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<h3>
Étienne Mollier pushed to branch master
at <a href="https://salsa.debian.org/med-team/python-pauvre">Debian Med / python-pauvre</a>
</h3>
<h4>
Commits:
</h4>
<ul>
<li>
<strong><a href="https://salsa.debian.org/med-team/python-pauvre/-/commit/487352f977a7917d9796f944c906a85203391437">487352f9</a></strong>
<div>
<span>by Etienne Mollier</span>
<i>at 2020-04-26T14:00:47+02:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">enabled synplot testing
duplicating test data into debian/ for the moment, as they are
hosted in another repository.
</pre>
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<h4>9 changed files:</h4>
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<a href="#f6a99a1e522a0f5ca122fd9818a9d8536ea59942">
debian/README.test
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<li class="file-stats">
<a href="#50ac8fb21e258ca396c14c49147bf1c68e552340">
debian/bin/pauvre
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<li class="file-stats">
<a href="#8756c63497c8dc39f7773438edf53b220c773f67">
debian/rules
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<li class="file-stats">
<a href="#281a20a59d583eaefc8565a3baccdcad90ea5279">
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debian/tests/gff_files/Bf201706.gff
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debian/tests/gff_files/JN392469.gff
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debian/tests/gff_files/LN898113.gff
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debian/tests/gff_files/LN898114.gff
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debian/tests/gff_files/LN898115.gff
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debian/tests/gff_files/NC016117.gff
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<h4>Changes:</h4>
<li id="f6a99a1e522a0f5ca122fd9818a9d8536ea59942">
<a href="https://salsa.debian.org/med-team/python-pauvre/-/commit/487352f977a7917d9796f944c906a85203391437#f6a99a1e522a0f5ca122fd9818a9d8536ea59942"><strong>debian/README.test</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">@@ -6,3 +6,15 @@ This package can be tested by running the provided test:</td>
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<pre style="margin: 0;"> <span id="LC6" class="line" lang="php"> <span class="nx">sh</span> <span class="nx">run</span><span class="o" style="font-weight: 600;">-</span><span class="nx">unit</span><span class="o" style="font-weight: 600;">-</span><span class="nx">test</span></span>
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<pre style="margin: 0;"> <span id="LC7" class="line" lang="php"></span>
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<td class="diff-line-num 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">
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<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;">
<pre style="margin: 0;"> <span id="LC8" class="line" lang="php"><span class="nx">in</span> <span class="nx">order</span> <span class="nx">to</span> <span class="nx">confirm</span> <span class="nx">its</span> <span class="nx">integrity</span><span class="o" style="font-weight: 600;">.</span></span>
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9
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<pre style="margin: 0;">+<span id="LC9" class="line" lang="php"></span>
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10
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<pre style="margin: 0;">+<span id="LC10" class="line" lang="php"></span>
</pre>
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<pre style="margin: 0;">+<span id="LC11" class="line" lang="php"><span class="nx">Build</span> <span class="nb" style="color: #0086b3;">time</span> <span class="nx">tests</span></span>
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<pre style="margin: 0;">+<span id="LC12" class="line" lang="php"><span class="err" style="color: #a61717; background-color: #e3d2d2;">────────────────</span></span>
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<pre style="margin: 0;">+<span id="LC13" class="line" lang="php"></span>
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<td class="diff-line-num new new_line" data-linenumber="14" 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="LC14" class="line" lang="php"><span class="nx">Test</span> <span class="nx">data</span> <span class="nx">are</span> <span class="nx">not</span> <span class="nx">readily</span> <span class="nx">available</span> <span class="nx">in</span> <span class="nx">upstream</span> <span class="nx">repository</span><span class="p">,</span> <span class="nx">but</span> <span class="nx">can</span> <span class="nx">be</span></span>
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<pre style="margin: 0;">+<span id="LC15" class="line" lang="php"><span class="nx">retrieved</span> <span class="nx">from</span> <span class="nx">another</span> <span class="nx">repository</span><span class="p">,</span> <span class="nx">from</span> <span class="nx">the</span> <span class="nx">same</span> <span class="nx">author</span><span class="p">,</span> <span class="nx">seemingly</span> <span class="nx">dedicated</span> <span class="nx">to</span></span>
