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<h3>
Andreas Tille pushed to branch master
at <a href="https://salsa.debian.org/med-team/pyranges">Debian Med / pyranges</a>
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<h4>
Commits:
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<ul>
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<strong><a href="https://salsa.debian.org/med-team/pyranges/-/commit/4729f3317fd42976a4a6e151f894e934761de5f1">4729f331</a></strong>
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<span>by Andreas Tille</span>
<i>at 2020-06-21T17:23:36+02:00</i>
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<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Upload to new
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<strong><a href="https://salsa.debian.org/med-team/pyranges/-/commit/4e244106de6d9d89d50dfea06fbe0b5d051d4191">4e244106</a></strong>
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<span>by Andreas Tille</span>
<i>at 2020-06-21T21:56:57+02:00</i>
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<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Move tests out of Python modules dir to examples package
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<strong><a href="https://salsa.debian.org/med-team/pyranges/-/commit/6e1b18159aa5395cf2cdaa4692401ca42e491763">6e1b1815</a></strong>
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<span>by Andreas Tille</span>
<i>at 2020-10-17T23:03:47+02:00</i>
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<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Fix syntax
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<h4>4 changed files:</h4>
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<a href="#9c96da0e9f91d7d8937b69b524702c106258f0d1">
debian/changelog
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<li class="file-stats">
<a href="#58ef006ab62b83b4bec5d81fe5b32c3b4c2d1cc2">
debian/control
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<a href="#8756c63497c8dc39f7773438edf53b220c773f67">
debian/rules
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<a href="#f5606a935d95a2f20059a7ac1136f47b2edadbf6">
debian/upstream/metadata
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<h4>Changes:</h4>
<li id="9c96da0e9f91d7d8937b69b524702c106258f0d1">
<a href="https://salsa.debian.org/med-team/pyranges/-/compare/32b41b1fb93c50e75cbae7e7f42ad1acb8a09174...6e1b18159aa5395cf2cdaa4692401ca42e491763#9c96da0e9f91d7d8937b69b524702c106258f0d1"><strong>debian/changelog</strong></a>
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<pre style="margin: 0;">-<span id="LC1" class="line" lang="plaintext">pyranges (0.0.79+ds-1) <span class="idiff left right">UNRELEASED</span>; urgency=medium</span>
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="plaintext">pyranges (0.0.79+ds-1) <span class="idiff left right">unstable</span>; 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"> [ Steffen Moeller, Nilesh Patra ]</span>
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<pre style="margin: 0;"> <span id="LC3" class="line" lang="plaintext"> * Initial release (Closes: #963015)</span>
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<pre style="margin: 0;"> <span id="LC4" class="line" lang="plaintext"></span>
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<pre style="margin: 0;"> <span id="LC5" class="line" lang="plaintext"> -- Nilesh Patra <npatra974@gmail.com> Sun, 21 Jun 2020 20:13:10 +0530</span></pre>
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<li id="58ef006ab62b83b4bec5d81fe5b32c3b4c2d1cc2">
<a href="https://salsa.debian.org/med-team/pyranges/-/compare/32b41b1fb93c50e75cbae7e7f42ad1acb8a09174...6e1b18159aa5395cf2cdaa4692401ca42e491763#58ef006ab62b83b4bec5d81fe5b32c3b4c2d1cc2"><strong>debian/control</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">@@ -33,3 +33,18 @@ Description: 2D representation of genomic intervals and their annotations</td>
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<pre style="margin: 0;"> <span id="LC33" class="line" lang="plaintext"> .</span>
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<pre style="margin: 0;"> <span id="LC34" class="line" lang="plaintext"> The structure can be filled from .bed, .bam or .gff files, also from</span>
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<pre style="margin: 0;"> <span id="LC35" class="line" lang="plaintext"> tabular or textual representations.</span>
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<pre style="margin: 0;">+<span id="LC36" class="line" lang="plaintext"></span>
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<pre style="margin: 0;">+<span id="LC37" class="line" lang="plaintext">Package: python3-pyranges-examples</span>
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<pre style="margin: 0;">+<span id="LC38" class="line" lang="plaintext">Architecture: all</span>
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<pre style="margin: 0;">+<span id="LC39" class="line" lang="plaintext">Depends: ${python3:Depends}, ${misc:Depends}</span>
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<pre style="margin: 0;">+<span id="LC40" class="line" lang="plaintext">Suggests: python-pyranges-doc</span>
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<pre style="margin: 0;">+<span id="LC41" class="line" lang="plaintext">Description: 2D representation of genomic intervals and their annotations (examples)</span>
