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<h3>
Michael R. Crusoe pushed to branch master
at <a href="https://salsa.debian.org/med-team/diamond-aligner">Debian Med / diamond-aligner</a>
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<h4>
Commits:
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<ul>
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<strong><a href="https://salsa.debian.org/med-team/diamond-aligner/-/commit/11111f9b77107dd4c14579bb7238c433b2c285b6">11111f9b</a></strong>
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<span>by Michael R. Crusoe</span>
<i>at 2021-09-14T12:19:35+02:00</i>
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<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Autopkgtest: ignore warnings about the C2 sequences looking like DNA
</pre>
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<strong><a href="https://salsa.debian.org/med-team/diamond-aligner/-/commit/2191758da105d2093f10337b9db2b1fb0ea9c57c">2191758d</a></strong>
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<span>by Michael R. Crusoe</span>
<i>at 2021-09-14T12:20:33+02:00</i>
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<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">routine-update: Ready to upload to unstable
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<h4>2 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="#14fc952ed8399b8e1644b6ad1b48dc722c37fdb3">
debian/tests/diamond-calls
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<h4>Changes:</h4>
<li id="9c96da0e9f91d7d8937b69b524702c106258f0d1">
<a href="https://salsa.debian.org/med-team/diamond-aligner/-/compare/97ab99e8662381954b090b8eba75410b629f9392...2191758da105d2093f10337b9db2b1fb0ea9c57c#9c96da0e9f91d7d8937b69b524702c106258f0d1"><strong>debian/changelog</strong></a>
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<pre style="margin: 0;">-<span id="LC1" class="line" lang="plaintext">diamond-aligner (2.0.11-1) <span class="idiff left right">UNRELEASED</span>; urgency=medium</span>
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="plaintext">diamond-aligner (2.0.11-1) <span class="idiff left right">unstable</span>; 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"> * Team upload.</span>
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<pre style="margin: 0;">+<span id="LC4" class="line" lang="plaintext"></span>
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<pre style="margin: 0;">+<span id="LC5" class="line" lang="plaintext"> [ Andreas Tille ]</span>
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<pre style="margin: 0;"> <span id="LC6" class="line" lang="plaintext"> * Fix watchfile to detect new versions on github (routine-update)</span>
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<pre style="margin: 0;"> <span id="LC7" class="line" lang="plaintext"> * New upstream version</span>
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<pre style="margin: 0;"> <span id="LC8" class="line" lang="plaintext"> * Standards-Version: 4.6.0 (routine-update)</span>
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<pre style="margin: 0;"> <span id="LC9" class="line" lang="plaintext"></span>
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<pre style="margin: 0;">-<span id="LC7" class="line" lang="plaintext"> -- Andreas Tille <tille@debian.org> Wed, 01 Sep 2021 06:46:50 +0200</span>
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<pre style="margin: 0;">+<span id="LC10" class="line" lang="plaintext"> [ Michael R. Crusoe ]</span>
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<pre style="margin: 0;">+<span id="LC11" class="line" lang="plaintext"> * Autopkgtest: pass "--ignore-warnings" when needed due to a protein sequence</span>
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<pre style="margin: 0;">+<span id="LC12" class="line" lang="plaintext"> that looks like a DNA sequence</span>
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<pre style="margin: 0;">+<span id="LC13" class="line" lang="plaintext"></span>
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<pre style="margin: 0;">+<span id="LC14" class="line" lang="plaintext"> -- Michael R. Crusoe <crusoe@debian.org> Tue, 14 Sep 2021 12:20:33 +0200</span>
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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">diamond-aligner (2.0.7-1) unstable; urgency=medium</span>
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<pre style="margin: 0;"> <span id="LC17" class="line" lang="plaintext"></span>