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<td class="diff-line-num new new_line" data-linenumber="16" 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="LC16" class="line" lang="php"><span class="nx">test</span> <span class="nx">data</span><span class="o" style="font-weight: 600;">:</span></span>
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<td class="diff-line-num new new_line" data-linenumber="17" 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="LC17" class="line" lang="php"></span>
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<td class="diff-line-num new new_line" data-linenumber="18" 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="LC18" class="line" lang="php"> <span class="nx">https</span><span class="o" style="font-weight: 600;">://</span><span class="nx">github</span><span class="o" style="font-weight: 600;">.</span><span class="nx">com</span><span class="o" style="font-weight: 600;">/</span><span class="nx">conchoecia</span><span class="o" style="font-weight: 600;">/</span><span class="nx">beroe_forskalii_mitogenome</span><span class="o" style="font-weight: 600;">/</span><span class="nx">tree</span><span class="o" style="font-weight: 600;">/</span><span class="nx">master</span><span class="o" style="font-weight: 600;">/</span><span class="nx">gff_files</span></span>
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<td class="diff-line-num new new_line" data-linenumber="19" 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="LC19" class="line" lang="php"></span>
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<pre style="margin: 0;">+<span id="LC20" class="line" lang="php"><span class="nx">Those</span> <span class="nx">are</span> <span class="nx">made</span> <span class="nx">available</span> <span class="nx">inside</span> <span class="nx">debian</span><span class="o" style="font-weight: 600;">/</span><span class="nx">tests</span><span class="o" style="font-weight: 600;">/</span><span class="nx">gff_files</span><span class="o" style="font-weight: 600;">.</span></span></pre>
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<li id="50ac8fb21e258ca396c14c49147bf1c68e552340">
<a href="https://salsa.debian.org/med-team/python-pauvre/-/commit/487352f977a7917d9796f944c906a85203391437#50ac8fb21e258ca396c14c49147bf1c68e552340"><strong>debian/bin/pauvre</strong></a>
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1
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1
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<pre style="margin: 0;"> <span id="LC1" class="line" lang="shell"><span class="c" style="color: #998; font-style: italic;">#! /bin/bash</span></span>
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2
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<pre style="margin: 0;"> <span id="LC2" class="line" lang="shell"><span class="c" style="color: #998; font-style: italic;"># pauvre reimplementation in shell: the test suite expects its availability in</span></span>
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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">
3
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<pre style="margin: 0;">-<span id="LC3" class="line" lang="shell"><span class="c" style="color: #998; font-style: italic;"># the PATH.<span class="idiff left right"> Appropriate python environment is expected to be set in d/rules.</span></span></span>
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<pre style="margin: 0;">+<span id="LC3" class="line" lang="shell"><span class="c" style="color: #998; font-style: italic;"># the PATH.</span></span>
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4
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<pre style="margin: 0;"> <span id="LC4" class="line" lang="shell"><span class="nb" style="color: #0086b3;">set</span> <span class="nt" style="color: #000080;">-ex</span></span>
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<pre style="margin: 0;">-<span id="LC5" class="line" lang="shell"><span class="nb" style="color: #0086b3;">exec </span>python3 <span class="s2" style="color: #d14;">"</span><span class="nv" style="color: #008080;">$CURDIR</span><span class="s2" style="color: #d14;">/pauvre/pauvre_main.py"</span> <span class="s2" style="color: #d14;">"</span><span class="nv" style="color: #008080;">$@</span><span class="s2" style="color: #d14;">"</span></span></pre>
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<pre style="margin: 0;">+<span id="LC5" class="line" lang="shell"><span class="nb" style="color: #0086b3;">export </span><span class="nv" style="color: #008080;">PYTHONPATH</span><span class="o" style="font-weight: 600;">=</span><span class="s2" style="color: #d14;">"</span><span class="nv" style="color: #008080;">$BUILDDIR</span><span class="s2" style="color: #d14;">"</span></span>
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6
