style="color: #0086b3;">NULL</span><span class="p">}</span></span>
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379
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388
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<pre style="margin: 0;"> <span id="LC388" class="line" lang="c"><span class="p">};</span></span>
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<pre style="margin: 0;"> <span id="LC389" class="line" lang="c"></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -433,7 +442,7 @@ static PyTypeObject bigWigFile = {</td>
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<pre style="margin: 0;"> <span id="LC442" class="line" lang="c"> <span class="mi" style="color: #099;">0</span><span class="p">,</span> <span class="cm" style="color: #998; font-style: italic;">/*tp_weaklistoffset*/</span></span>
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<pre style="margin: 0;"> <span id="LC443" class="line" lang="c"> <span class="mi" style="color: #099;">0</span><span class="p">,</span> <span class="cm" style="color: #998; font-style: italic;">/*tp_iter*/</span></span>
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<pre style="margin: 0;"> <span id="LC444" class="line" lang="c"> <span class="mi" style="color: #099;">0</span><span class="p">,</span> <span class="cm" style="color: #998; font-style: italic;">/*tp_iternext*/</span></span>
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<pre style="margin: 0;">-<span id="LC436" class="line" lang="c"> <span class="n" style="color: #333;">bwMethods</span><span class="p">,</span> <span class="cm" style="color: #998; font-style: italic;">/*tp_methods*/</span></span>
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<pre style="margin: 0;">+<span id="LC445" class="line" lang="c"> <span class="n" style="color: #333;">bw<span class="idiff left right">Obj</span>Methods</span><span class="p">,</span> <span class="cm" style="color: #998; font-style: italic;">/*tp_methods*/</span></span>
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<pre style="margin: 0;"> <span id="LC446" class="line" lang="c"> <span class="mi" style="color: #099;">0</span><span class="p">,</span> <span class="cm" style="color: #998; font-style: italic;">/*tp_members*/</span></span>
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<pre style="margin: 0;"> <span id="LC447" class="line" lang="c"> <span class="mi" style="color: #099;">0</span><span class="p">,</span> <span class="cm" style="color: #998; font-style: italic;">/*tp_getset*/</span></span>
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<pre style="margin: 0;"> <span id="LC448" class="line" lang="c"> <span class="mi" style="color: #099;">0</span><span class="p">,</span> <span class="cm" style="color: #998; font-style: italic;">/*tp_base*/</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -12,6 +12,10 @@ class TestRemote():</td>
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<pre style="margin: 0;"> <span id="LC12" class="line" lang="python"> <span class="k" style="font-weight: 600;">assert</span><span class="p">(</span><span class="n" style="color: #333;">bw</span> <span class="ow" style="font-weight: 600;">is</span> <span class="ow" style="font-weight: 600;">not</span> <span class="bp" style="color: #999;">None</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC13" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">bw</span></span>
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<pre style="margin: 0;"> <span id="LC14" class="line" lang="python"></span>
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<pre style="margin: 0;">+<span id="LC15" class="line" lang="python"> <span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">doOpenWith</span><span class="p">(</span><span class="bp" style="color: #999;">self</span><span class="p">):</span></span>
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<pre style="margin: 0;">+<span id="LC16" class="line" lang="python"> <span class="k" style="font-weight: 600;">with</span> <span class="n" style="color: #333;">pyBigWig</span><span class="o" style="font-weight: 600;">.</span><span class="nb" style="color: #0086b3;">open</span><span class="p">(</span><span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">fname</span><span class="p">)</span> <span class="k" style="font-weight: 600;">as</span> <span class="n" style="color: #333;">bw</span><span class="p">:</span></span>
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<pre style="margin: 0;">+<span id="LC17" class="line" lang="python"> <span class="k" style="font-weight: 600;">assert</span><span class="p">(</span><span class="n" style="color: #333;">bw</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">chroms</span><span class="p">()</span> <span class="o" style="font-weight: 600;">==</span> <span class="p">{</span><span class="s" style="color: #d14;">'1'</span><span class="p">:</span> <span class="mi" style="color: #099;">195471971</span><span class="p">,</span> <span class="s" style="color: #d14;">'10'</span><span class="p">:</span> <span class="mi" style="color: #099;">130694993</span><span class="p">})</span></span>
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18
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<pre style="margin: 0;">+<span id="LC18" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC19" class="line" lang="python"> <span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">doChroms</span><span class="p">(</span><span class="bp" style="color: #999;">self</span><span class="p">,</span> <span class="n" style="color: #333;">bw</span><span class="p">):</span></span>
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<pre style="margin: 0;"> <span id="LC20" class="line" lang="python"> <span class="k" style="font-weight: 600;">assert</span><span class="p">(</span><span class="n" style="color: #333;">bw</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">chroms</span><span class="p">()</span> <span class="o" style="font-weight: 600;">==</span> <span class="p">{</span><span class="s" style="color: #d14;">'1'</span><span class="p">:</span> <span class="mi" style="color: #099;">195471971</span><span class="p">,</span> <span class="s" style="color: #d14;">'10'</span><span class="p">:</span> <span class="mi" style="color: #099;">130694993</span><span class="p">})</span></span>
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17
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<pre style="margin: 0;"> <span id="LC21" class="line" lang="python"> <span class="k" style="font-weight: 600;">assert</span><span class="p">(</span><span class="n" style="color: #333;">bw</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">chroms</span><span class="p">(</span><span class="s" style="color: #d14;">"1"</span><span class="p">)</span> <span class="o" style="font-weight: 600;">==</span> <span class="mi" style="color: #099;">195471971</span><span class="p">)</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -34,6 +38,9 @@ class TestRemote():</td>
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<pre style="margin: 0;"> <span id="LC38" class="line" lang="python"> <span class="k" style="font-weight: 600;">assert</span><span class="p">(</span><span class="n" style="color: #333;">bw</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">intervals</span><span class="p">(</span><span class="s" style="color: #d14;">"1"</span><span class="p">,</span> <span class="mi" style="color: #099;">0</span><span class="p">,</span> <span class="mi" style="color: #099;">3</span><span class="p">)</span> <span class="o" style="font-weight: 600;">==</span> <span class="p">((</span><span class="mi" style="color: #099;">0</span><span class="p">,</span> <span class="mi" style="color: #099;">1</span><span class="p">,</span> <span class="mf" style="color: #099;">0.10000000149011612</span><span class="p">),</span> <span class="p">(</span><span class="mi" style="color: #099;">1</span><span class="p">,</span> <span class="mi" style="color: #099;">2</span><span class="p">,</span> <span class="mf" style="color: #099;">0.20000000298023224</span><span class="p">),</span> <span class="p">(</span><span class="mi" style="color: #099;">2</span><span class="p">,</span> <span class="mi" style="color: #099;">3</span><span class="p">,</span> <span class="mf" style="color: #099;">0.30000001192092896</span><span class="p">)))</span></span>
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<pre style="margin: 0;"> <span id="LC39" class="line" lang="python"> <span class="k" style="font-weight: 600;">assert</span><span class="p">(</span><span class="n" style="color: #333;">bw</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">intervals</span><span class="p">(</span><span class="s" style="color: #d14;">"1"</span><span class="p">)</span> <span class="o" style="font-weight: 600;">==</span> <span class="p">((</span><span class="mi" style="color: #099;">0</span><span class="p">,</span> <span class="mi" style="color: #099;">1</span><span class="p">,</span> <span class="mf" style="color: #099;">0.10000000149011612</span><span class="p">),</span> <span class="p">(</span><span class="mi" style="color: #099;">1</span><span class="p">,</span> <span class="mi" style="color: #099;">2</span><span class="p">,</span> <span class="mf" style="color: #099;">0.20000000298023224</span><span class="p">),</span> <span class="p">(</span><span class="mi" style="color: #099;">2</span><span class="p">,</span> <span class="mi" style="color: #099;">3</span><span class="p">,</span> <span class="mf" style="color: #099;">0.30000001192092896</span><span class="p">),</span> <span class="p">(</span><span class="mi" style="color: #099;">100</span><span class="p">,</span> <span class="mi" style="color: #099;">150</span><span class="p">,</span> <span class="mf" style="color: #099;">1.399999976158142</span><span class="p">),</span> <span class="p">(</span><span class="mi" style="color: #099;">150</span><span class="p">,</span> <span class="mi" style="color: #099;">151</span><span class="p">,</span> <span class="mf" style="color: #099;">1.5</span><span class="p">)))</span></span>
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<pre style="margin: 0;"> <span id="LC40" class="line" lang="python"></span>
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<pre style="margin: 0;">+<span id="LC41" class="line" lang="python"> <span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">doSum</span><span class="p">(</span><span class="bp" style="color: #999;">self</span><span class="p">,</span> <span class="n" style="color: #333;">bw</span><span class="p">):</span></span>