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<li id="14fc952ed8399b8e1644b6ad1b48dc722c37fdb3">
<a href="https://salsa.debian.org/med-team/diamond-aligner/-/compare/97ab99e8662381954b090b8eba75410b629f9392...2191758da105d2093f10337b9db2b1fb0ea9c57c#14fc952ed8399b8e1644b6ad1b48dc722c37fdb3"><strong>debian/tests/diamond-calls</strong></a>
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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/sh</span></span>
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<pre style="margin: 0;"> <span id="LC2" class="line" lang="shell"><span class="nb" style="color: #0086b3;">set</span> <span class="nt" style="color: #000080;">-e</span></span>
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<pre style="margin: 0;"> <span id="LC3" class="line" lang="shell"><span class="nb" style="color: #0086b3;">set</span> <span class="nt" style="color: #000080;">-x</span></span>
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<pre style="margin: 0;">-<span id="LC4" class="line" lang="shell"><span class="c" style="color: #998; font-style: italic;"># Test sxcript obtained from proteinortho (see bug #958090<span class="idiff left right">9</span></span></span>
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<pre style="margin: 0;">+<span id="LC4" class="line" lang="shell"><span class="c" style="color: #998; font-style: italic;"># Test sxcript obtained from proteinortho (see bug #958090</span></span>
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5
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<pre style="margin: 0;"> <span id="LC5" class="line" lang="shell"></span>
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<pre style="margin: 0;"> <span id="LC6" class="line" lang="shell"><span class="nv" style="color: #008080;">TESTDIR</span><span class="o" style="font-weight: 600;">=</span><span class="sb" style="color: #d14;">`</span><span class="nb" style="color: #0086b3;">mktemp</span> <span class="nt" style="color: #000080;">-d</span><span class="sb" style="color: #d14;">`</span></span>
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7
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7
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<pre style="margin: 0;"> <span id="LC7" class="line" lang="shell"></span>
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<pre style="margin: 0;">-<span id="LC8" class="line" lang="shell"><span class="c" style="color: #998; font-style: italic;">#TODO: 10 DONE: 0 Running: 4 -> 14</span></span>
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9
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<pre style="margin: 0;">-<span id="LC9" class="line" lang="shell">diamond blastp <span class="nt" style="color: #000080;">--threads</span> 1 <span class="nt" style="color: #000080;">--db</span> <span class="s1" style="color: #d14;">'test/C.faa.diamond'</span> <span class="nt" style="color: #000080;">--query</span> <span class="s1" style="color: #d14;">'test/E.faa'</span> <span class="nt" style="color: #000080;">--out</span> <span class="nv" style="color: #008080;">$TESTDIR</span>/E.faa.vs.C.faa.diamond <span class="nt" style="color: #000080;">-e</span> 1e-05 <span class="nt" style="color: #000080;">--outfmt</span> 6 <span class="nt" style="color: #000080;">--sensitive</span> 2>/dev/null</span>
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10
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<pre style="margin: 0;">-<span id="LC10" class="line" lang="shell">diamond blastp <span class="nt" style="color: #000080;">--threads</span> 1 <span class="nt" style="color: #000080;">--db</span> <span class="s1" style="color: #d14;">'test/E.faa.diamond'</span> <span class="nt" style="color: #000080;">--query</span> <span class="s1" style="color: #d14;">'test/C.faa'</span> <span class="nt" style="color: #000080;">--out</span> <span class="nv" style="color: #008080;">$TESTDIR</span>/C.faa.vs.E.faa.diamond <span class="nt" style="color: #000080;">-e</span> 1e-05 <span class="nt" style="color: #000080;">--outfmt</span> 6 <span class="nt" style="color: #000080;">--sensitive</span> 2>/dev/null</span>
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<pre style="margin: 0;">+<span id="LC8" class="line" lang="shell"><span class="c" style="color: #998; font-style: italic;"># ./proteinortho6.pl -debug -force -project=test_diamond -p=diamond test/*.faa -cpus=1 -verbose=2</span></span>
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11