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<pre style="margin: 0;">+<span id="LC6" class="line" lang="shell"><span class="nb" style="color: #0086b3;">exec </span>python3 <span class="s2" style="color: #d14;">"</span><span class="nv" style="color: #008080;">$BUILDDIR</span><span class="s2" style="color: #d14;">/pauvre/pauvre_main.py"</span> <span class="s2" style="color: #d14;">"</span><span class="nv" style="color: #008080;">$@</span><span class="s2" style="color: #d14;">"</span></span></pre>
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<a href="https://salsa.debian.org/med-team/python-pauvre/-/commit/487352f977a7917d9796f944c906a85203391437#8756c63497c8dc39f7773438edf53b220c773f67"><strong>debian/rules</strong></a>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -22,8 +22,11 @@ include /usr/share/dpkg/default.mk</td>
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<pre style="margin: 0;"> <span id="LC22" class="line" lang="plaintext"></span>
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<pre style="margin: 0;"> <span id="LC23" class="line" lang="plaintext">override_dh_auto_test:</span>
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<pre style="margin: 0;"> <span id="LC24" class="line" lang="plaintext">ifeq (,$(filter nocheck,$(DEB_BUILD_OPTIONS)))</span>
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<pre style="margin: 0;">-<span id="LC25" class="line" lang="plaintext"> CURDIR="$(CURDIR)" \</span>
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<pre style="margin: 0;">-<span id="LC26" class="line" lang="plaintext"> PATH="$(CURDIR)/debian/bin:$$PATH" \</span>
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<pre style="margin: 0;">-<span id="LC27" class="line" lang="plaintext"> PYTHONPATH="$(CURDIR)" \</span>
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<pre style="margin: 0;">+<span id="LC25" class="line" lang="plaintext"> PYBUILDDIR="$$(echo "$(CURDIR)"/.pybuild/cpython3_3.*/build)" \</span>
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<pre style="margin: 0;">+<span id="LC26" class="line" lang="plaintext"> && mkdir -p "$${PYBUILDDIR}/pauvre/tests/testdata/alignments" \</span>
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<pre style="margin: 0;">+<span id="LC27" class="line" lang="plaintext"> "$${PYBUILDDIR}/pauvre/tests/testresults" \</span>
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<pre style="margin: 0;">+<span id="LC28" class="line" lang="plaintext"> && cp -r "$(CURDIR)/debian/tests/gff_files" \</span>
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<pre style="margin: 0;">+<span id="LC29" class="line" lang="plaintext"> "$${PYBUILDDIR}/pauvre/tests/testdata" \</span>
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<pre style="margin: 0;">+<span id="LC30" class="line" lang="plaintext"> && BUILDDIR="$${PYBUILDDIR}" PATH="$(CURDIR)/debian/bin:$$PATH" \</span>
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<pre style="margin: 0;"> <span id="LC31" class="line" lang="plaintext"> dh_auto_test</span>
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<pre style="margin: 0;"> <span id="LC32" class="line" lang="plaintext">endif</span></pre>
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<a href="https://salsa.debian.org/med-team/python-pauvre/-/commit/487352f977a7917d9796f944c906a85203391437#281a20a59d583eaefc8565a3baccdcad90ea5279"><strong>debian/tests/gff_files/Bf201706.gff</strong></a>
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1
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="plaintext">##gff-version 3</span>
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2
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<pre style="margin: 0;">+<span id="LC2" class="line" lang="plaintext">##source-version geneious 9.0.2</span>
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3
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<pre style="margin: 0;">+<span id="LC3" class="line" lang="plaintext">Bf201706_circ Geneious region 1 13338 . + 0 Is_circular=true</span>
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4
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<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">
<pre style="margin: 0;">+<span id="LC4" class="line" lang="plaintext">Bf201706_circ Geneious rRNA 2256 3115 . + . Name=16S</span>
</pre>
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<td class="diff-line-num new old_line" data-linenumber="0" 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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5
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<pre style="margin: 0;">+<span id="LC5" class="line" lang="plaintext">Bf201706_circ Geneious rRNA 1880 2255 . + . Name=12S</span>
</pre>
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6
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<pre style="margin: 0;">+<span id="LC6" class="line" lang="plaintext">Bf201706_circ Geneious gene 1 1524 . + . Name=COX1</span>
</pre>
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7
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<pre style="margin: 0;">+<span id="LC7" class="line" lang="plaintext">Bf201706_circ Geneious gene 5981 7459 . + . Name=ND5</span>