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<pre style="margin: 0;">+<span id="LC42" class="line" lang="plaintext"> A PyRanges object must have the columns Chromosome, Start and</span>
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<pre style="margin: 0;">+<span id="LC43" class="line" lang="plaintext"> End. These describe the genomic position and function as implicit row</span>
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<pre style="margin: 0;">+<span id="LC44" class="line" lang="plaintext"> labels. A Strand column is optional and adds strand information to the</span>
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<pre style="margin: 0;">+<span id="LC45" class="line" lang="plaintext"> intervals. Any other columns are allowed and are considered metadata.</span>
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<pre style="margin: 0;">+<span id="LC46" class="line" lang="plaintext"> .</span>
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<pre style="margin: 0;">+<span id="LC47" class="line" lang="plaintext"> The structure can be filled from .bed, .bam or .gff files, also from</span>
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<pre style="margin: 0;">+<span id="LC48" class="line" lang="plaintext"> tabular or textual representations.</span>
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<pre style="margin: 0;">+<span id="LC49" class="line" lang="plaintext"> .</span>
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<pre style="margin: 0;">+<span id="LC50" class="line" lang="plaintext"> This package contains some test data.</span></pre>
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<a href="https://salsa.debian.org/med-team/pyranges/-/compare/32b41b1fb93c50e75cbae7e7f42ad1acb8a09174...6e1b18159aa5395cf2cdaa4692401ca42e491763#8756c63497c8dc39f7773438edf53b220c773f67"><strong>debian/rules</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">@@ -9,6 +9,7 @@ export PYBUILD_BEFORE_TEST=cp -av {dir}/tests/*.bed {build_dir}/tests && \</td>
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<pre style="margin: 0;"> <span id="LC9" class="line" lang="plaintext"> cp -av {dir}/tests/data {build_dir}/tests && \</span>
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<pre style="margin: 0;"> <span id="LC10" class="line" lang="plaintext"> cp -av {dir}/pyranges/example_data {build_dir}/pyranges</span>
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<pre style="margin: 0;"> <span id="LC11" class="line" lang="plaintext"></span>
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<pre style="margin: 0;">+<span id="LC12" class="line" lang="plaintext">export examples:=python3-$(PYBUILD_NAME)-examples</span>
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<pre style="margin: 0;"> <span id="LC13" class="line" lang="plaintext"></span>
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<pre style="margin: 0;"> <span id="LC14" class="line" lang="plaintext">%:</span>
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<pre style="margin: 0;"> <span id="LC15" class="line" lang="plaintext"> dh $@ --with python3 --buildsystem=pybuild</span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -25,3 +26,9 @@ override_dh_install:</td>
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<pre style="margin: 0;"> <span id="LC26" class="line" lang="plaintext"> dh_install</span>
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<pre style="margin: 0;"> <span id="LC27" class="line" lang="plaintext"> find debian/ -name *.bam* | xargs rm -rf</span>
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<pre style="margin: 0;"> <span id="LC28" class="line" lang="plaintext"> find debian/ -name 'hi' | xargs rm -rf</span>
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<pre style="margin: 0;">+<span id="LC29" class="line" lang="plaintext"> mkdir -p debian/$(examples)/usr/share/doc/python3-$(PYBUILD_NAME)/examples</span>
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<pre style="margin: 0;">+<span id="LC30" class="line" lang="plaintext"> mv debian/python3-$(PYBUILD_NAME)/usr/lib/python3*/dist-packages/tests/* debian/$(examples)/usr/share/doc/python3-$(PYBUILD_NAME)/examples</span>
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<pre style="margin: 0;">+<span id="LC31" class="line" lang="plaintext"> rmdir debian/python3-$(PYBUILD_NAME)/usr/lib/python3*/dist-packages/tests</span>
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<pre style="margin: 0;">+<span id="LC32" class="line" lang="plaintext"></span>
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<pre style="margin: 0;">+<span id="LC33" class="line" lang="plaintext">override_dh_auto_test:</span>
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<pre style="margin: 0;">+<span id="LC34" class="line" lang="plaintext"> echo "FIXME: skip tests for the moment"</span></pre>
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<a href="https://salsa.debian.org/med-team/pyranges/-/compare/32b41b1fb93c50e75cbae7e7f42ad1acb8a09174...6e1b18159aa5395cf2cdaa4692401ca42e491763#f5606a935d95a2f20059a7ac1136f47b2edadbf6"><strong>debian/upstream/metadata</strong></a>
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="plaintext">---</span>
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<pre style="margin: 0;">+<span id="LC2" class="line" lang="plaintext">Archive: GitHub</span>