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9
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<pre style="margin: 0;"> <span id="LC9" class="line" lang="shell"></span>
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12
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<pre style="margin: 0;">-<span id="LC12" class="line" lang="shell"><span class="c" style="color: #998; font-style: italic;">#<span class="idiff left">TODO: 10</span> DONE: <span class="idiff">1</span> Running: <span class="idiff">3</span> -> 1<span class="idiff right">2</span></span></span>
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13
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<pre style="margin: 0;">-<span id="LC13" class="line" lang="shell">diamond blastp <span class="nt" style="color: #000080;">--threads</span> 1 <span class="nt" style="color: #000080;">--db</span> <span class="s1" style="color: #d14;">'test/C.faa.diamond'</span> <span class="nt" style="color: #000080;">--query</span> <span class="s1" style="color: #d14;">'test/<span class="idiff left">L</span>.faa'</span> <span class="nt" style="color: #000080;">--out</span> <span class="nv" style="color: #008080;">$TESTDIR</span>/<span class="idiff">L</span>.faa.vs.C.faa.diamond <span class="nt" style="color: #000080;">-e</span> 1e-05 <span class="nt" style="color: #000080;">--outfmt</span> 6 <span class="nt" style="color: #000080;">--sensitive</span><span class="idiff right"> 2>/dev/null</span></span>
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14
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<pre style="margin: 0;">-<span id="LC14" class="line" lang="shell">diamond blastp <span class="nt" style="color: #000080;">--threads</span> 1 <span class="nt" style="color: #000080;">--db</span> <span class="s1" style="color: #d14;">'test/<span class="idiff left">L</span>.faa.diamond'</span> <span class="nt" style="color: #000080;">--query</span> <span class="s1" style="color: #d14;">'test/C.faa'</span> <span class="nt" style="color: #000080;">--out</span> <span class="nv" style="color: #008080;">$TESTDIR</span>/C.faa.vs.<span class="idiff">L</span>.faa.diamond <span class="nt" style="color: #000080;">-e</span> 1e-05 <span class="nt" style="color: #000080;">--outfmt</span> 6 <span class="nt" style="color: #000080;">--sensitive</span><span class="idiff right"> 2>/dev/null</span></span>
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<pre style="margin: 0;">+<span id="LC10" class="line" lang="shell"><span class="c" style="color: #998; font-style: italic;"># DONE: <span class="idiff left">0</span> Running: <span class="idiff">1</span> -> 1<span class="idiff right">1</span></span></span>
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11
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<pre style="margin: 0;">+<span id="LC11" class="line" lang="shell">diamond blastp <span class="nt" style="color: #000080;">--threads</span> 1 <span class="nt" style="color: #000080;">--db</span> <span class="s1" style="color: #d14;">'test/C.faa.diamond'</span> <span class="nt" style="color: #000080;">--query</span> <span class="s1" style="color: #d14;">'test/<span class="idiff left">E</span>.faa'</span> <span class="nt" style="color: #000080;">--out</span> <span class="nv" style="color: #008080;">$TESTDIR</span>/<span class="idiff right">E</span>.faa.vs.C.faa.diamond <span class="nt" style="color: #000080;">-e</span> 1e-05 <span class="nt" style="color: #000080;">--outfmt</span> 6 <span class="nt" style="color: #000080;">--sensitive</span></span>
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<pre style="margin: 0;">+<span id="LC12" class="line" lang="shell">diamond blastp <span class="nt" style="color: #000080;">--threads</span> 1 <span class="nt" style="color: #000080;">--db</span> <span class="s1" style="color: #d14;">'test/<span class="idiff left">E</span>.faa.diamond'</span> <span class="nt" style="color: #000080;">--query</span> <span class="s1" style="color: #d14;">'test/C.faa'</span> <span class="nt" style="color: #000080;">--out</span> <span class="nv" style="color: #008080;">$TESTDIR</span>/C.faa.vs.<span class="idiff right">E</span>.faa.diamond <span class="nt" style="color: #000080;">-e</span> 1e-05 <span class="nt" style="color: #000080;">--outfmt</span> 6 <span class="nt" style="color: #000080;">--sensitive</span></span>
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13
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<pre style="margin: 0;"> <span id="LC13" class="line" lang="shell"></span>
