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<h3>
Andreas Tille pushed to branch master
at <a href="https://salsa.debian.org/med-team/libvcflib">Debian Med / libvcflib</a>
</h3>
<h4>
Commits:
</h4>
<ul>
<li>
<strong><a href="https://salsa.debian.org/med-team/libvcflib/-/commit/fb5d426695dcfb1fa350430e78a01e358a12e107">fb5d4266</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2021-10-20T18:33:34+02:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Fix build with gcc-11
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/libvcflib/-/commit/65c3f5e45c4da4edc4c0813507ae30dbb5914242">65c3f5e4</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2021-10-20T18:33:49+02:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">routine-update: Standards-Version: 4.6.0
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/libvcflib/-/commit/438bafc590d203239f59b2d513b333498418dfc5">438bafc5</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2021-10-20T18:37:08+02:00</i>
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<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">routine-update: Ready to upload to unstable
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<h4>4 changed files:</h4>
<ul>
<li class="file-stats">
<a href="#9c96da0e9f91d7d8937b69b524702c106258f0d1">
debian/changelog
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<li class="file-stats">
<a href="#58ef006ab62b83b4bec5d81fe5b32c3b4c2d1cc2">
debian/control
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<li class="file-stats">
<a href="#c380dd360f216fd789904f2794009be1ce992d4b">
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+
debian/patches/gcc-11.patch
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<li class="file-stats">
<a href="#bc34014ab4b9a49dd7a27bdd8d352912607c3a96">
debian/patches/series
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<h4>Changes:</h4>
<li id="9c96da0e9f91d7d8937b69b524702c106258f0d1">
<a href="https://salsa.debian.org/med-team/libvcflib/-/compare/8b9b7e9b4c8d52ac2346d50a6df98670cfff4463...438bafc590d203239f59b2d513b333498418dfc5#9c96da0e9f91d7d8937b69b524702c106258f0d1"><strong>debian/changelog</strong></a>
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="plaintext">libvcflib (1.0.2+dfsg-3) unstable; urgency=medium</span>
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<pre style="margin: 0;">+<span id="LC2" class="line" lang="plaintext"></span>
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<pre style="margin: 0;">+<span id="LC3" class="line" lang="plaintext"> * Fix build with gcc-11</span>
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<pre style="margin: 0;">+<span id="LC4" class="line" lang="plaintext"> Closes: #984139</span>
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<pre style="margin: 0;">+<span id="LC5" class="line" lang="plaintext"> * Standards-Version: 4.6.0 (routine-update)</span>
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<pre style="margin: 0;">+<span id="LC6" class="line" lang="plaintext"></span>
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<pre style="margin: 0;">+<span id="LC7" class="line" lang="plaintext"> -- Andreas Tille <tille@debian.org> Wed, 20 Oct 2021 18:33:54 +0200</span>
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<pre style="margin: 0;">+<span id="LC8" class="line" lang="plaintext"></span>
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<pre style="margin: 0;"> <span id="LC9" class="line" lang="plaintext">libvcflib (1.0.2+dfsg-2) unstable; urgency=medium</span>
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<pre style="margin: 0;"> <span id="LC10" class="line" lang="plaintext"></span>
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<pre style="margin: 0;"> <span id="LC11" class="line" lang="plaintext"> * Team upload.</span>
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<li id="58ef006ab62b83b4bec5d81fe5b32c3b4c2d1cc2">
<a href="https://salsa.debian.org/med-team/libvcflib/-/compare/8b9b7e9b4c8d52ac2346d50a6df98670cfff4463...438bafc590d203239f59b2d513b333498418dfc5#58ef006ab62b83b4bec5d81fe5b32c3b4c2d1cc2"><strong>debian/control</strong></a>
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<td class="diff-line-num unfold js-unfold new_line" data-linenumber="9" style="width: 35px; color: rgba(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">@@ -9,12 +9,12 @@ Build-Depends: debhelper-compat (= 13),</td>
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<pre style="margin: 0;"> <span id="LC9" class="line" lang="plaintext"> libtabixpp-dev,</span>
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<td class="old_line diff-line-num" data-linenumber="10" style="width: 35px; color: rgba(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="LC10" class="line" lang="plaintext"> libbz2-dev,</span>
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<td class="old_line diff-line-num" 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">
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<td class="new_line diff-line-num" 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">
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<pre style="margin: 0;"> <span id="LC11" class="line" lang="plaintext"> libdisorder-dev,</span>
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<td class="old_line diff-line-num old" data-linenumber="12" 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="LC12" class="line" lang="plaintext"> libsmithwaterman-dev<span class="idiff left right"> (>= 0.0+20160702-2)</span>,</span>
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<pre style="margin: 0;">+<span id="LC12" class="line" lang="plaintext"> libsmithwaterman-dev,</span>
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<pre style="margin: 0;"> <span id="LC13" class="line" lang="plaintext"> libssw-dev,</span>
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<pre style="margin: 0;">-<span id="LC14" class="line" lang="plaintext"> libfastahack-dev<span class="idiff left right"> (>= 0.0+git20160702.bbc645f+dfsg-5~)</span>,</span>