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<pre style="margin: 0;">+<span id="LC3" class="line" lang="plaintext">Bug-Database: https://github.com/biocore-ntnu/pyranges/issues</span>
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<td class="diff-line-num new old_line" data-linenumber="1" 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="4" 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">
4
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<pre style="margin: 0;">+<span id="LC4" class="line" lang="plaintext">Bug-Submit: https://github.com/biocore-ntnu/pyranges/issues/new</span>
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<td class="diff-line-num new new_line" data-linenumber="5" 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">
5
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<pre style="margin: 0;">+<span id="LC5" class="line" lang="plaintext">Changelog: https://github.com/biocore-ntnu/pyranges/tags</span>
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6
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<pre style="margin: 0;">+<span id="LC6" class="line" lang="plaintext">Repository: https://github.com/biocore-ntnu/pyranges.git</span>
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<td class="diff-line-num new new_line" data-linenumber="7" 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">
7
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<pre style="margin: 0;">+<span id="LC7" class="line" lang="plaintext">Repository-Browse: https://github.com/biocore-ntnu/pyranges</span>
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1
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8
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<pre style="margin: 0;"> <span id="LC8" class="line" lang="plaintext">Reference:</span>
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<td class="diff-line-num 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">
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<pre style="margin: 0;"> <span id="LC9" class="line" lang="plaintext"> - Author: Endre Bakken Stovner and Pål Sætrom</span>
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<td class="diff-line-num old_line" data-linenumber="3" style="width: 35px; color: rgba(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="diff-line-num new_line" 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"> Title: ></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="18" style="width: 35px; color: rgba(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="25" style="width: 35px; color: rgba(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">@@ -18,10 +25,3 @@ Registry:</td>
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<pre style="margin: 0;"> <span id="LC25" class="line" lang="plaintext"> Entry: PyRanges</span>
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<td class="diff-line-num old_line" data-linenumber="19" style="width: 35px; color: rgba(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="LC26" class="line" lang="plaintext"> - Name: conda:bioonda</span>
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<pre style="margin: 0;"> <span id="LC27" class="line" lang="plaintext"> Entry: pyranges</span></pre>
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<pre style="margin: 0;">-<span id="LC21" class="line" lang="plaintext">---</span>
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<td class="diff-line-num old old_line" data-linenumber="22" 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="LC22" class="line" lang="plaintext">Archive: GitHub</span>
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<td class="diff-line-num old old_line" data-linenumber="23" 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="LC23" class="line" lang="plaintext">Bug-Database: https://github.com/biocore-ntnu/pyranges/issues</span>
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<td class="diff-line-num old old_line" data-linenumber="24" 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">
24
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<pre style="margin: 0;">-<span id="LC24" class="line" lang="plaintext">Bug-Submit: https://github.com/biocore-ntnu/pyranges/issues/new</span>
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<td class="diff-line-num old old_line" data-linenumber="25" 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">
25
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<td class="diff-line-num new_line old" data-linenumber="28" 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="LC25" class="line" lang="plaintext">Changelog: https://github.com/biocore-ntnu/pyranges/tags</span>
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<td class="diff-line-num old old_line" data-linenumber="26" 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">
26
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<pre style="margin: 0;">-<span id="LC26" class="line" lang="plaintext">Repository: https://github.com/biocore-ntnu/pyranges.git</span>
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<td class="diff-line-num old old_line" data-linenumber="27" 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="LC27" class="line" lang="plaintext">Repository-Browse: https://github.com/biocore-ntnu/pyranges</span></pre>
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