</pre>
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<td class="diff-line-num new old_line" data-linenumber="0" 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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8
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<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">
<pre style="margin: 0;">+<span id="LC8" class="line" lang="plaintext">Bf201706_circ Geneious gene 4699 5781 . + . Name=ND4</span>
</pre>
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<td class="diff-line-num new old_line" data-linenumber="0" 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="9" 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">
9
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<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">
<pre style="margin: 0;">+<span id="LC9" class="line" lang="plaintext">Bf201706_circ Geneious gene 7608 8672 . + . Name=URF1</span>
</pre>
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<td class="diff-line-num new old_line" data-linenumber="0" 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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10
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<pre style="margin: 0;">+<span id="LC10" class="line" lang="plaintext">Bf201706_circ Geneious gene 10863 11918 . + . Name=CYTB</span>
</pre>
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</tr>
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<td class="diff-line-num new old_line" data-linenumber="0" 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="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">
11
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<pre style="margin: 0;">+<span id="LC11" class="line" lang="plaintext">Bf201706_circ Geneious gene 11837 12751 . + . Name=ND1</span>
</pre>
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<td class="diff-line-num new old_line" data-linenumber="0" 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="12" 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">
12
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<pre style="margin: 0;">+<span id="LC12" class="line" lang="plaintext">Bf201706_circ Geneious gene 3308 4051 . + . Name=COX3</span>
</pre>
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<td class="diff-line-num new old_line" data-linenumber="0" 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="13" 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">
13
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<pre style="margin: 0;">+<span id="LC13" class="line" lang="plaintext">Bf201706_circ Geneious gene 10016 10744 . + . Name=ND2</span>
</pre>
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<td class="diff-line-num new old_line" data-linenumber="0" 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="14" 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">
14
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<pre style="margin: 0;">+<span id="LC14" class="line" lang="plaintext">Bf201706_circ Geneious gene 9200 9868 . + . Name=URF2</span>
</pre>
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<td class="diff-line-num new old_line" data-linenumber="0" 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="15" 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">
15
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<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">
<pre style="margin: 0;">+<span id="LC15" class="line" lang="plaintext">Bf201706_circ Geneious gene 12757 13320 . + . Name=COX2</span>
</pre>
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<td class="diff-line-num new old_line" data-linenumber="0" 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="16" 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">
16
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<pre style="margin: 0;">+<span id="LC16" class="line" lang="plaintext">Bf201706_circ Geneious gene 4324 4698 . + . Name=ND3</span>
</pre>
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<td class="diff-line-num new old_line" data-linenumber="0" 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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17
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<pre style="margin: 0;">+<span id="LC17" class="line" lang="plaintext">Bf201706_circ Geneious gene 3099 3302 . + . Name=ND6</span>
</pre>
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<td class="diff-line-num new old_line" data-linenumber="0" 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="18" 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">
18
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<pre style="margin: 0;">+<span id="LC18" class="line" lang="plaintext">Bf201706_circ Geneious gene 5781 5969 . + . Name=ND4L</span></pre>
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<li id="3921c91c14c53add337e8ebeddc42705d98f510f">
<a href="https://salsa.debian.org/med-team/python-pauvre/-/commit/487352f977a7917d9796f944c906a85203391437#3921c91c14c53add337e8ebeddc42705d98f510f"><strong>debian/tests/gff_files/JN392469.gff</strong></a>