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<pre style="margin: 0;">+<span id="LC42" class="line" lang="python"> <span class="k" style="font-weight: 600;">assert</span><span class="p">(</span><span class="n" style="color: #333;">bw</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">stats</span><span class="p">(</span><span class="s" style="color: #d14;">"1"</span><span class="p">,</span> <span class="mi" style="color: #099;">100</span><span class="p">,</span> <span class="mi" style="color: #099;">151</span><span class="p">,</span> <span class="nb" style="color: #0086b3;">type</span><span class="o" style="font-weight: 600;">=</span><span class="s" style="color: #d14;">"sum"</span><span class="p">,</span> <span class="n" style="color: #333;">nBins</span><span class="o" style="font-weight: 600;">=</span><span class="mi" style="color: #099;">2</span><span class="p">)</span> <span class="o" style="font-weight: 600;">==</span> <span class="p">[</span><span class="mf" style="color: #099;">35.0</span><span class="p">,</span> <span class="mf" style="color: #099;">36.5</span><span class="p">])</span></span>
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<pre style="margin: 0;">+<span id="LC43" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC44" class="line" lang="python"> <span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">doWrite</span><span class="p">(</span><span class="bp" style="color: #999;">self</span><span class="p">,</span> <span class="n" style="color: #333;">bw</span><span class="p">):</span></span>
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<pre style="margin: 0;"> <span id="LC45" class="line" lang="python"> <span class="n" style="color: #333;">ofile</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">tempfile</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">NamedTemporaryFile</span><span class="p">(</span><span class="n" style="color: #333;">delete</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">False</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC46" class="line" lang="python"> <span class="n" style="color: #333;">oname</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">ofile</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">name</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -126,20 +133,74 @@ class TestRemote():</td>
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<pre style="margin: 0;"> <span id="LC133" class="line" lang="python"> <span class="n" style="color: #333;">bw</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">close</span><span class="p">()</span></span>
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<pre style="margin: 0;"> <span id="LC134" class="line" lang="python"> <span class="c" style="color: #998; font-style: italic;">#check md5sum, this is the simplest method to check correctness</span></span>
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<pre style="margin: 0;"> <span id="LC135" class="line" lang="python"> <span class="n" style="color: #333;">h</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">hashlib</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">md5</span><span class="p">(</span><span class="nb" style="color: #0086b3;">open</span><span class="p">(</span><span class="n" style="color: #333;">oname</span><span class="p">,</span> <span class="s" style="color: #d14;">"rb"</span><span class="p">)</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">read</span><span class="p">())</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">hexdigest</span><span class="p">()</span></span>
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<pre style="margin: 0;">-<span id="LC129" class="line" lang="python"> <span class="k" style="font-weight: 600;">assert</span><span class="p">(</span><span class="n" style="color: #333;">h</span><span class="o" style="font-weight: 600;">==</span><span class="s" style="color: #d14;">"b1ca91d2ff42afdd2efa19a007c1ded4"</span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC136" class="line" lang="python"> <span class="k" style="font-weight: 600;">assert</span><span class="p">(</span><span class="n" style="color: #333;">h</span><span class="o" style="font-weight: 600;">==</span><span class="s" style="color: #d14;">"ef104f198c6ce8310acc149d0377fc16"</span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC137" class="line" lang="python"> <span class="c" style="color: #998; font-style: italic;">#Clean up</span></span>
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<pre style="margin: 0;">+<span id="LC138" class="line" lang="python"> <span class="n" style="color: #333;">os</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">remove</span><span class="p">(</span><span class="n" style="color: #333;">oname</span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC139" class="line" lang="python"></span>
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140
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<pre style="margin: 0;">+<span id="LC140" class="line" lang="python"> <span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">doWriteEmpty</span><span class="p">(</span><span class="bp" style="color: #999;">self</span><span class="p">):</span></span>
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141
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<pre style="margin: 0;">+<span id="LC141" class="line" lang="python"> <span class="n" style="color: #333;">ofile</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">tempfile</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">NamedTemporaryFile</span><span class="p">(</span><span class="n" style="color: #333;">delete</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">False</span><span class="p">)</span></span>
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142
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<pre style="margin: 0;">+<span id="LC142" class="line" lang="python"> <span class="n" style="color: #333;">oname</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">ofile</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">name</span></span>
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143
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<pre style="margin: 0;">+<span id="LC143" class="line" lang="python"> <span class="n" style="color: #333;">ofile</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">close</span><span class="p">()</span></span>
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144
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<pre style="margin: 0;">+<span id="LC144" class="line" lang="python"> <span class="n" style="color: #333;">bw</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">pyBigWig</span><span class="o" style="font-weight: 600;">.</span><span class="nb" style="color: #0086b3;">open</span><span class="p">(</span><span class="n" style="color: #333;">oname</span><span class="p">,</span> <span class="s" style="color: #d14;">"w"</span><span class="p">)</span></span>
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145
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<pre style="margin: 0;">+<span id="LC145" class="line" lang="python"> <span class="n" style="color: #333;">bw</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">addHeader</span><span class="p">([(</span><span class="s" style="color: #d14;">"1"</span><span class="p">,</span> <span class="mi" style="color: #099;">1000000</span><span class="p">),</span> <span class="p">(</span><span class="s" style="color: #d14;">"2"</span><span class="p">,</span> <span class="mi" style="color: #099;">1500000</span><span class="p">)])</span></span>
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146
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<pre style="margin: 0;">+<span id="LC146" class="line" lang="python"> <span class="n" style="color: #333;">bw</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">close</span><span class="p">()</span></span>
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147
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<pre style="margin: 0;">+<span id="LC147" class="line" lang="python"></span>
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148
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<pre style="margin: 0;">+<span id="LC148" class="line" lang="python"> <span class="c" style="color: #998; font-style: italic;">#check md5sum</span></span>
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149
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<pre style="margin: 0;">+<span id="LC149" class="line" lang="python"> <span class="n" style="color: #333;">h</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">hashlib</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">md5</span><span class="p">(</span><span class="nb" style="color: #0086b3;">open</span><span class="p">(</span><span class="n" style="color: #333;">oname</span><span class="p">,</span> <span class="s" style="color: #d14;">"rb"</span><span class="p">)</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">read</span><span class="p">())</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">hexdigest</span><span class="p">()</span></span>
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150
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<pre style="margin: 0;">+<span id="LC150" class="line" lang="python"> <span class="k" style="font-weight: 600;">assert</span><span class="p">(</span><span class="n" style="color: #333;">h</span><span class="o" style="font-weight: 600;">==</span><span class="s" style="color: #d14;">"361c600e5badf0b45d819552a7822937"</span><span class="p">)</span></span>
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151
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<pre style="margin: 0;">+<span id="LC151" class="line" lang="python"></span>
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152
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<pre style="margin: 0;">+<span id="LC152" class="line" lang="python"> <span class="c" style="color: #998; font-style: italic;">#Ensure we can open and get reasonable results</span></span>
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153
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<pre style="margin: 0;">+<span id="LC153" class="line" lang="python"> <span class="n" style="color: #333;">bw</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">pyBigWig</span><span class="o" style="font-weight: 600;">.</span><span class="nb" style="color: #0086b3;">open</span><span class="p">(</span><span class="n" style="color: #333;">oname</span><span class="p">)</span></span>
