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<h3>
Andreas Tille pushed to branch master
at <a href="https://salsa.debian.org/med-team/unicycler">Debian Med / unicycler</a>
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<h4>
Commits:
</h4>
<ul>
<li>
<strong><a href="https://salsa.debian.org/med-team/unicycler/commit/3dff9c08fb013e67327b92250189434f55d65302">3dff9c08</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2018-05-25T11:24:02+02:00</i>
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<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Add dependencies
</pre>
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<strong><a href="https://salsa.debian.org/med-team/unicycler/commit/c2b0d33f5c4cd4e1ec67c8c04e01fd141e3a4d7b">c2b0d33f</a></strong>
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<span>by Andreas Tille</span>
<i>at 2018-05-25T11:31:00+02:00</i>
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<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Add references
</pre>
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<h4>3 changed files:</h4>
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<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="#f5606a935d95a2f20059a7ac1136f47b2edadbf6">
debian/upstream/metadata
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<h4>Changes:</h4>
<li id="9c96da0e9f91d7d8937b69b524702c106258f0d1">
<a href="https://salsa.debian.org/med-team/unicycler/compare/6e079308034ea93aa296ec810f5e305b28608712...c2b0d33f5c4cd4e1ec67c8c04e01fd141e3a4d7b#9c96da0e9f91d7d8937b69b524702c106258f0d1"><strong>debian/changelog</strong></a>
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<pre style="margin: 0;"> <span id="LC1" class="line" lang="plaintext">unicycler (0.4.5-1) 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"> * Initial release (Closes: #<bug>)</span>
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<pre style="margin: 0;">+<span id="LC4" class="line" lang="plaintext"> Needs:</span>
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<td class="line_content new noteable_line" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">
<pre style="margin: 0;">+<span id="LC5" class="line" lang="plaintext"> https://github.com/isovic/racon</span>
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<pre style="margin: 0;">+<span id="LC6" class="line" lang="plaintext"> https://github.com/broadinstitute/pilon/wiki</span>
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<pre style="margin: 0;"> <span id="LC7" class="line" lang="plaintext"></span>
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<td class="line_content noteable_line" style="padding-left: 0.5em; padding-right: 0.5em;">
<pre style="margin: 0;"> <span id="LC8" class="line" lang="plaintext"> -- Andreas Tille <tille@debian.org> Fri, 25 May 2018 10:59:36 +0200</span></pre>
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<li id="58ef006ab62b83b4bec5d81fe5b32c3b4c2d1cc2">
<a href="https://salsa.debian.org/med-team/unicycler/compare/6e079308034ea93aa296ec810f5e305b28608712...c2b0d33f5c4cd4e1ec67c8c04e01fd141e3a4d7b#58ef006ab62b83b4bec5d81fe5b32c3b4c2d1cc2"><strong>debian/control</strong></a>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="6" 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="6" 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">@@ -6,7 +6,8 @@ Priority: optional</td>
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<pre style="margin: 0;"> <span id="LC6" class="line" lang="plaintext">Build-Depends: debhelper (>= 11~),</span>
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<pre style="margin: 0;"> <span id="LC7" class="line" lang="plaintext"> dh-python,</span>
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<td class="line_content noteable_line" style="padding-left: 0.5em; padding-right: 0.5em;">
<pre style="margin: 0;"> <span id="LC8" class="line" lang="plaintext"> python3-all,</span>
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<td class="diff-line-num old old_line" data-linenumber="9" 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="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"> spades</span>
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<td class="diff-line-num new_line" 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">Standards-Version: 4.1.4</span>
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<pre style="margin: 0;"> <span id="LC12" class="line" lang="plaintext">Vcs-Browser: https://salsa.debian.org/med-team/unicycler</span>
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<pre style="margin: 0;"> <span id="LC13" class="line" lang="plaintext">Vcs-Git: https://salsa.debian.org/med-team/unicycler.git</span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="14" 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="15" 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">@@ -14,8 +15,12 @@ Homepage: https://github.com/rrwick/Unicycler</td>
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<pre style="margin: 0;"> <span id="LC15" class="line" lang="plaintext"></span>
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<pre style="margin: 0;"> <span id="LC16" class="line" lang="plaintext">Package: unicycler</span>
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<pre style="margin: 0;"> <span id="LC17" class="line" lang="plaintext">Architecture: any</span>
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<pre style="margin: 0;">-<span id="LC17" class="line" lang="plaintext">Depends: ${shlibs:Depends},</span>
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<pre style="margin: 0;">-<span id="LC18" class="line" lang="plaintext"> ${misc:Depends}</span>
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<pre style="margin: 0;">+<span id="LC18" class="line" lang="plaintext">Depends: ${python3:Depends},</span>
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19
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<pre style="margin: 0;">+<span id="LC19" class="line" lang="plaintext"> ${misc:Depends},</span>
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20
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<pre style="margin: 0;">+<span id="LC20" class="line" lang="plaintext"> spades,</span>
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21
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<pre style="margin: 0;">+<span id="LC21" class="line" lang="plaintext"> ncbi-blast+,</span>
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22
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<pre style="margin: 0;">+<span id="LC22" class="line" lang="plaintext"> bowtie2,</span>
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23
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<pre style="margin: 0;">+<span id="LC23" class="line" lang="plaintext"> samtools</span>
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19
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24
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<pre style="margin: 0;"> <span id="LC24" class="line" lang="plaintext">Description: hybrid assembly pipeline for bacterial genomes</span>
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20
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<pre style="margin: 0;"> <span id="LC25" class="line" lang="plaintext"> Unicycler is an assembly pipeline for bacterial genomes. It can assemble</span>