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1
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="plaintext">##gff-version 3</span>
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2
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<pre style="margin: 0;">+<span id="LC2" class="line" lang="plaintext">##source-version geneious 9.0.2</span>
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3
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<pre style="margin: 0;">+<span id="LC3" class="line" lang="plaintext">JN392469 Geneious region 1 11017 . + 0 Is_circular=true</span>
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4
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<pre style="margin: 0;">+<span id="LC4" class="line" lang="plaintext">JN392469 Geneious source 1 11017 . + . Name=source Pleurobrachia bachei</span>
</pre>
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5
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<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">
<pre style="margin: 0;">+<span id="LC5" class="line" lang="plaintext">JN392469 Geneious gene 1 1539 . + . Name=COX1 gene</span>
</pre>
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<td class="diff-line-num new new_line" data-linenumber="6" 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">
6
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<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">
<pre style="margin: 0;">+<span id="LC6" class="line" lang="plaintext">JN392469 Geneious gene 1660 2241 . + . Name=COX2 gene</span>
</pre>
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7
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<pre style="margin: 0;">+<span id="LC7" class="line" lang="plaintext">JN392469 Geneious rRNA 2518 3460 . + . Name=16S rRNA</span>
</pre>
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<td class="diff-line-num new old_line" data-linenumber="0" 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="8" 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">
8
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<pre style="margin: 0;">+<span id="LC8" class="line" lang="plaintext">JN392469 Geneious rRNA 3491 4053 . + . Name=12S rRNA</span>
</pre>
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9
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<pre style="margin: 0;">+<span id="LC9" class="line" lang="plaintext">JN392469 Geneious gene 4054 4794 . + . Name=COX3 gene</span>
</pre>
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10
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<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">
<pre style="margin: 0;">+<span id="LC10" class="line" lang="plaintext">JN392469 Geneious gene 4802 5470 . + . Name=ND2 gene</span>
</pre>
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<pre style="margin: 0;">+<span id="LC11" class="line" lang="plaintext">JN392469 Geneious gene 5521 5841 . + . Name=ND3 gene</span>
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<pre style="margin: 0;">+<span id="LC12" class="line" lang="plaintext">JN392469 Geneious gene 5842 6912 . + . Name=ND4 gene</span>
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13
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<pre style="margin: 0;">+<span id="LC13" class="line" lang="plaintext">JN392469 Geneious gene 7074 8156 . + . Name=CYTB gene</span>
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14
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<pre style="margin: 0;">+<span id="LC14" class="line" lang="plaintext">JN392469 Geneious gene 8158 9672 . + . Name=ND5 gene</span>
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15
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<pre style="margin: 0;">+<span id="LC15" class="line" lang="plaintext">JN392469 Geneious gene 9672 10511 . + . Name=ND1 gene</span>
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<pre style="margin: 0;">+<span id="LC16" class="line" lang="plaintext">JN392469 Geneious gene 10511 10708 . + . Name=ND6 gene</span>
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<pre style="margin: 0;">+<span id="LC17" class="line" lang="plaintext">JN392469 Geneious gene 10803 11003 . + . Name=ND4L gene</span></pre>
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<a href="https://salsa.debian.org/med-team/python-pauvre/-/commit/487352f977a7917d9796f944c906a85203391437#741a4425c20729d2d384113ac03ec118a2c9aeec"><strong>debian/tests/gff_files/LN898113.gff</strong></a>
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="plaintext">##gff-version 3</span>
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<pre style="margin: 0;">+<span id="LC2" class="line" lang="plaintext">##source-version geneious 9.0.2</span>
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<pre style="margin: 0;">+<span id="LC3" class="line" lang="plaintext">LN898113 Geneious region 1 11574 . + 0 Is_circular=true</span>