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154
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<pre style="margin: 0;">+<span id="LC154" class="line" lang="python"> <span class="k" style="font-weight: 600;">assert</span><span class="p">(</span><span class="n" style="color: #333;">bw</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">chroms</span><span class="p">()</span> <span class="o" style="font-weight: 600;">==</span> <span class="p">{</span><span class="s" style="color: #d14;">'1'</span><span class="p">:</span> <span class="mi" style="color: #099;">1000000</span><span class="p">,</span> <span class="s" style="color: #d14;">'2'</span><span class="p">:</span> <span class="mi" style="color: #099;">1500000</span><span class="p">})</span></span>
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155
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<pre style="margin: 0;">+<span id="LC155" class="line" lang="python"> <span class="k" style="font-weight: 600;">assert</span><span class="p">(</span><span class="n" style="color: #333;">bw</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">intervals</span><span class="p">(</span><span class="s" style="color: #d14;">"1"</span><span class="p">)</span> <span class="o" style="font-weight: 600;">==</span> <span class="bp" style="color: #999;">None</span><span class="p">)</span></span>
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<td class="diff-line-num new new_line" data-linenumber="156" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
156
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<pre style="margin: 0;">+<span id="LC156" class="line" lang="python"> <span class="k" style="font-weight: 600;">assert</span><span class="p">(</span><span class="n" style="color: #333;">bw</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">values</span><span class="p">(</span><span class="s" style="color: #d14;">"1"</span><span class="p">,</span> <span class="mi" style="color: #099;">0</span><span class="p">,</span> <span class="mi" style="color: #099;">1000000</span><span class="p">)</span> <span class="o" style="font-weight: 600;">==</span> <span class="p">[])</span></span>
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<td class="diff-line-num new new_line" data-linenumber="157" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
157
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<pre style="margin: 0;">+<span id="LC157" class="line" lang="python"> <span class="k" style="font-weight: 600;">assert</span><span class="p">(</span><span class="n" style="color: #333;">bw</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">stats</span><span class="p">(</span><span class="s" style="color: #d14;">"1"</span><span class="p">,</span> <span class="mi" style="color: #099;">0</span><span class="p">,</span> <span class="mi" style="color: #099;">1000000</span><span class="p">,</span> <span class="n" style="color: #333;">nBins</span><span class="o" style="font-weight: 600;">=</span><span class="mi" style="color: #099;">2</span><span class="p">)</span> <span class="o" style="font-weight: 600;">==</span> <span class="p">[</span><span class="bp" style="color: #999;">None</span><span class="p">,</span> <span class="bp" style="color: #999;">None</span><span class="p">])</span></span>
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158
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<pre style="margin: 0;">+<span id="LC158" class="line" lang="python"> <span class="n" style="color: #333;">bw</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">close</span><span class="p">()</span></span>
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<pre style="margin: 0;">+<span id="LC159" class="line" lang="python"></span>
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160
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<pre style="margin: 0;">+<span id="LC160" class="line" lang="python"> <span class="c" style="color: #998; font-style: italic;">#Clean up</span></span>
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161
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<pre style="margin: 0;">+<span id="LC161" class="line" lang="python"> <span class="n" style="color: #333;">os</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">remove</span><span class="p">(</span><span class="n" style="color: #333;">oname</span><span class="p">)</span></span>
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162
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<pre style="margin: 0;">+<span id="LC162" class="line" lang="python"></span>
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163
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<pre style="margin: 0;">+<span id="LC163" class="line" lang="python"> <span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">doWriteNumpy</span><span class="p">(</span><span class="bp" style="color: #999;">self</span><span class="p">):</span></span>
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164
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<pre style="margin: 0;">+<span id="LC164" class="line" lang="python"> <span class="kn" style="font-weight: 600;">import</span> <span class="nn" style="color: #555;">numpy</span> <span class="k" style="font-weight: 600;">as</span> <span class="n" style="color: #333;">np</span></span>
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165
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<pre style="margin: 0;">+<span id="LC165" class="line" lang="python"> <span class="n" style="color: #333;">ofile</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">tempfile</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">NamedTemporaryFile</span><span class="p">(</span><span class="n" style="color: #333;">delete</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">False</span><span class="p">)</span></span>
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166
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<pre style="margin: 0;">+<span id="LC166" class="line" lang="python"> <span class="n" style="color: #333;">oname</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">ofile</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">name</span></span>
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167
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<pre style="margin: 0;">+<span id="LC167" class="line" lang="python"> <span class="n" style="color: #333;">ofile</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">close</span><span class="p">()</span></span>
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168
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<pre style="margin: 0;">+<span id="LC168" class="line" lang="python"> <span class="n" style="color: #333;">bw</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">pyBigWig</span><span class="o" style="font-weight: 600;">.</span><span class="nb" style="color: #0086b3;">open</span><span class="p">(</span><span class="n" style="color: #333;">oname</span><span class="p">,</span> <span class="s" style="color: #d14;">"w"</span><span class="p">)</span></span>
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169
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<pre style="margin: 0;">+<span id="LC169" class="line" lang="python"> <span class="n" style="color: #333;">bw</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">addHeader</span><span class="p">([(</span><span class="s" style="color: #d14;">"chr1"</span><span class="p">,</span> <span class="mi" style="color: #099;">100</span><span class="p">),</span> <span class="p">(</span><span class="s" style="color: #d14;">"chr2"</span><span class="p">,</span> <span class="mi" style="color: #099;">150</span><span class="p">),</span> <span class="p">(</span><span class="s" style="color: #d14;">"chr3"</span><span class="p">,</span> <span class="mi" style="color: #099;">200</span><span class="p">),</span> <span class="p">(</span><span class="s" style="color: #d14;">"chr4"</span><span class="p">,</span> <span class="mi" style="color: #099;">250</span><span class="p">)])</span></span>
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170
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<pre style="margin: 0;">+<span id="LC170" class="line" lang="python"> <span class="n" style="color: #333;">chroms</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">np</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">array</span><span class="p">([</span><span class="s" style="color: #d14;">"chr1"</span><span class="p">]</span> <span class="o" style="font-weight: 600;">*</span> <span class="mi" style="color: #099;">2</span> <span class="o" style="font-weight: 600;">+</span> <span class="p">[</span><span class="s" style="color: #d14;">"chr2"</span><span class="p">]</span> <span class="o" style="font-weight: 600;">*</span> <span class="mi" style="color: #099;">2</span> <span class="o" style="font-weight: 600;">+</span> <span class="p">[</span><span class="s" style="color: #d14;">"chr3"</span><span class="p">]</span> <span class="o" style="font-weight: 600;">*</span> <span class="mi" style="color: #099;">2</span> <span class="o" style="font-weight: 600;">+</span> <span class="p">[</span><span class="s" style="color: #d14;">"chr4"</span><span class="p">]</span> <span class="o" style="font-weight: 600;">*</span> <span class="mi" style="color: #099;">2</span><span class="p">)</span></span>
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171
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<pre style="margin: 0;">+<span id="LC171" class="line" lang="python"> <span class="n" style="color: #333;">starts</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">np</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">array</span><span class="p">([</span><span class="mi" style="color: #099;">0</span><span class="p">,</span> <span class="mi" style="color: #099;">10</span><span class="p">,</span> <span class="mi" style="color: #099;">40</span><span class="p">,</span> <span class="mi" style="color: #099;">50</span><span class="p">,</span> <span class="mi" style="color: #099;">60</span><span class="p">,</span> <span class="mi" style="color: #099;">70</span><span class="p">,</span> <span class="mi" style="color: #099;">80</span><span class="p">,</span> <span class="mi" style="color: #099;">90</span><span class="p">],</span> <span class="n" style="color: #333;">dtype</span><span class="o" style="font-weight: 600;">=</span><span class="n" style="color: #333;">np</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">int64</span><span class="p">)</span></span>