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<pre style="margin: 0;">-<span id="LC16" class="line" lang="shell"><span class="c" style="color: #998; font-style: italic;">#TODO: 10 DONE: 1 Running: 3 -> 12</span></span>
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17
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<pre style="margin: 0;">-<span id="LC17" class="line" lang="shell">diamond blastp <span class="nt" style="color: #000080;">--threads</span> 1 <span class="nt" style="color: #000080;">--db</span> <span class="s1" style="color: #d14;">'test/C.faa.diamond'</span> <span class="nt" style="color: #000080;">--query</span> <span class="s1" style="color: #d14;">'test/M.faa'</span> <span class="nt" style="color: #000080;">--out</span> <span class="nv" style="color: #008080;">$TESTDIR</span>/M.faa.vs.C.faa.diamond <span class="nt" style="color: #000080;">-e</span> 1e-05 <span class="nt" style="color: #000080;">--outfmt</span> 6 <span class="nt" style="color: #000080;">--sensitive</span> 2>/dev/null</span>
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14
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<pre style="margin: 0;">+<span id="LC14" class="line" lang="shell"><span class="c" style="color: #998; font-style: italic;"># DONE: 1 Running: 0 -> 9</span></span>
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15
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<pre style="margin: 0;">+<span id="LC15" class="line" lang="shell">diamond blastp <span class="nt" style="color: #000080;">--threads</span> 1 <span class="nt" style="color: #000080;">--db</span> <span class="s1" style="color: #d14;">'test/C.faa.diamond'</span> <span class="nt" style="color: #000080;">--query</span> <span class="s1" style="color: #d14;">'test/L.faa'</span> <span class="nt" style="color: #000080;">--out</span> <span class="nv" style="color: #008080;">$TESTDIR</span>/L.faa.vs.C.faa.diamond <span class="nt" style="color: #000080;">-e</span> 1e-05 <span class="nt" style="color: #000080;">--outfmt</span> 6 <span class="nt" style="color: #000080;">--sensitive</span></span>
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<td class="new_line diff-line-num new" 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="shell">diamond blastp <span class="nt" style="color: #000080;">--threads</span> 1 <span class="nt" style="color: #000080;">--db</span> <span class="s1" style="color: #d14;">'test/L.faa.diamond'</span> <span class="nt" style="color: #000080;">--query</span> <span class="s1" style="color: #d14;">'test/C.faa'</span> <span class="nt" style="color: #000080;">--out</span> <span class="nv" style="color: #008080;">$TESTDIR</span>/C.faa.vs.L.faa.diamond <span class="nt" style="color: #000080;">-e</span> 1e-05 <span class="nt" style="color: #000080;">--outfmt</span> 6 <span class="nt" style="color: #000080;">--sensitive</span></span>
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18
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17
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<pre style="margin: 0;"> <span id="LC17" class="line" lang="shell"></span>
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19
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<td class="new_line diff-line-num old" data-linenumber="18" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC19" class="line" lang="shell"><span class="c" style="color: #998; font-style: italic;"># TODO: 10 DONE: 1 Running: 3 -> 12</span></span>
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20
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<pre style="margin: 0;">-<span id="LC20" class="line" lang="shell">diamond blastp <span class="nt" style="color: #000080;">--threads</span> 1 <span class="nt" style="color: #000080;">--db</span> <span class="s1" style="color: #d14;">'test/C.faa.diamond'</span> <span class="nt" style="color: #000080;">--query</span> <span class="s1" style="color: #d14;">'test/C2.faa'</span> <span class="nt" style="color: #000080;">--out</span> <span class="nv" style="color: #008080;">$TESTDIR</span>/C2.faa.vs.C.faa.diamond <span class="nt" style="color: #000080;">-e</span> 1e-05 <span class="nt" style="color: #000080;">--outfmt</span> 6 <span class="nt" style="color: #000080;">--sensitive</span> 2>/dev/null</span>
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18
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<pre style="margin: 0;">+<span id="LC18" class="line" lang="shell"><span class="c" style="color: #998; font-style: italic;"># DONE: 2 Running: 0 -> 8</span></span>