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<pre style="margin: 0;">+<span id="LC14" class="line" lang="plaintext"> libfastahack-dev,</span>
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<pre style="margin: 0;"> <span id="LC15" class="line" lang="plaintext"> pkg-config,</span>
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<pre style="margin: 0;"> <span id="LC16" class="line" lang="plaintext"> libgtest-dev <!nocheck></span>
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<pre style="margin: 0;">-<span id="LC17" class="line" lang="plaintext">Standards-Version: 4.<span class="idiff left right">5.1</span></span>
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17
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<pre style="margin: 0;">+<span id="LC17" class="line" lang="plaintext">Standards-Version: 4.<span class="idiff left right">6.0</span></span>
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<pre style="margin: 0;"> <span id="LC18" class="line" lang="plaintext">Vcs-Browser: https://salsa.debian.org/med-team/libvcflib</span>
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<pre style="margin: 0;"> <span id="LC19" class="line" lang="plaintext">Vcs-Git: https://salsa.debian.org/med-team/libvcflib.git</span>
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<pre style="margin: 0;"> <span id="LC20" class="line" lang="plaintext">Homepage: https://github.com/vcflib/vcflib</span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="22" style="width: 35px; color: rgba(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="22" style="width: 35px; color: rgba(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">@@ -22,8 +22,8 @@ Rules-Requires-Root: no</td>
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<pre style="margin: 0;"> <span id="LC22" class="line" lang="plaintext"></span>
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<pre style="margin: 0;"> <span id="LC23" class="line" lang="plaintext">Package: libvcflib1</span>
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<pre style="margin: 0;"> <span id="LC24" class="line" lang="plaintext">Architecture: any</span>
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<pre style="margin: 0;">-<span id="LC25" class="line" lang="plaintext">Section: libs</span>
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<pre style="margin: 0;"> <span id="LC25" class="line" lang="plaintext">Multi-Arch: same</span>
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<pre style="margin: 0;">+<span id="LC26" class="line" lang="plaintext">Section: libs</span>
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<pre style="margin: 0;"> <span id="LC27" class="line" lang="plaintext">Depends: ${shlibs:Depends},</span>
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<pre style="margin: 0;"> <span id="LC28" class="line" lang="plaintext"> ${misc:Depends}</span>
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<pre style="margin: 0;"> <span id="LC29" class="line" lang="plaintext">Description: C++ library for parsing and manipulating VCF files</span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="43" style="width: 35px; color: rgba(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="43" style="width: 35px; color: rgba(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">@@ -43,8 +43,8 @@ Description: C++ library for parsing and manipulating VCF files</td>
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<pre style="margin: 0;"> <span id="LC43" class="line" lang="plaintext"></span>
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<pre style="margin: 0;"> <span id="LC44" class="line" lang="plaintext">Package: libvcflib-dev</span>
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<pre style="margin: 0;"> <span id="LC45" class="line" lang="plaintext">Architecture: any</span>
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<pre style="margin: 0;">-<span id="LC46" class="line" lang="plaintext">Section: libdevel</span>
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<pre style="margin: 0;"> <span id="LC46" class="line" lang="plaintext">Multi-Arch: same</span>
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<pre style="margin: 0;">+<span id="LC47" class="line" lang="plaintext">Section: libdevel</span>
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<pre style="margin: 0;"> <span id="LC48" class="line" lang="plaintext">Depends: ${misc:Depends},</span>
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<pre style="margin: 0;"> <span id="LC49" class="line" lang="plaintext"> libvcflib1 (= ${binary:Version}),</span>
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<pre style="margin: 0;"> <span id="LC50" class="line" lang="plaintext"> libdisorder-dev,</span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="78" style="width: 35px; color: rgba(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="78" style="width: 35px; color: rgba(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">@@ -78,9 +78,9 @@ Depends: ${shlibs:Depends},</td>
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78
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<pre style="margin: 0;"> <span id="LC78" class="line" lang="plaintext"> r-cran-plyr,</span>
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79
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79
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<pre style="margin: 0;"> <span id="LC79" class="line" lang="plaintext"> r-cran-ggplot2,</span>
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80
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80
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<pre style="margin: 0;"> <span id="LC80" class="line" lang="plaintext"> r-cran-gridbase</span>
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81
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<pre style="margin: 0;">+<span id="LC81" class="line" lang="plaintext">Suggests: r-cran-pracma</span>
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81
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82