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172
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<pre style="margin: 0;">+<span id="LC172" class="line" lang="python"> <span class="n" style="color: #333;">ends</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">np</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">array</span><span class="p">([</span><span class="mi" style="color: #099;">5</span><span class="p">,</span> <span class="mi" style="color: #099;">15</span><span class="p">,</span> <span class="mi" style="color: #099;">45</span><span class="p">,</span> <span class="mi" style="color: #099;">55</span><span class="p">,</span> <span class="mi" style="color: #099;">65</span><span class="p">,</span> <span class="mi" style="color: #099;">75</span><span class="p">,</span> <span class="mi" style="color: #099;">85</span><span class="p">,</span> <span class="mi" style="color: #099;">95</span><span class="p">],</span> <span class="n" style="color: #333;">dtype</span><span class="o" style="font-weight: 600;">=</span><span class="n" style="color: #333;">np</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">int64</span><span class="p">)</span></span>
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173
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<pre style="margin: 0;">+<span id="LC173" class="line" lang="python"> <span class="n" style="color: #333;">values0</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">np</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">array</span><span class="p">(</span><span class="n" style="color: #333;">np</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">random</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">random_sample</span><span class="p">(</span><span class="mi" style="color: #099;">8</span><span class="p">),</span> <span class="n" style="color: #333;">dtype</span><span class="o" style="font-weight: 600;">=</span><span class="n" style="color: #333;">np</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">float64</span><span class="p">)</span></span>
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174
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<pre style="margin: 0;">+<span id="LC174" class="line" lang="python"> <span class="n" style="color: #333;">bw</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">addEntries</span><span class="p">(</span><span class="n" style="color: #333;">chroms</span><span class="p">,</span> <span class="n" style="color: #333;">starts</span><span class="p">,</span> <span class="n" style="color: #333;">ends</span><span class="o" style="font-weight: 600;">=</span><span class="n" style="color: #333;">ends</span><span class="p">,</span> <span class="n" style="color: #333;">values</span><span class="o" style="font-weight: 600;">=</span><span class="n" style="color: #333;">values0</span><span class="p">)</span></span>
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175
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<pre style="margin: 0;">+<span id="LC175" class="line" lang="python"> <span class="n" style="color: #333;">bw</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">close</span><span class="p">()</span></span>
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176
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<pre style="margin: 0;">+<span id="LC176" class="line" lang="python"></span>
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<pre style="margin: 0;">+<span id="LC177" class="line" lang="python"> <span class="n" style="color: #333;">vals</span> <span class="o" style="font-weight: 600;">=</span> <span class="p">[(</span><span class="n" style="color: #333;">x</span><span class="p">,</span> <span class="n" style="color: #333;">y</span><span class="p">,</span> <span class="n" style="color: #333;">z</span><span class="p">)</span> <span class="k" style="font-weight: 600;">for</span> <span class="n" style="color: #333;">x</span><span class="p">,</span> <span class="n" style="color: #333;">y</span><span class="p">,</span> <span class="n" style="color: #333;">z</span> <span class="ow" style="font-weight: 600;">in</span> <span class="nb" style="color: #0086b3;">zip</span><span class="p">(</span><span class="n" style="color: #333;">starts</span><span class="p">,</span> <span class="n" style="color: #333;">ends</span><span class="p">,</span> <span class="n" style="color: #333;">values0</span><span class="p">)]</span></span>
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178
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<pre style="margin: 0;">+<span id="LC178" class="line" lang="python"> <span class="n" style="color: #333;">bw</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">pyBigWig</span><span class="o" style="font-weight: 600;">.</span><span class="nb" style="color: #0086b3;">open</span><span class="p">(</span><span class="n" style="color: #333;">oname</span><span class="p">)</span></span>
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<td class="diff-line-num new new_line" data-linenumber="179" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
179
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<pre style="margin: 0;">+<span id="LC179" class="line" lang="python"> <span class="k" style="font-weight: 600;">assert</span><span class="p">(</span><span class="n" style="color: #333;">bw</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">chroms</span><span class="p">()</span> <span class="o" style="font-weight: 600;">==</span> <span class="p">{</span><span class="s" style="color: #d14;">'chr1'</span><span class="p">:</span> <span class="mi" style="color: #099;">100</span><span class="p">,</span> <span class="s" style="color: #d14;">'chr2'</span><span class="p">:</span> <span class="mi" style="color: #099;">150</span><span class="p">,</span> <span class="s" style="color: #d14;">'chr3'</span><span class="p">:</span> <span class="mi" style="color: #099;">200</span><span class="p">,</span> <span class="s" style="color: #d14;">'chr4'</span><span class="p">:</span> <span class="mi" style="color: #099;">250</span><span class="p">})</span></span>
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<td class="diff-line-num new new_line" data-linenumber="180" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
180
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<pre style="margin: 0;">+<span id="LC180" class="line" lang="python"> <span class="k" style="font-weight: 600;">for</span> <span class="n" style="color: #333;">idx1</span><span class="p">,</span> <span class="n" style="color: #333;">chrom</span> <span class="ow" style="font-weight: 600;">in</span> <span class="nb" style="color: #0086b3;">enumerate</span><span class="p">([</span><span class="s" style="color: #d14;">"chr1"</span><span class="p">,</span> <span class="s" style="color: #d14;">"chr2"</span><span class="p">,</span> <span class="s" style="color: #d14;">"chr3"</span><span class="p">,</span> <span class="s" style="color: #d14;">"chr4"</span><span class="p">]):</span></span>
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<td class="diff-line-num new new_line" data-linenumber="181" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
181
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<pre style="margin: 0;">+<span id="LC181" class="line" lang="python"> <span class="k" style="font-weight: 600;">for</span> <span class="n" style="color: #333;">idx2</span><span class="p">,</span> <span class="n" style="color: #333;">tup</span> <span class="ow" style="font-weight: 600;">in</span> <span class="nb" style="color: #0086b3;">enumerate</span><span class="p">(</span><span class="n" style="color: #333;">bw</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">intervals</span><span class="p">(</span><span class="n" style="color: #333;">chrom</span><span class="p">)):</span></span>
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<td class="diff-line-num new new_line" data-linenumber="182" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
182
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<pre style="margin: 0;">+<span id="LC182" class="line" lang="python"> <span class="k" style="font-weight: 600;">assert</span><span class="p">(</span><span class="n" style="color: #333;">tup</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]</span> <span class="o" style="font-weight: 600;">==</span> <span class="n" style="color: #333;">starts</span><span class="p">[</span><span class="mi" style="color: #099;">2</span> <span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">idx1</span> <span class="o" style="font-weight: 600;">+</span> <span class="n" style="color: #333;">idx2</span><span class="p">])</span></span>
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<td class="diff-line-num new new_line" data-linenumber="183" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
183
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<pre style="margin: 0;">+<span id="LC183" class="line" lang="python"> <span class="k" style="font-weight: 600;">assert</span><span class="p">(</span><span class="n" style="color: #333;">tup</span><span class="p">[</span><span class="mi" style="color: #099;">1</span><span class="p">]</span> <span class="o" style="font-weight: 600;">==</span> <span class="n" style="color: #333;">ends</span><span class="p">[</span><span class="mi" style="color: #099;">2</span> <span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">idx1</span> <span class="o" style="font-weight: 600;">+</span> <span class="n" style="color: #333;">idx2</span><span class="p">])</span></span>
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<td class="diff-line-num new new_line" data-linenumber="184" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
184
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<pre style="margin: 0;">+<span id="LC184" class="line" lang="python"> <span class="k" style="font-weight: 600;">assert</span><span class="p">(</span><span class="n" style="color: #333;">np</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">isclose</span><span class="p">(</span><span class="n" style="color: #333;">tup</span><span class="p">[</span><span class="mi" style="color: #099;">2</span><span class="p">],</span> <span class="n" style="color: #333;">values0</span><span class="p">[</span><span class="mi" style="color: #099;">2</span> <span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">idx1</span> <span class="o" style="font-weight: 600;">+</span> <span class="n" style="color: #333;">idx2</span><span class="p">]))</span></span>
