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<h3>
Andreas Tille pushed to branch master
at <a href="https://salsa.debian.org/med-team/parallel-fastq-dump">Debian Med / parallel-fastq-dump</a>
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<h4>
Commits:
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<strong><a href="https://salsa.debian.org/med-team/parallel-fastq-dump/-/commit/678e3f50abb0d3b8eceab59d5eb72182343d3454">678e3f50</a></strong>
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<span>by Andreas Tille</span>
<i>at 2020-05-13T16:13:48+02:00</i>
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<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Provide test example
</pre>
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<h4>4 changed files:</h4>
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<a href="#f6a99a1e522a0f5ca122fd9818a9d8536ea59942">
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debian/README.test
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<a href="#3a5a7cdb36d3ebf45777d0bc382dd46aa7a18f32">
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debian/docs
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debian/patches/better_example_using_free_for_download_data.patch
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debian/patches/series
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<h4>Changes:</h4>
<li id="f6a99a1e522a0f5ca122fd9818a9d8536ea59942">
<a href="https://salsa.debian.org/med-team/parallel-fastq-dump/-/commit/678e3f50abb0d3b8eceab59d5eb72182343d3454#f6a99a1e522a0f5ca122fd9818a9d8536ea59942"><strong>debian/README.test</strong></a>
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="php"><span class="nx">Notes</span> <span class="nx">on</span> <span class="nx">how</span> <span class="nx">this</span> <span class="nx">package</span> <span class="nx">can</span> <span class="nx">be</span> <span class="nx">tested</span><span class="o" style="font-weight: 600;">.</span></span>
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<td class="diff-line-num new new_line" data-linenumber="2" 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="LC2" class="line" lang="php"><span class="err" style="color: #a61717; background-color: #e3d2d2;">────────────────────────────────────────</span></span>
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<td class="diff-line-num new new_line" data-linenumber="3" 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="LC3" class="line" lang="php"></span>
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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">
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<pre style="margin: 0;">+<span id="LC4" class="line" lang="php"><span class="nx">This</span> <span class="nx">package</span> <span class="nx">can</span> <span class="nx">be</span> <span class="nx">tested</span> <span class="nx">by</span> <span class="nx">running</span><span class="o" style="font-weight: 600;">:</span></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">
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<pre style="margin: 0;">+<span id="LC5" class="line" lang="php"></span>
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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">
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<pre style="margin: 0;">+<span id="LC6" class="line" lang="php"> <span class="nx">parallel</span><span class="o" style="font-weight: 600;">-</span><span class="nx">fastq</span><span class="o" style="font-weight: 600;">-</span><span class="nx">dump</span> <span class="o" style="font-weight: 600;">--</span><span class="nx">sra</span><span class="o" style="font-weight: 600;">-</span><span class="nx">id</span> <span class="nx">SRR014849</span> <span class="o" style="font-weight: 600;">--</span><span class="nx">threads</span> <span class="mi" style="color: #099;">4</span> <span class="o" style="font-weight: 600;">--</span><span class="nx">outdir</span> <span class="nx">out</span><span class="o" style="font-weight: 600;">/</span> <span class="o" style="font-weight: 600;">--</span><span class="nb" style="color: #0086b3;">split</span><span class="o" style="font-weight: 600;">-</span><span class="nx">files</span> <span class="o" style="font-weight: 600;">--</span><span class="nx">gzip</span></span>
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<pre style="margin: 0;">+<span id="LC7" class="line" lang="php"></span>
</pre>
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<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></pre>
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<li id="3a5a7cdb36d3ebf45777d0bc382dd46aa7a18f32">
<a href="https://salsa.debian.org/med-team/parallel-fastq-dump/-/commit/678e3f50abb0d3b8eceab59d5eb72182343d3454#3a5a7cdb36d3ebf45777d0bc382dd46aa7a18f32"><strong>debian/docs</strong></a>
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="plaintext">debian/README.test</span></pre>
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<li id="8e18b999ea1d5269e977f5169c9658507cdae342">
<a href="https://salsa.debian.org/med-team/parallel-fastq-dump/-/commit/678e3f50abb0d3b8eceab59d5eb72182343d3454#8e18b999ea1d5269e977f5169c9658507cdae342"><strong>debian/patches/better_example_using_free_for_download_data.patch</strong></a>
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="diff"><span class="p">Author: Andreas Tille <tille@debian.org></span></span>
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<pre style="margin: 0;">+<span id="LC2" class="line" lang="diff"><span class="p">Last-Update: Wed, 13 May 2020 14:43:42 +0200</span></span>
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<pre style="margin: 0;">+<span id="LC3" class="line" lang="diff"><span class="p">Description: Provide an example download that does not require authentification</span></span>
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<pre style="margin: 0;">+<span id="LC4" class="line" lang="diff"> See https://github.com/rvalieris/parallel-fastq-dump/issues/23#issuecomment-522020552</span>
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<pre style="margin: 0;">+<span id="LC5" class="line" lang="diff"></span>
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<pre style="margin: 0;">+<span id="LC6" class="line" lang="diff">--- a/README.rst</span>
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<pre style="margin: 0;">+<span id="LC7" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+++ b/README.rst</span></span>
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<pre style="margin: 0;">+<span id="LC8" class="line" lang="diff"><span class="p">@@ -26,7 +26,7 @@</span> this will get you the sra-tools dependen</span>
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<pre style="margin: 0;">+<span id="LC9" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC10" class="line" lang="diff"> Examples</span>
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<pre style="margin: 0;">+<span id="LC11" class="line" lang="diff"> --------</span>
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<pre style="margin: 0;">+<span id="LC12" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">-``$ parallel-fastq-dump --sra-id SRR1219899 --threads 4 --outdir out/ --split-files --gzip``</span></span>
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<pre style="margin: 0;">+<span id="LC13" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+``$ parallel-fastq-dump --sra-id SRR014849 --threads 4 --outdir out/ --split-files --gzip``</span></span>
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<pre style="margin: 0;">+<span id="LC14" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC15" class="line" lang="diff"> Micro Benchmark</span>
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<pre style="margin: 0;">+<span id="LC16" class="line" lang="diff"> ---------------</span></pre>
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<a href="https://salsa.debian.org/med-team/parallel-fastq-dump/-/commit/678e3f50abb0d3b8eceab59d5eb72182343d3454#bc34014ab4b9a49dd7a27bdd8d352912607c3a96"><strong>debian/patches/series</strong></a>
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="plaintext">better_example_using_free_for_download_data.patch</span></pre>
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