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<pre style="margin: 0;"> <span id="LC82" class="line" lang="plaintext">Breaks: libvcflib1 (<= 1.0.0~rc2+dfsg-3)</span>
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82
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83
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<pre style="margin: 0;"> <span id="LC83" class="line" lang="plaintext">Replaces: libvcflib1 (<= 1.0.0~rc2+dfsg-3)</span>
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83
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<pre style="margin: 0;">-<span id="LC83" class="line" lang="plaintext">Suggests: r-cran-pracma</span>
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84
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84
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<pre style="margin: 0;"> <span id="LC84" class="line" lang="plaintext">Description: C++ library for parsing and manipulating VCF files (tools)</span>
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85
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85
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<pre style="margin: 0;"> <span id="LC85" class="line" lang="plaintext"> The Variant Call Format (VCF) is a flat-file, tab-delimited textual format</span>
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86
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<pre style="margin: 0;"> <span id="LC86" class="line" lang="plaintext"> intended to concisely describe reference-indexed variations between</span>
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<li id="c380dd360f216fd789904f2794009be1ce992d4b">
<a href="https://salsa.debian.org/med-team/libvcflib/-/compare/8b9b7e9b4c8d52ac2346d50a6df98670cfff4463...438bafc590d203239f59b2d513b333498418dfc5#c380dd360f216fd789904f2794009be1ce992d4b"><strong>debian/patches/gcc-11.patch</strong></a>
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1
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="diff"><span class="p">Description: Fix build with gcc-11</span></span>
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2
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<pre style="margin: 0;">+<span id="LC2" class="line" lang="diff"><span class="p">Bug-Debian: https://bugs.debian.org/984139</span></span>
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3
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<pre style="margin: 0;">+<span id="LC3" class="line" lang="diff"><span class="p">Origin: https://github.com/ekg/intervaltree/pull/32/commits/f0c4046514f41072be20da07b69d8a92220c9294</span></span>
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4
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<pre style="margin: 0;">+<span id="LC4" class="line" lang="diff"><span class="p">Author: Andreas Tille <tille@debian.org></span></span>
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5
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<pre style="margin: 0;">+<span id="LC5" class="line" lang="diff"><span class="p">Last-Update: Wed, 20 Oct 2021 18:30:53 +0200</span></span>
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<pre style="margin: 0;">+<span id="LC6" class="line" lang="diff"></span>
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<pre style="margin: 0;">+<span id="LC7" class="line" lang="diff">--- a/intervaltree/IntervalTree.h</span>
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<pre style="margin: 0;">+<span id="LC8" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+++ b/intervaltree/IntervalTree.h</span></span>
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<pre style="margin: 0;">+<span id="LC9" class="line" lang="diff"><span class="p">@@ -6,6 +6,7 @@</span></span>
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<pre style="margin: 0;">+<span id="LC10" class="line" lang="diff"> #include <iostream></span>
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<pre style="margin: 0;">+<span id="LC11" class="line" lang="diff"> #include <memory></span>
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<pre style="margin: 0;">+<span id="LC12" class="line" lang="diff"> #include <cassert></span>
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<pre style="margin: 0;">+<span id="LC13" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+#include <limits></span></span>
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<pre style="margin: 0;">+<span id="LC14" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC15" class="line" lang="diff"> template <class Scalar, typename Value></span>
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<pre style="margin: 0;">+<span id="LC16" class="line" lang="diff"> class Interval {</span></pre>
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<a href="https://salsa.debian.org/med-team/libvcflib/-/compare/8b9b7e9b4c8d52ac2346d50a6df98670cfff4463...438bafc590d203239f59b2d513b333498418dfc5#bc34014ab4b9a49dd7a27bdd8d352912607c3a96"><strong>debian/patches/series</strong></a>
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<td class="diff-line-num unfold js-unfold 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">...</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">@@ -8,3 +8,4 @@ pkg-config.patch</td>
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8
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<pre style="margin: 0;"> <span id="LC8" class="line" lang="plaintext">hardening-flags</span>
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9
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<pre style="margin: 0;"> <span id="LC9" class="line" lang="plaintext">tabix_linking</span>
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10
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<pre style="margin: 0;"> <span id="LC10" class="line" lang="plaintext">tests</span>
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<td class="new_line diff-line-num new" data-linenumber="11" 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="LC11" class="line" lang="plaintext">gcc-11.patch</span></pre>
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