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185
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<pre style="margin: 0;">+<span id="LC185" class="line" lang="python"> <span class="n" style="color: #333;">bw</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">close</span><span class="p">()</span></span>
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186
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<pre style="margin: 0;">+<span id="LC186" class="line" lang="python"></span>
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130
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187
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<pre style="margin: 0;"> <span id="LC187" class="line" lang="python"> <span class="c" style="color: #998; font-style: italic;">#Clean up</span></span>
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131
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188
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<pre style="margin: 0;"> <span id="LC188" class="line" lang="python"> <span class="n" style="color: #333;">os</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">remove</span><span class="p">(</span><span class="n" style="color: #333;">oname</span><span class="p">)</span></span>
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132
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189
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<pre style="margin: 0;"> <span id="LC189" class="line" lang="python"></span>
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133
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190
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<pre style="margin: 0;"> <span id="LC190" class="line" lang="python"> <span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">testAll</span><span class="p">(</span><span class="bp" style="color: #999;">self</span><span class="p">):</span></span>
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134
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191
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<pre style="margin: 0;"> <span id="LC191" class="line" lang="python"> <span class="n" style="color: #333;">bw</span> <span class="o" style="font-weight: 600;">=</span> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">doOpen</span><span class="p">()</span></span>
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135
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192
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<pre style="margin: 0;"> <span id="LC192" class="line" lang="python"> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">doChroms</span><span class="p">(</span><span class="n" style="color: #333;">bw</span><span class="p">)</span></span>
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136
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<pre style="margin: 0;">-<span id="LC136" class="line" lang="python"> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">doHeader</span><span class="p">(</span><span class="n" style="color: #333;">bw</span><span class="p">)</span></span>
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137
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<pre style="margin: 0;">-<span id="LC137" class="line" lang="python"> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">doStats</span><span class="p">(</span><span class="n" style="color: #333;">bw</span><span class="p">)</span></span>
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<pre style="margin: 0;">-<span id="LC138" class="line" lang="python"> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">doValues</span><span class="p">(</span><span class="n" style="color: #333;">bw</span><span class="p">)</span></span>
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<pre style="margin: 0;">-<span id="LC139" class="line" lang="python"> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">doIntervals</span><span class="p">(</span><span class="n" style="color: #333;">bw</span><span class="p">)</span></span>
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140
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<pre style="margin: 0;">-<span id="LC140" class="line" lang="python"> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">doWrite</span><span class="p">(</span><span class="n" style="color: #333;">bw</span><span class="p">)</span></span>
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141
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<pre style="margin: 0;">-<span id="LC141" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">fname</span> <span class="o" style="font-weight: 600;">==</span> <span class="s" style="color: #d14;">"pyBigWigTest/test.bw"</span><span class="p">:</span></span>
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193
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<pre style="margin: 0;">+<span id="LC193" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="ow" style="font-weight: 600;">not</span> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">fname</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">startswith</span><span class="p">(</span><span class="s" style="color: #d14;">"http"</span><span class="p">):</span></span>
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194
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<pre style="margin: 0;">+<span id="LC194" class="line" lang="python"> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">doHeader</span><span class="p">(</span><span class="n" style="color: #333;">bw</span><span class="p">)</span></span>
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195
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<pre style="margin: 0;">+<span id="LC195" class="line" lang="python"> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">doStats</span><span class="p">(</span><span class="n" style="color: #333;">bw</span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC196" class="line" lang="python"> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">doSum</span><span class="p">(</span><span class="n" style="color: #333;">bw</span><span class="p">)</span></span>
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197
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<pre style="margin: 0;">+<span id="LC197" class="line" lang="python"> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">doValues</span><span class="p">(</span><span class="n" style="color: #333;">bw</span><span class="p">)</span></span>
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198
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<pre style="margin: 0;">+<span id="LC198" class="line" lang="python"> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">doIntervals</span><span class="p">(</span><span class="n" style="color: #333;">bw</span><span class="p">)</span></span>
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199
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<pre style="margin: 0;">+<span id="LC199" class="line" lang="python"> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">doWrite</span><span class="p">(</span><span class="n" style="color: #333;">bw</span><span class="p">)</span></span>
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200
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<pre style="margin: 0;">+<span id="LC200" class="line" lang="python"> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">doOpenWith</span><span class="p">()</span></span>
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142
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201
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<pre style="margin: 0;"> <span id="LC201" class="line" lang="python"> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">doWrite2</span><span class="p">()</span></span>
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202
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<pre style="margin: 0;">+<span id="LC202" class="line" lang="python"> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">doWriteEmpty</span><span class="p">()</span></span>
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203
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<pre style="margin: 0;">+<span id="LC203" class="line" lang="python"> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">doWriteNumpy</span><span class="p">()</span></span>
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143
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204
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<pre style="margin: 0;"> <span id="LC204" class="line" lang="python"> <span class="n" style="color: #333;">bw</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">close</span><span class="p">()</span></span>
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144
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205
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<pre style="margin: 0;"> <span id="LC205" class="line" lang="python"></span>
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145
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206
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<pre style="margin: 0;"> <span id="LC206" class="line" lang="python"><span class="k" style="font-weight: 600;">class</span> <span class="nc" style="color: #458; font-weight: 600;">TestLocal</span><span class="p">():</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -150,7 +211,7 @@ class TestLocal():</td>
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150
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211
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<pre style="margin: 0;"> <span id="LC211" class="line" lang="python"></span>
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151
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212
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<pre style="margin: 0;"> <span id="LC212" class="line" lang="python"><span class="k" style="font-weight: 600;">class</span> <span class="nc" style="color: #458; font-weight: 600;">TestBigBed</span><span class="p">():</span></span>
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152
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<pre style="margin: 0;"> <span id="LC213" class="line" lang="python"> <span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">testBigBed</span><span class="p">(</span><span class="bp" style="color: #999;">self</span><span class="p">):</span></span>