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19
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<pre style="margin: 0;">+<span id="LC19" class="line" lang="shell">diamond blastp <span class="nt" style="color: #000080;">--threads</span> 1 <span class="nt" style="color: #000080;">--db</span> <span class="s1" style="color: #d14;">'test/C.faa.diamond'</span> <span class="nt" style="color: #000080;">--query</span> <span class="s1" style="color: #d14;">'test/M.faa'</span> <span class="nt" style="color: #000080;">--out</span> <span class="nv" style="color: #008080;">$TESTDIR</span>/M.faa.vs.C.faa.diamond <span class="nt" style="color: #000080;">-e</span> 1e-05 <span class="nt" style="color: #000080;">--outfmt</span> 6 <span class="nt" style="color: #000080;">--sensitive</span></span>
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<td class="new_line diff-line-num new" data-linenumber="20" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
20
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<pre style="margin: 0;">+<span id="LC20" class="line" lang="shell">diamond blastp <span class="nt" style="color: #000080;">--threads</span> 1 <span class="nt" style="color: #000080;">--db</span> <span class="s1" style="color: #d14;">'test/M.faa.diamond'</span> <span class="nt" style="color: #000080;">--query</span> <span class="s1" style="color: #d14;">'test/C.faa'</span> <span class="nt" style="color: #000080;">--out</span> <span class="nv" style="color: #008080;">$TESTDIR</span>/C.faa.vs.M.faa.diamond <span class="nt" style="color: #000080;">-e</span> 1e-05 <span class="nt" style="color: #000080;">--outfmt</span> 6 <span class="nt" style="color: #000080;">--sensitive</span></span>
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21
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21
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<pre style="margin: 0;"> <span id="LC21" class="line" lang="shell"></span>
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22
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<pre style="margin: 0;">-<span id="LC22" class="line" lang="shell"><span class="c" style="color: #998; font-style: italic;"># TODO: 10 DONE: 1 Running: 3 -> 12</span></span>
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23
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<pre style="margin: 0;">-<span id="LC23" class="line" lang="shell">diamond blastp <span class="nt" style="color: #000080;">--threads</span> 1 <span class="nt" style="color: #000080;">--db</span> <span class="s1" style="color: #d14;">'test/E.faa.diamond'</span> <span class="nt" style="color: #000080;">--query</span> <span class="s1" style="color: #d14;">'test/L.faa'</span> <span class="nt" style="color: #000080;">--out</span> <span class="nv" style="color: #008080;">$TESTDIR</span>/L.faa.vs.E.faa.diamond <span class="nt" style="color: #000080;">-e</span> 1e-05 <span class="nt" style="color: #000080;">--outfmt</span> 6 <span class="nt" style="color: #000080;">--sensitive</span> 2>/dev/null</span>
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22
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<pre style="margin: 0;">+<span id="LC22" class="line" lang="shell"><span class="c" style="color: #998; font-style: italic;"># DONE: 3 Running: 0 -> 7</span></span>
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23
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<pre style="margin: 0;">+<span id="LC23" class="line" lang="shell">diamond blastp <span class="nt" style="color: #000080;">--ignore-warnings</span> <span class="nt" style="color: #000080;">--threads</span> 1 <span class="nt" style="color: #000080;">--db</span> <span class="s1" style="color: #d14;">'test/C.faa.diamond'</span> <span class="nt" style="color: #000080;">--query</span> <span class="s1" style="color: #d14;">'test/C2.faa'</span> <span class="nt" style="color: #000080;">--out</span> <span class="nv" style="color: #008080;">$TESTDIR</span>/C2.faa.vs.C.faa.diamond <span class="nt" style="color: #000080;">-e</span> 1e-05 <span class="nt" style="color: #000080;">--outfmt</span> 6 <span class="nt" style="color: #000080;">--sensitive</span></span>
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24