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<pre style="margin: 0;">+<span id="LC4" class="line" lang="plaintext">LN898113 Geneious source 1 11574 . + . Name=source Coeloplana loyai</span>
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<pre style="margin: 0;">+<span id="LC5" class="line" lang="plaintext">LN898113 Geneious gene 1 1551 . + . Name=COX1 gene</span>
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<pre style="margin: 0;">+<span id="LC6" class="line" lang="plaintext">LN898113 Geneious gene 1556 2131 . + . Name=COX2 gene</span>
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<pre style="margin: 0;">+<span id="LC7" class="line" lang="plaintext">LN898113 Geneious gene 2136 3242 . + . Name=ND4 gene</span>
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8
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<pre style="margin: 0;">+<span id="LC8" class="line" lang="plaintext">LN898113 Geneious gene 3242 3982 . + . Name=ND2 gene</span>
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9
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<pre style="margin: 0;">+<span id="LC9" class="line" lang="plaintext">LN898113 Geneious rRNA 4707 5549 . + . Name=16S rRNA</span>
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<pre style="margin: 0;">+<span id="LC10" class="line" lang="plaintext">LN898113 Geneious rRNA 5550 5962 . + . Name=12S rRNA</span>
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11
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<pre style="margin: 0;">+<span id="LC11" class="line" lang="plaintext">LN898113 Geneious gene 5963 6190 . + . Name=ND4L gene</span>
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<pre style="margin: 0;">+<span id="LC12" class="line" lang="plaintext">LN898113 Geneious gene 6192 7484 . + . Name=ND1 gene</span>
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<pre style="margin: 0;">+<span id="LC13" class="line" lang="plaintext">LN898113 Geneious gene 7488 8555 . + . Name=CYTB gene</span>
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<pre style="margin: 0;">+<span id="LC14" class="line" lang="plaintext">LN898113 Geneious gene 8556 9314 . + . Name=COX3 gene</span>
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15
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<pre style="margin: 0;">+<span id="LC15" class="line" lang="plaintext">LN898113 Geneious gene 9314 9655 . + . Name=ND3 gene</span>
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<pre style="margin: 0;">+<span id="LC16" class="line" lang="plaintext">LN898113 Geneious gene 9790 11307 . + . Name=ND5 gene</span>
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<pre style="margin: 0;">+<span id="LC17" class="line" lang="plaintext">LN898113 Geneious gene 11309 11515 . + . Name=ND6 gene</span></pre>
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<a href="https://salsa.debian.org/med-team/python-pauvre/-/commit/487352f977a7917d9796f944c906a85203391437#88c449be26e5683d5c48534c80821be74da62d73"><strong>debian/tests/gff_files/LN898114.gff</strong></a>
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1
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="plaintext">##gff-version 3</span>
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2
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<pre style="margin: 0;">+<span id="LC2" class="line" lang="plaintext">##source-version geneious 9.0.2</span>
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3
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<pre style="margin: 0;">+<span id="LC3" class="line" lang="plaintext">LN898114 Geneious region 1 11551 . + 0 Is_circular=true</span>
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4
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<pre style="margin: 0;">+<span id="LC4" class="line" lang="plaintext">LN898114 Geneious source 1 11551 . + . Name=source Coeloplana yulianicorum</span>
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5
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<pre style="margin: 0;">+<span id="LC5" class="line" lang="plaintext">LN898114 Geneious gene 1 1551 . + . Name=COX1 gene</span>
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6
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<pre style="margin: 0;">+<span id="LC6" class="line" lang="plaintext">LN898114 Geneious gene 1561 2136 . + . Name=COX2 gene</span>
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7
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<pre style="margin: 0;">+<span id="LC7" class="line" lang="plaintext">LN898114 Geneious gene 2137 3243 . + . Name=ND4 gene</span>
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8
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<pre style="margin: 0;">+<span id="LC8" class="line" lang="plaintext">LN898114 Geneious gene 3243 3983 . + . Name=ND2 gene</span>
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<td class="diff-line-num new new_line" data-linenumber="9" 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">
9
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<pre style="margin: 0;">+<span id="LC9" class="line" lang="plaintext">LN898114 Geneious rRNA 4694 5540 . + . Name=16S rRNA</span>