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153
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<pre style="margin: 0;">-<span id="LC153" class="line" lang="python"> <span class="n" style="color: #333;">fname</span> <span class="o" style="font-weight: 600;">=</span> <span class="s" style="color: #d14;"><span class="idiff left right">"http://www.encodeproject.org/files/ENCFF001JBR/@@download/ENCFF001JBR</span>.bigBed"</span></span>
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214
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<pre style="margin: 0;">+<span id="LC214" class="line" lang="python"> <span class="n" style="color: #333;">fname</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;"><span class="idiff left">os</span></span><span class="o" style="font-weight: 600;"><span class="idiff">.</span></span><span class="n" style="color: #333;"><span class="idiff">path</span></span><span class="o" style="font-weight: 600;"><span class="idiff">.</span></span><span class="n" style="color: #333;"><span class="idiff">dirname</span></span><span class="p"><span class="idiff">(</span></span><span class="n" style="color: #333;"><span class="idiff">pyBigWig</span></span><span class="o" style="font-weight: 600;"><span class="idiff">.</span></span><span class="n" style="color: #333;"><span class="idiff">__file__</span></span><span class="p"><span class="idiff">)</span></span><span class="idiff"> </span><span class="o" style="font-weight: 600;"><span class="idiff">+</span></span><span class="idiff"> </span><span class="s" style="color: #d14;"><span class="idiff right">"/pyBigWigTest/test</span>.bigBed"</span></span>
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154
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215
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<pre style="margin: 0;"> <span id="LC215" class="line" lang="python"> <span class="n" style="color: #333;">bb</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">pyBigWig</span><span class="o" style="font-weight: 600;">.</span><span class="nb" style="color: #0086b3;">open</span><span class="p">(</span><span class="n" style="color: #333;">fname</span><span class="p">)</span></span>
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155
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216
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<pre style="margin: 0;"> <span id="LC216" class="line" lang="python"> <span class="k" style="font-weight: 600;">assert</span><span class="p">(</span><span class="n" style="color: #333;">bb</span> <span class="ow" style="font-weight: 600;">is</span> <span class="ow" style="font-weight: 600;">not</span> <span class="bp" style="color: #999;">None</span><span class="p">)</span></span>
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156
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217
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<pre style="margin: 0;"> <span id="LC217" class="line" lang="python"> <span class="k" style="font-weight: 600;">assert</span><span class="p">(</span><span class="n" style="color: #333;">bb</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">isBigWig</span><span class="p">()</span> <span class="o" style="font-weight: 600;">==</span> <span class="mi" style="color: #099;">0</span><span class="p">)</span></span>
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<a href="https://salsa.debian.org/med-team/pybigwig/commit/7a3cc3ffe926943e0b3385270e067db9ef3f3967#8c91c0296909b5ea3c496fde69e9dc44a6c6ae5f"><strong>setup.cfg</strong></a>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -4,5 +4,4 @@ description-file = README.md</td>
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4
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4
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<pre style="margin: 0;"> <span id="LC4" class="line" lang="plaintext">[egg_info]</span>
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5
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5
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<pre style="margin: 0;"> <span id="LC5" class="line" lang="plaintext">tag_build = </span>
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6
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6
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<pre style="margin: 0;"> <span id="LC6" class="line" lang="plaintext">tag_date = 0</span>
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7
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<pre style="margin: 0;">-<span id="LC7" class="line" lang="plaintext">tag_svn_revision = 0</span>
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8
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7
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<pre style="margin: 0;"> <span id="LC7" class="line" lang="plaintext"></span></pre>
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<a href="https://salsa.debian.org/med-team/pybigwig/commit/7a3cc3ffe926943e0b3385270e067db9ef3f3967#8e2edce0d507e1297474f25c00cae94258db38d8"><strong>setup.py</strong></a>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -16,22 +16,28 @@ srcs = [x for x in</td>
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<pre style="margin: 0;"> <span id="LC16" class="line" lang="python"><span class="n" style="color: #333;">srcs</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">append</span><span class="p">(</span><span class="s" style="color: #d14;">"pyBigWig.c"</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC17" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC18" class="line" lang="python"><span class="n" style="color: #333;">libs</span><span class="o" style="font-weight: 600;">=</span><span class="p">[</span><span class="s" style="color: #d14;">"m"</span><span class="p">,</span> <span class="s" style="color: #d14;">"z"</span><span class="p">,</span> <span class="s" style="color: #d14;">"curl"</span><span class="p">]</span></span>
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19
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<pre style="margin: 0;">-<span id="LC19" class="line" lang="python"><span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">sysconfig</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">get_config_vars</span><span class="p">(</span><span class="s" style="color: #d14;">'BLDLIBRARY'</span><span class="p">)</span> <span class="ow" style="font-weight: 600;">is</span> <span class="ow" style="font-weight: 600;">not</span> <span class="bp" style="color: #999;">None</span><span class="p">:</span></span>
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<pre style="margin: 0;">-<span id="LC20" class="line" lang="python"> <span class="c" style="color: #998; font-style: italic;">#Note the "-l" prefix!</span></span>
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<pre style="margin: 0;">-<span id="LC21" class="line" lang="python"> <span class="k" style="font-weight: 600;">for</span> <span class="n" style="color: #333;">e</span> <span class="ow" style="font-weight: 600;">in</span> <span class="n" style="color: #333;">sysconfig</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">get_config_vars</span><span class="p">(</span><span class="s" style="color: #d14;">'BLDLIBRARY'</span><span class="p">)[</span><span class="mi" style="color: #099;">0</span><span class="p">]</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">split</span><span class="p">():</span></span>
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<pre style="margin: 0;">-<span id="LC22" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">e</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">:</span><span class="mi" style="color: #099;">2</span><span class="p">]</span> <span class="o" style="font-weight: 600;">==</span> <span class="s" style="color: #d14;">"-l"</span><span class="p">:</span></span>
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<pre style="margin: 0;">-<span id="LC23" class="line" lang="python"> <span class="n" style="color: #333;">libs</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">append</span><span class="p">(</span><span class="n" style="color: #333;">e</span><span class="p">[</span><span class="mi" style="color: #099;">2</span><span class="p">:])</span></span>
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<pre style="margin: 0;">-<span id="LC24" class="line" lang="python"><span class="k" style="font-weight: 600;">elif</span><span class="p">(</span><span class="n" style="color: #333;">sys</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">version_info</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]</span> <span class="o" style="font-weight: 600;">>=</span> <span class="mi" style="color: #099;">3</span> <span class="ow" style="font-weight: 600;">and</span> <span class="n" style="color: #333;">sys</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">version_info</span><span class="p">[</span><span class="mi" style="color: #099;">1</span><span class="p">]</span> <span class="o" style="font-weight: 600;">>=</span> <span class="mi" style="color: #099;">3</span><span class="p">)</span> <span class="p">:</span></span>
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<pre style="margin: 0;">-<span id="LC25" class="line" lang="python"> <span class="n" style="color: #333;">libs</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">append</span><span class="p">(</span><span class="s" style="color: #d14;">"python</span><span class="si" style="color: #d14;">%</span><span class="s" style="color: #d14;">i.</span><span class="si" style="color: #d14;">%</span><span class="s" style="color: #d14;">im"</span> <span class="o" style="font-weight: 600;">%</span> <span class="p">(</span><span class="n" style="color: #333;">sys</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">version_info</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">],</span> <span class="n" style="color: #333;">sys</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">version_info</span><span class="p">[</span><span class="mi" style="color: #099;">1</span><span class="p">]))</span></span>
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<pre style="margin: 0;">-<span id="LC26" class="line" lang="python"><span class="k" style="font-weight: 600;">else</span> <span class="p">:</span></span>