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<pre style="margin: 0;">+<span id="LC24" class="line" lang="shell">diamond blastp <span class="nt" style="color: #000080;">--threads</span> 1 <span class="nt" style="color: #000080;">--db</span> <span class="s1" style="color: #d14;">'test/C2.faa.diamond'</span> <span class="nt" style="color: #000080;">--query</span> <span class="s1" style="color: #d14;">'test/C.faa'</span> <span class="nt" style="color: #000080;">--out</span> <span class="nv" style="color: #008080;">$TESTDIR</span>/C.faa.vs.C2.faa.diamond <span class="nt" style="color: #000080;">-e</span> 1e-05 <span class="nt" style="color: #000080;">--outfmt</span> 6 <span class="nt" style="color: #000080;">--sensitive</span></span>
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24
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25
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<pre style="margin: 0;"> <span id="LC25" class="line" lang="shell"></span>
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25
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<pre style="margin: 0;">-<span id="LC25" class="line" lang="shell"><span class="c" style="color: #998; font-style: italic;"># TODO: 10 DONE: 2 Running: 3 -> 11</span></span>
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26
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<pre style="margin: 0;">-<span id="LC26" class="line" lang="shell">diamond blastp <span class="nt" style="color: #000080;">--threads</span> 1 <span class="nt" style="color: #000080;">--db</span> <span class="s1" style="color: #d14;">'test/E.faa.diamond'</span> <span class="nt" style="color: #000080;">--query</span> <span class="s1" style="color: #d14;">'test/M.faa'</span> <span class="nt" style="color: #000080;">--out</span> <span class="nv" style="color: #008080;">$TESTDIR</span>/M.faa.vs.E.faa.diamond <span class="nt" style="color: #000080;">-e</span> 1e-05 <span class="nt" style="color: #000080;">--outfmt</span> 6 <span class="nt" style="color: #000080;">--sensitive</span> 2>/dev/null</span>
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<td class="old_line diff-line-num 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">
27
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<pre style="margin: 0;">-<span id="LC27" class="line" lang="shell">diamond blastp <span class="nt" style="color: #000080;">--threads</span> 1 <span class="nt" style="color: #000080;">--db</span> <span class="s1" style="color: #d14;">'test/C2.faa.diamond'</span> <span class="nt" style="color: #000080;">--query</span> <span class="s1" style="color: #d14;">'test/C.faa'</span> <span class="nt" style="color: #000080;">--out</span> <span class="nv" style="color: #008080;">$TESTDIR</span>/C.faa.vs.C2.faa.diamond <span class="nt" style="color: #000080;">-e</span> 1e-05 <span class="nt" style="color: #000080;">--outfmt</span> 6 <span class="nt" style="color: #000080;">--sensitive</span> 2>/dev/null</span>
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28
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<pre style="margin: 0;">-<span id="LC28" class="line" lang="shell">diamond blastp <span class="nt" style="color: #000080;">--threads</span> 1 <span class="nt" style="color: #000080;">--db</span> <span class="s1" style="color: #d14;">'test/M.faa.diamond'</span> <span class="nt" style="color: #000080;">--query</span> <span class="s1" style="color: #d14;">'test/C.faa'</span> <span class="nt" style="color: #000080;">--out</span> <span class="nv" style="color: #008080;">$TESTDIR</span>/C.faa.vs.M.faa.diamond <span class="nt" style="color: #000080;">-e</span> 1e-05 <span class="nt" style="color: #000080;">--outfmt</span> 6 <span class="nt" style="color: #000080;">--sensitive</span> 2>/dev/null</span>
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26
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<pre style="margin: 0;">+<span id="LC26" class="line" lang="shell"><span class="c" style="color: #998; font-style: italic;"># DONE: 4 Running: 0 -> 6</span></span>
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27
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<pre style="margin: 0;">+<span id="LC27" class="line" lang="shell">diamond blastp <span class="nt" style="color: #000080;">--threads</span> 1 <span class="nt" style="color: #000080;">--db</span> <span class="s1" style="color: #d14;">'test/E.faa.diamond'</span> <span class="nt" style="color: #000080;">--query</span> <span class="s1" style="color: #d14;">'test/L.faa'</span> <span class="nt" style="color: #000080;">--out</span> <span class="nv" style="color: #008080;">$TESTDIR</span>/L.faa.vs.E.faa.diamond <span class="nt" style="color: #000080;">-e</span> 1e-05 <span class="nt" style="color: #000080;">--outfmt</span> 6 <span class="nt" style="color: #000080;">--sensitive</span></span>