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10
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<pre style="margin: 0;">+<span id="LC10" class="line" lang="plaintext">LN898114 Geneious rRNA 5541 5948 . + . Name=12S rRNA</span>
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<td class="diff-line-num new new_line" 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">
11
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<pre style="margin: 0;">+<span id="LC11" class="line" lang="plaintext">LN898114 Geneious gene 5949 6221 . + . Name=ND4L gene</span>
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12
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<pre style="margin: 0;">+<span id="LC12" class="line" lang="plaintext">LN898114 Geneious gene 6235 7482 . + . Name=ND1 gene</span>
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<pre style="margin: 0;">+<span id="LC13" class="line" lang="plaintext">LN898114 Geneious gene 7488 8555 . + . Name=CYTB gene</span>
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<pre style="margin: 0;">+<span id="LC14" class="line" lang="plaintext">LN898114 Geneious gene 8556 9314 . + . Name=COX3 gene</span>
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<td class="diff-line-num new new_line" data-linenumber="15" 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">
15
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<pre style="margin: 0;">+<span id="LC15" class="line" lang="plaintext">LN898114 Geneious gene 9314 9655 . + . Name=ND3 gene</span>
</pre>
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16
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<pre style="margin: 0;">+<span id="LC16" class="line" lang="plaintext">LN898114 Geneious gene 9785 11302 . + . Name=ND5 gene</span>
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<pre style="margin: 0;">+<span id="LC17" class="line" lang="plaintext">LN898114 Geneious gene 11304 11510 . + . Name=ND6 gene</span></pre>
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<a href="https://salsa.debian.org/med-team/python-pauvre/-/commit/487352f977a7917d9796f944c906a85203391437#df6d689539ae6ba000fc99902fe61baa22e7341b"><strong>debian/tests/gff_files/LN898115.gff</strong></a>
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1
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="plaintext">##gff-version 3</span>
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2
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<pre style="margin: 0;">+<span id="LC2" class="line" lang="plaintext">##source-version geneious 9.0.2</span>
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3
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<pre style="margin: 0;">+<span id="LC3" class="line" lang="plaintext">LN898115 Geneious region 1 9961 . + 0 Is_circular=true</span>
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4
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<pre style="margin: 0;">+<span id="LC4" class="line" lang="plaintext">LN898115 Geneious source 1 9961 . + . Name=source Vallicula multiformis</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">LN898115 Geneious gene 1 1533 . + . Name=COX1 gene</span>
</pre>
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6
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<pre style="margin: 0;">+<span id="LC6" class="line" lang="plaintext">LN898115 Geneious gene 1523 2080 . + . Name=COX2 gene</span>
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7
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<pre style="margin: 0;">+<span id="LC7" class="line" lang="plaintext">LN898115 Geneious gene 2074 3126 . + . Name=ND4 gene</span>
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8
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<pre style="margin: 0;">+<span id="LC8" class="line" lang="plaintext">LN898115 Geneious rRNA 3127 3951 . + . Name=16S rRNA</span>
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9
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<pre style="margin: 0;">+<span id="LC9" class="line" lang="plaintext">LN898115 Geneious rRNA 3952 4306 . + . Name=12S rRNA</span>
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10
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<pre style="margin: 0;">+<span id="LC10" class="line" lang="plaintext">LN898115 Geneious gene 4307 5011 . + . Name=ND2 gene</span>
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11
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<pre style="margin: 0;">+<span id="LC11" class="line" lang="plaintext">LN898115 Geneious gene 5011 6048 . + . Name=CYTB gene</span>
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12
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<pre style="margin: 0;">+<span id="LC12" class="line" lang="plaintext">LN898115 Geneious gene 6032 6799 . + . Name=COX3 gene</span>
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13
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<pre style="margin: 0;">+<span id="LC13" class="line" lang="plaintext">LN898115 Geneious gene 6796 7119 . + . Name=ND3 gene</span>