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<pre style="margin: 0;">-<span id="LC27" class="line" lang="python"> <span class="n" style="color: #333;">libs</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">append</span><span class="p">(</span><span class="s" style="color: #d14;">"python</span><span class="si" style="color: #d14;">%</span><span class="s" style="color: #d14;">i.</span><span class="si" style="color: #d14;">%</span><span class="s" style="color: #d14;">i"</span> <span class="o" style="font-weight: 600;">%</span> <span class="p">(</span><span class="n" style="color: #333;">sys</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">version_info</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">],</span> <span class="n" style="color: #333;">sys</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">version_info</span><span class="p">[</span><span class="mi" style="color: #099;">1</span><span class="p">]))</span></span>
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<pre style="margin: 0;">+<span id="LC19" class="line" lang="python"></span>
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<pre style="margin: 0;">+<span id="LC20" class="line" lang="python"><span class="c" style="color: #998; font-style: italic;"># do not link to python on mac, see https://github.com/deeptools/pyBigWig/issues/58</span></span>
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<pre style="margin: 0;">+<span id="LC21" class="line" lang="python"><span class="k" style="font-weight: 600;">if</span> <span class="s" style="color: #d14;">'dynamic_lookup'</span> <span class="ow" style="font-weight: 600;">not</span> <span class="ow" style="font-weight: 600;">in</span> <span class="p">(</span><span class="n" style="color: #333;">sysconfig</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">get_config_var</span><span class="p">(</span><span class="s" style="color: #d14;">'LDSHARED'</span><span class="p">)</span> <span class="ow" style="font-weight: 600;">or</span> <span class="s" style="color: #d14;">''</span><span class="p">):</span></span>
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<pre style="margin: 0;">+<span id="LC22" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">sysconfig</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">get_config_vars</span><span class="p">(</span><span class="s" style="color: #d14;">'BLDLIBRARY'</span><span class="p">)</span> <span class="ow" style="font-weight: 600;">is</span> <span class="ow" style="font-weight: 600;">not</span> <span class="bp" style="color: #999;">None</span><span class="p">:</span></span>
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<pre style="margin: 0;">+<span id="LC23" class="line" lang="python"> <span class="c" style="color: #998; font-style: italic;">#Note the "-l" prefix!</span></span>
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<pre style="margin: 0;">+<span id="LC24" class="line" lang="python"> <span class="k" style="font-weight: 600;">for</span> <span class="n" style="color: #333;">e</span> <span class="ow" style="font-weight: 600;">in</span> <span class="n" style="color: #333;">sysconfig</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">get_config_vars</span><span class="p">(</span><span class="s" style="color: #d14;">'BLDLIBRARY'</span><span class="p">)[</span><span class="mi" style="color: #099;">0</span><span class="p">]</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">split</span><span class="p">():</span></span>
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<pre style="margin: 0;">+<span id="LC25" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">e</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">:</span><span class="mi" style="color: #099;">2</span><span class="p">]</span> <span class="o" style="font-weight: 600;">==</span> <span class="s" style="color: #d14;">"-l"</span><span class="p">:</span></span>
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<pre style="margin: 0;">+<span id="LC26" class="line" lang="python"> <span class="n" style="color: #333;">libs</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">append</span><span class="p">(</span><span class="n" style="color: #333;">e</span><span class="p">[</span><span class="mi" style="color: #099;">2</span><span class="p">:])</span></span>
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<pre style="margin: 0;">+<span id="LC27" class="line" lang="python"> <span class="k" style="font-weight: 600;">elif</span><span class="p">(</span><span class="n" style="color: #333;">sys</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">version_info</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]</span> <span class="o" style="font-weight: 600;">>=</span> <span class="mi" style="color: #099;">3</span> <span class="ow" style="font-weight: 600;">and</span> <span class="n" style="color: #333;">sys</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">version_info</span><span class="p">[</span><span class="mi" style="color: #099;">1</span><span class="p">]</span> <span class="o" style="font-weight: 600;">>=</span> <span class="mi" style="color: #099;">3</span><span class="p">)</span> <span class="p">:</span></span>
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28
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<pre style="margin: 0;">+<span id="LC28" class="line" lang="python"> <span class="n" style="color: #333;">libs</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">append</span><span class="p">(</span><span class="s" style="color: #d14;">"python</span><span class="si" style="color: #d14;">%</span><span class="s" style="color: #d14;">i.</span><span class="si" style="color: #d14;">%</span><span class="s" style="color: #d14;">im"</span> <span class="o" style="font-weight: 600;">%</span> <span class="p">(</span><span class="n" style="color: #333;">sys</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">version_info</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">],</span> <span class="n" style="color: #333;">sys</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">version_info</span><span class="p">[</span><span class="mi" style="color: #099;">1</span><span class="p">]))</span></span>
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<pre style="margin: 0;">+<span id="LC29" class="line" lang="python"> <span class="k" style="font-weight: 600;">else</span> <span class="p">:</span></span>
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<pre style="margin: 0;">+<span id="LC30" class="line" lang="python"> <span class="n" style="color: #333;">libs</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">append</span><span class="p">(</span><span class="s" style="color: #d14;">"python</span><span class="si" style="color: #d14;">%</span><span class="s" style="color: #d14;">i.</span><span class="si" style="color: #d14;">%</span><span class="s" style="color: #d14;">i"</span> <span class="o" style="font-weight: 600;">%</span> <span class="p">(</span><span class="n" style="color: #333;">sys</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">version_info</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">],</span> <span class="n" style="color: #333;">sys</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">version_info</span><span class="p">[</span><span class="mi" style="color: #099;">1</span><span class="p">]))</span></span>
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<pre style="margin: 0;"> <span id="LC31" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC32" class="line" lang="python"><span class="n" style="color: #333;">additional_libs</span> <span class="o" style="font-weight: 600;">=</span> <span class="p">[</span><span class="n" style="color: #333;">sysconfig</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">get_config_var</span><span class="p">(</span><span class="s" style="color: #d14;">"LIBDIR"</span><span class="p">),</span> <span class="n" style="color: #333;">sysconfig</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">get_config_var</span><span class="p">(</span><span class="s" style="color: #d14;">"LIBPL"</span><span class="p">)]</span></span>
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<pre style="margin: 0;"> <span id="LC33" class="line" lang="python"></span>
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<pre style="margin: 0;">+<span id="LC34" class="line" lang="python"><span class="n" style="color: #333;">defines</span> <span class="o" style="font-weight: 600;">=</span> <span class="p">[]</span></span>
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<pre style="margin: 0;"> <span id="LC35" class="line" lang="python"><span class="k" style="font-weight: 600;">try</span><span class="p">:</span></span>
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<pre style="margin: 0;"> <span id="LC36" class="line" lang="python"> <span class="n" style="color: #333;">foo</span><span class="p">,</span> <span class="n" style="color: #333;">_</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">subprocess</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">Popen</span><span class="p">([</span><span class="s" style="color: #d14;">'curl-config'</span><span class="p">,</span> <span class="s" style="color: #d14;">'--libs'</span><span class="p">],</span> <span class="n" style="color: #333;">stdout</span><span class="o" style="font-weight: 600;">=</span><span class="n" style="color: #333;">subprocess</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">PIPE</span><span class="p">)</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">communicate</span><span class="p">()</span></span>
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<pre style="margin: 0;"> <span id="LC37" class="line" lang="python"><span class="k" style="font-weight: 600;">except</span><span class="p">:</span></span>
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<pre style="margin: 0;">-<span id="LC34" class="line" lang="python"> <span class="n" style="color: #333;">sys</span><span class="o" style="font-weight: 600;">.</span><span class="nb" style="color: #0086b3;">exit</span><span class="p">(</span><span class="s" style="color: #d14;">"Either libcurl isn't installed, it didn't come with curl-config, or curl-config isn't in your $PATH. This must be corrected before installing pyBigWig!</span><span class="se" style="color: #d14;">\n</span><span class="s" style="color: #d14;">"</span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC38" class="line" lang="python"> <span class="n" style="color: #333;">foo</span> <span class="o" style="font-weight: 600;">=</span> <span class="s" style="color: #d14;">''</span></span>
