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<h3>
Andreas Tille pushed to branch master
at <a href="https://salsa.debian.org/med-team/pomoxis">Debian Med / pomoxis</a>
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<h4>
Commits:
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<ul>
<li>
<strong><a href="https://salsa.debian.org/med-team/pomoxis/-/commit/c1c9c7c3b63c74938c35da8d2f33d7f303edae0b">c1c9c7c3</a></strong>
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<span>by Andreas Tille</span>
<i>at 2020-06-26T16:44:26+02:00</i>
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<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Update Dependencies, missing: https://github.com/shenwei356/seqkit
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<h4>2 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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<h4>Changes:</h4>
<li id="9c96da0e9f91d7d8937b69b524702c106258f0d1">
<a href="https://salsa.debian.org/med-team/pomoxis/-/commit/c1c9c7c3b63c74938c35da8d2f33d7f303edae0b#9c96da0e9f91d7d8937b69b524702c106258f0d1"><strong>debian/changelog</strong></a>
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<pre style="margin: 0;"> <span id="LC1" class="line" lang="plaintext">pomoxis (0.3.4-1) UNRELEASED; 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"> * Initial release (Closes: #<bug>)</span>
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<pre style="margin: 0;">-<span id="LC4" class="line" lang="plaintext"> TODO: Dependency <span class="idiff left right">python3-mappy build by minimap2</span></span>
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<pre style="margin: 0;">+<span id="LC4" class="line" lang="plaintext"> TODO: Dependency <span class="idiff left right">https://github.com/shenwei356/seqkit</span></span>
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<pre style="margin: 0;"> <span id="LC5" class="line" lang="plaintext"></span>
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<pre style="margin: 0;"> <span id="LC6" class="line" lang="plaintext"> -- Andreas Tille <tille@debian.org> Mon, 22 Jun 2020 22:01:48 +0200</span></pre>
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<a href="https://salsa.debian.org/med-team/pomoxis/-/commit/c1c9c7c3b63c74938c35da8d2f33d7f303edae0b#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">@@ -6,7 +6,16 @@ Priority: optional</td>
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<pre style="margin: 0;"> <span id="LC6" class="line" lang="plaintext">Build-Depends: debhelper-compat (= 13),</span>
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<pre style="margin: 0;"> <span id="LC7" class="line" lang="plaintext"> dh-python,</span>
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<pre style="margin: 0;"> <span id="LC8" class="line" lang="plaintext"> python3,</span>
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<pre style="margin: 0;">-<span id="LC9" class="line" lang="plaintext"> python3-setuptools</span>
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<pre style="margin: 0;">+<span id="LC9" class="line" lang="plaintext"> python3-setuptools,</span>
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<pre style="margin: 0;">+<span id="LC10" class="line" lang="plaintext"> python3-virtualenv,</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">
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<pre style="margin: 0;">+<span id="LC11" class="line" lang="plaintext"> bcftools,</span>
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<pre style="margin: 0;">+<span id="LC12" class="line" lang="plaintext"> bedtools,</span>
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<pre style="margin: 0;">+<span id="LC13" class="line" lang="plaintext"> miniasm,</span>
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<pre style="margin: 0;">+<span id="LC14" class="line" lang="plaintext"> minimap2,</span>
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<pre style="margin: 0;">+<span id="LC15" class="line" lang="plaintext"> racon,</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="plaintext"> samtools,</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="plaintext"># missing seqkit</span>
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<pre style="margin: 0;">+<span id="LC18" class="line" lang="plaintext"> tabix</span>
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<pre style="margin: 0;"> <span id="LC19" class="line" lang="plaintext">Standards-Version: 4.5.0</span>
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<pre style="margin: 0;"> <span id="LC20" class="line" lang="plaintext">Vcs-Browser: https://salsa.debian.org/med-team/pomoxis</span>
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12
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21
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<pre style="margin: 0;"> <span id="LC21" class="line" lang="plaintext">Vcs-Git: https://salsa.debian.org/med-team/pomoxis.git</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">@@ -15,7 +24,22 @@ Homepage: https://github.com/nanoporetech/pomoxis</td>
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15
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<pre style="margin: 0;"> <span id="LC24" class="line" lang="plaintext">Package: pomoxis</span>
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16
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25
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<pre style="margin: 0;"> <span id="LC25" class="line" lang="plaintext">Architecture: all</span>
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17
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26
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<pre style="margin: 0;"> <span id="LC26" class="line" lang="plaintext">Depends: ${python3:Depends},</span>
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18
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<td class="diff-line-num new_line old" 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="LC18" class="line" lang="plaintext"> ${misc:Depends}</span>
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27
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<pre style="margin: 0;">+<span id="LC27" class="line" lang="plaintext"> ${misc:Depends},</span>
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28
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<pre style="margin: 0;">+<span id="LC28" class="line" lang="plaintext"> python3-biopython,</span>
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29
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<pre style="margin: 0;">+<span id="LC29" class="line" lang="plaintext"> python3-intervaltree,</span>
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<td class="diff-line-num new old_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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30
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<pre style="margin: 0;">+<span id="LC30" class="line" lang="plaintext"> python3-matplotlib,</span>
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31
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<pre style="margin: 0;">+<span id="LC31" class="line" lang="plaintext"> python3-mappy,</span>
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32
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<pre style="margin: 0;">+<span id="LC32" class="line" lang="plaintext"> python3-numpy,</span>
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33
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<pre style="margin: 0;">+<span id="LC33" class="line" lang="plaintext"> python3-pandas,</span>
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34
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<pre style="margin: 0;">+<span id="LC34" class="line" lang="plaintext"> python3-pysam,</span>
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35
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<pre style="margin: 0;">+<span id="LC35" class="line" lang="plaintext"> bcftools,</span>
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36
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<pre style="margin: 0;">+<span id="LC36" class="line" lang="plaintext"> bedtools</span>
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37
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<pre style="margin: 0;">+<span id="LC37" class="line" lang="plaintext"> miniasm,</span>
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38
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<pre style="margin: 0;">+<span id="LC38" class="line" lang="plaintext"> minimap2,</span>
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39
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<pre style="margin: 0;">+<span id="LC39" class="line" lang="plaintext"> porechop,</span>
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40
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<pre style="margin: 0;">+<span id="LC40" class="line" lang="plaintext"> racon,</span>
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41
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<pre style="margin: 0;">+<span id="LC41" class="line" lang="plaintext"># missing seqkit</span>
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42
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<pre style="margin: 0;">+<span id="LC42" class="line" lang="plaintext"> tabix</span>
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19
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43
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<pre style="margin: 0;"> <span id="LC43" class="line" lang="plaintext">Description: analysis components from Oxford Nanopore Research</span>
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20
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44
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<pre style="margin: 0;"> <span id="LC44" class="line" lang="plaintext"> Pomoxis comprises a set of basic bioinformatic tools tailored to</span>
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21
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45
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<pre style="margin: 0;"> <span id="LC45" class="line" lang="plaintext"> nanopore sequencing. Notably tools are included for generating and</span>
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