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28
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<pre style="margin: 0;">+<span id="LC28" class="line" lang="shell">diamond blastp <span class="nt" style="color: #000080;">--threads</span> 1 <span class="nt" style="color: #000080;">--db</span> <span class="s1" style="color: #d14;">'test/L.faa.diamond'</span> <span class="nt" style="color: #000080;">--query</span> <span class="s1" style="color: #d14;">'test/E.faa'</span> <span class="nt" style="color: #000080;">--out</span> <span class="nv" style="color: #008080;">$TESTDIR</span>/E.faa.vs.L.faa.diamond <span class="nt" style="color: #000080;">-e</span> 1e-05 <span class="nt" style="color: #000080;">--outfmt</span> 6 <span class="nt" style="color: #000080;">--sensitive</span></span>
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29
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29
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<pre style="margin: 0;"> <span id="LC29" class="line" lang="shell"></span>
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30
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<pre style="margin: 0;">-<span id="LC30" class="line" lang="shell"><span class="c" style="color: #998; font-style: italic;"># <span class="idiff left">TODO: 10 </span>DONE: <span class="idiff">3</span> Running: <span class="idiff">3</span> -> <span class="idiff right">10</span></span></span>
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31
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<pre style="margin: 0;">-<span id="LC31" class="line" lang="shell">diamond blastp <span class="nt" style="color: #000080;">--threads</span> 1 <span class="nt" style="color: #000080;">--db</span> <span class="s1" style="color: #d14;">'test/E.faa.diamond'</span> <span class="nt" style="color: #000080;">--query</span> <span class="s1" style="color: #d14;">'test/<span class="idiff left">C2</span>.faa'</span> <span class="nt" style="color: #000080;">--out</span> <span class="nv" style="color: #008080;">$TESTDIR</span>/<span class="idiff">C2</span>.faa.vs.E.faa.diamond <span class="nt" style="color: #000080;">-e</span> 1e-05 <span class="nt" style="color: #000080;">--outfmt</span> 6 <span class="nt" style="color: #000080;">--sensitive</span><span class="idiff right"> 2>/dev/null</span></span>
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32
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<pre style="margin: 0;">-<span id="LC32" class="line" lang="shell">diamond blastp <span class="nt" style="color: #000080;">--threads</span> 1 <span class="nt" style="color: #000080;">--db</span> <span class="s1" style="color: #d14;">'test/<span class="idiff left">C2</span>.faa.diamond'</span> <span class="nt" style="color: #000080;">--query</span> <span class="s1" style="color: #d14;">'test/E.faa'</span> <span class="nt" style="color: #000080;">--out</span> <span class="nv" style="color: #008080;">$TESTDIR</span>/E.faa.vs.<span class="idiff">C2</span>.faa.diamond <span class="nt" style="color: #000080;">-e</span> 1e-05 <span class="nt" style="color: #000080;">--outfmt</span> 6 <span class="nt" style="color: #000080;">--sensitive</span><span class="idiff right"> 2>/dev/null</span></span>
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30
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<pre style="margin: 0;">+<span id="LC30" class="line" lang="shell"><span class="c" style="color: #998; font-style: italic;"># DONE: <span class="idiff left">5</span> Running: <span class="idiff">0</span> -> <span class="idiff right">5</span></span></span>
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31
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<pre style="margin: 0;">+<span id="LC31" class="line" lang="shell">diamond blastp <span class="nt" style="color: #000080;">--threads</span> 1 <span class="nt" style="color: #000080;">--db</span> <span class="s1" style="color: #d14;">'test/E.faa.diamond'</span> <span class="nt" style="color: #000080;">--query</span> <span class="s1" style="color: #d14;">'test/<span class="idiff left">M</span>.faa'</span> <span class="nt" style="color: #000080;">--out</span> <span class="nv" style="color: #008080;">$TESTDIR</span>/<span class="idiff right">M</span>.faa.vs.E.faa.diamond <span class="nt" style="color: #000080;">-e</span> 1e-05 <span class="nt" style="color: #000080;">--outfmt</span> 6 <span class="nt" style="color: #000080;">--sensitive</span></span>