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<pre style="margin: 0;">+<span id="LC39" class="line" lang="python"> <span class="n" style="color: #333;">defines</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">append</span><span class="p">((</span><span class="s" style="color: #d14;">'NOCURL'</span><span class="p">,</span> <span class="bp" style="color: #999;">None</span><span class="p">))</span></span>
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<pre style="margin: 0;">+<span id="LC40" class="line" lang="python"> <span class="n" style="color: #333;">sys</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">stderr</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">write</span><span class="p">(</span><span class="s" style="color: #d14;">"Either libcurl isn't installed, it didn't come with curl-config, or curl-config isn't in your $PATH. pyBigWig will be installed without support for remote files.</span><span class="se" style="color: #d14;">\n</span><span class="s" style="color: #d14;">"</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC41" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC42" class="line" lang="python"><span class="n" style="color: #333;">foo</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">foo</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">strip</span><span class="p">()</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">split</span><span class="p">()</span></span>
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<pre style="margin: 0;"> <span id="LC43" class="line" lang="python"><span class="k" style="font-weight: 600;">for</span> <span class="n" style="color: #333;">v</span> <span class="ow" style="font-weight: 600;">in</span> <span class="n" style="color: #333;">foo</span><span class="p">:</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -39,7 +45,6 @@ for v in foo:</td>
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<pre style="margin: 0;"> <span id="LC45" class="line" lang="python"> <span class="n" style="color: #333;">additional_libs</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">append</span><span class="p">(</span><span class="n" style="color: #333;">v</span><span class="p">[</span><span class="mi" style="color: #099;">2</span><span class="p">:])</span></span>
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<pre style="margin: 0;"> <span id="LC46" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC47" class="line" lang="python"><span class="n" style="color: #333;">include_dirs</span> <span class="o" style="font-weight: 600;">=</span> <span class="p">[</span><span class="s" style="color: #d14;">'libBigWig'</span><span class="p">,</span> <span class="n" style="color: #333;">sysconfig</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">get_config_var</span><span class="p">(</span><span class="s" style="color: #d14;">"INCLUDEPY"</span><span class="p">)]</span></span>
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<pre style="margin: 0;">-<span id="LC42" class="line" lang="python"><span class="n" style="color: #333;">defines</span> <span class="o" style="font-weight: 600;">=</span> <span class="p">[]</span></span>
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<pre style="margin: 0;"> <span id="LC48" class="line" lang="python"><span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">WITHNUMPY</span> <span class="ow" style="font-weight: 600;">is</span> <span class="bp" style="color: #999;">True</span><span class="p">:</span></span>
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<pre style="margin: 0;"> <span id="LC49" class="line" lang="python"> <span class="n" style="color: #333;">defines</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">extend</span><span class="p">([(</span><span class="s" style="color: #d14;">'WITHNUMPY'</span><span class="p">,</span> <span class="bp" style="color: #999;">None</span><span class="p">),</span> <span class="p">(</span><span class="s" style="color: #d14;">'NPY_NO_DEPRECATED_API'</span><span class="p">,</span> <span class="s" style="color: #d14;">'NPY_1_7_API_VERSION'</span><span class="p">)])</span></span>
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<pre style="margin: 0;"> <span id="LC50" class="line" lang="python"> <span class="n" style="color: #333;">extra_info</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">get_info</span><span class="p">(</span><span class="s" style="color: #d14;">'npymath'</span><span class="p">)</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -56,12 +61,12 @@ module1 = Extension('pyBigWig',</td>
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<pre style="margin: 0;"> <span id="LC61" class="line" lang="python"> <span class="n" style="color: #333;">include_dirs</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">include_dirs</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC62" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC63" class="line" lang="python"><span class="n" style="color: #333;">setup</span><span class="p">(</span><span class="n" style="color: #333;">name</span> <span class="o" style="font-weight: 600;">=</span> <span class="s" style="color: #d14;">'pyBigWig'</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC59" class="line" lang="python"> <span class="n" style="color: #333;">version</span> <span class="o" style="font-weight: 600;">=</span> <span class="s" style="color: #d14;">'0.3.<span class="idiff left right">2</span>'</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC64" class="line" lang="python"> <span class="n" style="color: #333;">version</span> <span class="o" style="font-weight: 600;">=</span> <span class="s" style="color: #d14;">'0.3.<span class="idiff left right">11</span>'</span><span class="p">,</span></span>
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<pre style="margin: 0;"> <span id="LC65" class="line" lang="python"> <span class="n" style="color: #333;">description</span> <span class="o" style="font-weight: 600;">=</span> <span class="s" style="color: #d14;">'A package for accessing bigWig files using libBigWig'</span><span class="p">,</span></span>
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<pre style="margin: 0;"> <span id="LC66" class="line" lang="python"> <span class="n" style="color: #333;">author</span> <span class="o" style="font-weight: 600;">=</span> <span class="s" style="color: #d14;">"Devon P. Ryan"</span><span class="p">,</span></span>
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<pre style="margin: 0;"> <span id="LC67" class="line" lang="python"> <span class="n" style="color: #333;">author_email</span> <span class="o" style="font-weight: 600;">=</span> <span class="s" style="color: #d14;">"ryan@ie-freiburg.mpg.de"</span><span class="p">,</span></span>
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<pre style="margin: 0;"> <span id="LC68" class="line" lang="python"> <span class="n" style="color: #333;">url</span> <span class="o" style="font-weight: 600;">=</span> <span class="s" style="color: #d14;">"https://github.com/dpryan79/pyBigWig"</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC64" class="line" lang="python"> <span class="n" style="color: #333;">download_url</span> <span class="o" style="font-weight: 600;">=</span> <span class="s" style="color: #d14;">"https://github.com/dpryan79/pyBigWig/tarball/0.3.<span class="idiff left right">2</span>"</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC69" class="line" lang="python"> <span class="n" style="color: #333;">download_url</span> <span class="o" style="font-weight: 600;">=</span> <span class="s" style="color: #d14;">"https://github.com/dpryan79/pyBigWig/tarball/0.3.<span class="idiff left right">11</span>"</span><span class="p">,</span></span>
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<pre style="margin: 0;"> <span id="LC70" class="line" lang="python"> <span class="n" style="color: #333;">keywords</span> <span class="o" style="font-weight: 600;">=</span> <span class="p">[</span><span class="s" style="color: #d14;">"bioinformatics"</span><span class="p">,</span> <span class="s" style="color: #d14;">"bigWig"</span><span class="p">,</span> <span class="s" style="color: #d14;">"bigBed"</span><span class="p">],</span></span>
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<pre style="margin: 0;"> <span id="LC71" class="line" lang="python"> <span class="n" style="color: #333;">classifier</span> <span class="o" style="font-weight: 600;">=</span> <span class="p">[</span><span class="s" style="color: #d14;">"Development Status :: 5 - Production/Stable"</span><span class="p">,</span></span>
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<pre style="margin: 0;"> <span id="LC72" class="line" lang="python"> <span class="s" style="color: #d14;">"Intended Audience :: Developers"</span><span class="p">,</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -74,6 +79,7 @@ setup(name = 'pyBigWig',</td>
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<pre style="margin: 0;"> <span id="LC79" class="line" lang="python"> <span class="s" style="color: #d14;">"Programming Language :: Python :: 3.3"</span><span class="p">,</span></span>
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<pre style="margin: 0;"> <span id="LC80" class="line" lang="python"> <span class="s" style="color: #d14;">"Programming Language :: Python :: 3.4"</span><span class="p">,</span></span>
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<pre style="margin: 0;"> <span id="LC81" class="line" lang="python"> <span class="s" style="color: #d14;">"Programming Language :: Python :: 3.5"</span><span class="p">,</span></span>
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<pre style="margin: 0;"> <span id="LC83" class="line" lang="python"> <span class="s" style="color: #d14;">"Programming Language :: Python :: Implementation :: CPython"</span><span class="p">,</span></span>
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<pre style="margin: 0;"> <span id="LC84" class="line" lang="python"> <span class="s" style="color: #d14;">"Operating System :: POSIX"</span><span class="p">,</span></span>
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<td class="diff-line-num old_line" data-linenumber="79" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
79
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<td class="diff-line-num new_line" data-linenumber="85" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
85
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<pre style="margin: 0;"> <span id="LC85" class="line" lang="python"> <span class="s" style="color: #d14;">"Operating System :: Unix"</span><span class="p">,</span></span>
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