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<h3>
Malihe Asemani pushed to branch master
at <a href="https://salsa.debian.org/med-team/fieldbioinformatics">Debian Med / fieldbioinformatics</a>
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<h4>
Commits:
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<strong><a href="https://salsa.debian.org/med-team/fieldbioinformatics/-/commit/d4d4d36076805e97cd8cdee659ab139ac7096d2a">d4d4d360</a></strong>
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<span>by Malihe Asemani</span>
<i>at 2020-07-13T21:46:29+04:30</i>
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<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Add Dependencies
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<strong><a href="https://salsa.debian.org/med-team/fieldbioinformatics/-/commit/82b0e723ab1978fe14b8bf746d853a7787870aa4">82b0e723</a></strong>
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<span>by Malihe Asemani</span>
<i>at 2020-07-13T21:49:56+04:30</i>
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<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">TODO: Resolving deps into several NOT packaged sources
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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/fieldbioinformatics/-/compare/8557ec7acb1c385aa80d1a97aecbf96747d819a0...82b0e723ab1978fe14b8bf746d853a7787870aa4#9c96da0e9f91d7d8937b69b524702c106258f0d1"><strong>debian/changelog</strong></a>
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<pre style="margin: 0;"> <span id="LC1" class="line" lang="plaintext">fieldbioinformatics (1.1.3-1) 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: #963530)</span>
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<pre style="margin: 0;">+<span id="LC4" class="line" lang="plaintext"> * TODO resolve deps into artic-porechop, longshot, and nomkl</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"> -- Malihe Asemani <ml.asemani@gmail.com> Tue, 16 Jun 2020 22:25:27 +0430</span></pre>
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<li id="58ef006ab62b83b4bec5d81fe5b32c3b4c2d1cc2">
<a href="https://salsa.debian.org/med-team/fieldbioinformatics/-/compare/8557ec7acb1c385aa80d1a97aecbf96747d819a0...82b0e723ab1978fe14b8bf746d853a7787870aa4#58ef006ab62b83b4bec5d81fe5b32c3b4c2d1cc2"><strong>debian/control</strong></a>
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<td class="diff-line-num unfold js-unfold new_line" data-linenumber="26" style="width: 35px; color: rgba(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">@@ -26,7 +26,15 @@ Depends: ${python3:Depends},</td>
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<pre style="margin: 0;"> <span id="LC26" class="line" lang="plaintext"> python3-requests,</span>
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<pre style="margin: 0;"> <span id="LC27" class="line" lang="plaintext"> python3-seaborn,</span>
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<pre style="margin: 0;"> <span id="LC28" class="line" lang="plaintext"> python3-tqdm,</span>
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<pre style="margin: 0;">-<span id="LC29" class="line" lang="plaintext"> nanopolish|medaka</span>
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<pre style="margin: 0;">+<span id="LC29" class="line" lang="plaintext"> nanopolish|medaka,</span>
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<pre style="margin: 0;">+<span id="LC30" class="line" lang="plaintext"> bcftools,</span>
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<pre style="margin: 0;">+<span id="LC31" class="line" lang="plaintext"> bwa,</span>
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<pre style="margin: 0;">+<span id="LC32" class="line" lang="plaintext"> minimap2,</span>
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<pre style="margin: 0;">+<span id="LC33" class="line" lang="plaintext"> muscle,</span>
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<pre style="margin: 0;">+<span id="LC34" class="line" lang="plaintext"> python3-pytest,</span>
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<pre style="margin: 0;">+<span id="LC35" class="line" lang="plaintext"> python3-pyvcf,</span>
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<pre style="margin: 0;">+<span id="LC36" class="line" lang="plaintext"> samtools</span>
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<pre style="margin: 0;">+<span id="LC37" class="line" lang="plaintext"></span>
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<pre style="margin: 0;"> <span id="LC38" class="line" lang="plaintext">Description: pipeline with virus identification with Nanopore sequencer</span>
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<pre style="margin: 0;"> <span id="LC39" class="line" lang="plaintext"> This is the ARTIC bioinformatics pipeline for working with virus sequencing</span>
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<pre style="margin: 0;"> <span id="LC40" class="line" lang="plaintext"> data, sequenced with nanopore. It implements a complete bioinformatics</span>
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