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14
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<pre style="margin: 0;">+<span id="LC14" class="line" lang="plaintext">LN898115 Geneious gene 7124 8569 . + . Name=ND5 gene</span>
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15
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<pre style="margin: 0;">+<span id="LC15" class="line" lang="plaintext">LN898115 Geneious gene 8577 8792 . + . Name=ND4L gene</span>
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16
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<pre style="margin: 0;">+<span id="LC16" class="line" lang="plaintext">LN898115 Geneious gene 8792 9655 . + . Name=ND1 gene</span>
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17
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<pre style="margin: 0;">+<span id="LC17" class="line" lang="plaintext">LN898115 Geneious CDS 9751 9948 . + . Name=ND6 CDS</span></pre>
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<li id="bd245beca5e041b6c3033fa5c1cb4fe4aaa038b0">
<a href="https://salsa.debian.org/med-team/python-pauvre/-/commit/487352f977a7917d9796f944c906a85203391437#bd245beca5e041b6c3033fa5c1cb4fe4aaa038b0"><strong>debian/tests/gff_files/NC016117.gff</strong></a>
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="plaintext">##gff-version 3</span>
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2
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<pre style="margin: 0;">+<span id="LC2" class="line" lang="plaintext">##source-version geneious 9.0.2</span>
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<pre style="margin: 0;">+<span id="LC3" class="line" lang="plaintext">NC_016117 Geneious region 1 10326 . + 0 Is_circular=true</span>
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4
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<pre style="margin: 0;">+<span id="LC4" class="line" lang="plaintext">NC_016117 Geneious source 1 10326 . + . Name=source Mnemiopsis leidyi</span>
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5
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<pre style="margin: 0;">+<span id="LC5" class="line" lang="plaintext">NC_016117 Geneious rRNA 3521 4398 . + . Name=16S rRNA</span>
</pre>
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6
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<pre style="margin: 0;">+<span id="LC6" class="line" lang="plaintext">NC_016117 Geneious rRNA 3153 3520 . + . Name=12S rRNA</span>
</pre>
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7
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<pre style="margin: 0;">+<span id="LC7" class="line" lang="plaintext">NC_016117 Geneious gene 1 1524 . + . Name=COX1 gene</span>
</pre>
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8
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<pre style="margin: 0;">+<span id="LC8" class="line" lang="plaintext">NC_016117 Geneious gene 6527 7933 . + . Name=ND5 gene</span>
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9
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<pre style="margin: 0;">+<span id="LC9" class="line" lang="plaintext">NC_016117 Geneious gene 4399 5493 . + . Name=ND4 gene</span>
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10
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<pre style="margin: 0;">+<span id="LC10" class="line" lang="plaintext">NC_016117 Geneious gene 8775 9860 . + . Name=CYTB gene</span>
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11
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<pre style="margin: 0;">+<span id="LC11" class="line" lang="plaintext">NC_016117 Geneious gene 7933 8802 . + . Name=ND1 gene</span>
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12
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<pre style="margin: 0;">+<span id="LC12" class="line" lang="plaintext">NC_016117 Geneious gene 1525 2250 . + . Name=COX3 gene</span>
</pre>
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13
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<pre style="margin: 0;">+<span id="LC13" class="line" lang="plaintext">NC_016117 Geneious gene 5495 6220 . + . Name=ND2 gene</span>
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14
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<pre style="margin: 0;">+<span id="LC14" class="line" lang="plaintext">NC_016117 Geneious gene 2574 3152 . + . Name=COX2 gene</span>
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<pre style="margin: 0;">+<span id="LC15" class="line" lang="plaintext">NC_016117 Geneious gene 2247 2573 . + . Name=ND3 gene</span>
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<pre style="margin: 0;">+<span id="LC16" class="line" lang="plaintext">NC_016117 Geneious gene 9847 10050 . + . Name=ND6 gene</span>
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<pre style="margin: 0;">+<span id="LC17" class="line" lang="plaintext">NC_016117 Geneious gene 6221 6418 . + . Name=ND4L gene</span></pre>
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