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<pre style="margin: 0;"> <span id="LC26" class="line" lang="plaintext"> Illumina-only read sets where it functions as a SPAdes-optimiser. It can</span>
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<li id="f5606a935d95a2f20059a7ac1136f47b2edadbf6">
<a href="https://salsa.debian.org/med-team/unicycler/compare/6e079308034ea93aa296ec810f5e305b28608712...c2b0d33f5c4cd4e1ec67c8c04e01fd141e3a4d7b#f5606a935d95a2f20059a7ac1136f47b2edadbf6"><strong>debian/upstream/metadata</strong></a>
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<pre style="margin: 0;"> <span id="LC1" class="line" lang="plaintext">Reference:</span>
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2
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<pre style="margin: 0;">-<span id="LC2" class="line" lang="plaintext"> Author: </span>
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3
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<pre style="margin: 0;">-<span id="LC3" class="line" lang="plaintext"> Title: </span>
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4
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<pre style="margin: 0;">-<span id="LC4" class="line" lang="plaintext"> Journal: </span>
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5
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<pre style="margin: 0;">-<span id="LC5" class="line" lang="plaintext"> Year: </span>
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6
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<pre style="margin: 0;">-<span id="LC6" class="line" lang="plaintext"> Volume: </span>
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7
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<pre style="margin: 0;">-<span id="LC7" class="line" lang="plaintext"> Number: </span>
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8
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<pre style="margin: 0;">-<span id="LC8" class="line" lang="plaintext"> Pages: </span>
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9
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<pre style="margin: 0;">-<span id="LC9" class="line" lang="plaintext"> DOI: </span>
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10
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<pre style="margin: 0;">-<span id="LC10" class="line" lang="plaintext"> PMID:</span>
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11
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<pre style="margin: 0;">-<span id="LC11" class="line" lang="plaintext"> URL: </span>
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<pre style="margin: 0;">-<span id="LC12" class="line" lang="plaintext"> eprint: </span></pre>
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2
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<pre style="margin: 0;">+<span id="LC2" class="line" lang="plaintext"> - Author: Ryan R. Wick and Louise M. Judd and Claire L. Gorrie and Kathryn E. Holt</span>
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3
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<pre style="margin: 0;">+<span id="LC3" class="line" lang="plaintext"> Title: "Unicycler: Resolving bacterial genome assemblies from short and long sequencing reads"</span>
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4
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<pre style="margin: 0;">+<span id="LC4" class="line" lang="plaintext"> Journal: PLOS Computational Biology</span>
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5
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<pre style="margin: 0;">+<span id="LC5" class="line" lang="plaintext"> Year: 2017</span>
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6
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<pre style="margin: 0;">+<span id="LC6" class="line" lang="plaintext"> Volume: 13</span>
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7
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<pre style="margin: 0;">+<span id="LC7" class="line" lang="plaintext"> Number: 6</span>
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8
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<pre style="margin: 0;">+<span id="LC8" class="line" lang="plaintext"> Pages: e1005595</span>
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9
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<pre style="margin: 0;">+<span id="LC9" class="line" lang="plaintext"> DOI: 10.1371/journal.pcbi.1005595</span>
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10
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<pre style="margin: 0;">+<span id="LC10" class="line" lang="plaintext"> PMID: 28594827</span>
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11
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<pre style="margin: 0;">+<span id="LC11" class="line" lang="plaintext"> URL: http://journals.plos.org/ploscompbiol/article?id=10.1371/journal.pcbi.1005595</span>
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12
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<pre style="margin: 0;">+<span id="LC12" class="line" lang="plaintext"> eprint: http://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1005595&type=printable</span>
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13
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<pre style="margin: 0;">+<span id="LC13" class="line" lang="plaintext"> - Author: Ryan R. Wick and Louise M. Judd and Claire L. Gorrie and Kathryn E. Holt</span>
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14
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<pre style="margin: 0;">+<span id="LC14" class="line" lang="plaintext"> Title: Completing bacterial genome assemblies with multiplex MinION sequencing</span>
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<pre style="margin: 0;">+<span id="LC15" class="line" lang="plaintext"> Journal: Microbial Genomics</span>
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<pre style="margin: 0;">+<span id="LC16" class="line" lang="plaintext"> Year: 2017</span>
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<pre style="margin: 0;">+<span id="LC17" class="line" lang="plaintext"> Volume: 3</span>
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18
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<pre style="margin: 0;">+<span id="LC18" class="line" lang="plaintext"> Number: 10</span>
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<pre style="margin: 0;">+<span id="LC19" class="line" lang="plaintext"> Pages: e000132</span>
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<pre style="margin: 0;">+<span id="LC20" class="line" lang="plaintext"> DOI: 10.1099/mgen.0.000132</span>
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<pre style="margin: 0;">+<span id="LC21" class="line" lang="plaintext"> PMID: 29177090</span>
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<pre style="margin: 0;">+<span id="LC22" class="line" lang="plaintext"> URL: http://mgen.microbiologyresearch.org/content/journal/mgen/10.1099/mgen.0.000132</span>
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<pre style="margin: 0;">+<span id="LC23" class="line" lang="plaintext"> eprint: http://mgen.microbiologyresearch.org/deliver/fulltext/mgen/3/10/mgen000132.pdf?itemId=/content/journal/mgen/10.1099/mgen.0.000132&mimeType=pdf&isFastTrackArticle=</span></pre>
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