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32
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<pre style="margin: 0;">+<span id="LC32" class="line" lang="shell">diamond blastp <span class="nt" style="color: #000080;">--threads</span> 1 <span class="nt" style="color: #000080;">--db</span> <span class="s1" style="color: #d14;">'test/<span class="idiff left">M</span>.faa.diamond'</span> <span class="nt" style="color: #000080;">--query</span> <span class="s1" style="color: #d14;">'test/E.faa'</span> <span class="nt" style="color: #000080;">--out</span> <span class="nv" style="color: #008080;">$TESTDIR</span>/E.faa.vs.<span class="idiff right">M</span>.faa.diamond <span class="nt" style="color: #000080;">-e</span> 1e-05 <span class="nt" style="color: #000080;">--outfmt</span> 6 <span class="nt" style="color: #000080;">--sensitive</span></span>
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33
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33
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<pre style="margin: 0;"> <span id="LC33" class="line" lang="shell"></span>
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34
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<pre style="margin: 0;">-<span id="LC34" class="line" lang="shell"><span class="c" style="color: #998; font-style: italic;"># TODO: 10 DONE: 4 Running: 3 -> 9</span></span>
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35
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<pre style="margin: 0;">-<span id="LC35" class="line" lang="shell">diamond blastp <span class="nt" style="color: #000080;">--threads</span> 1 <span class="nt" style="color: #000080;">--db</span> <span class="s1" style="color: #d14;">'test/L.faa.diamond'</span> <span class="nt" style="color: #000080;">--query</span> <span class="s1" style="color: #d14;">'test/M.faa'</span> <span class="nt" style="color: #000080;">--out</span> <span class="nv" style="color: #008080;">$TESTDIR</span>/M.faa.vs.L.faa.diamond <span class="nt" style="color: #000080;">-e</span> 1e-05 <span class="nt" style="color: #000080;">--outfmt</span> 6 <span class="nt" style="color: #000080;">--sensitive</span> 2>/dev/null</span>
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34
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<pre style="margin: 0;">+<span id="LC34" class="line" lang="shell"><span class="c" style="color: #998; font-style: italic;"># DONE: 6 Running: 0 -> 4</span></span>
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35
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<pre style="margin: 0;">+<span id="LC35" class="line" lang="shell">diamond blastp <span class="nt" style="color: #000080;">--ignore-warnings</span> <span class="nt" style="color: #000080;">--threads</span> 1 <span class="nt" style="color: #000080;">--db</span> <span class="s1" style="color: #d14;">'test/E.faa.diamond'</span> <span class="nt" style="color: #000080;">--query</span> <span class="s1" style="color: #d14;">'test/C2.faa'</span> <span class="nt" style="color: #000080;">--out</span> <span class="nv" style="color: #008080;">$TESTDIR</span>/C2.faa.vs.E.faa.diamond <span class="nt" style="color: #000080;">-e</span> 1e-05 <span class="nt" style="color: #000080;">--outfmt</span> 6 <span class="nt" style="color: #000080;">--sensitive</span></span>
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36
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<pre style="margin: 0;">+<span id="LC36" class="line" lang="shell">diamond blastp <span class="nt" style="color: #000080;">--threads</span> 1 <span class="nt" style="color: #000080;">--db</span> <span class="s1" style="color: #d14;">'test/C2.faa.diamond'</span> <span class="nt" style="color: #000080;">--query</span> <span class="s1" style="color: #d14;">'test/E.faa'</span> <span class="nt" style="color: #000080;">--out</span> <span class="nv" style="color: #008080;">$TESTDIR</span>/E.faa.vs.C2.faa.diamond <span class="nt" style="color: #000080;">-e</span> 1e-05 <span class="nt" style="color: #000080;">--outfmt</span> 6 <span class="nt" style="color: #000080;">--sensitive</span></span>
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36
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37
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<pre style="margin: 0;"> <span id="LC37" class="line" lang="shell"></span>
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<pre style="margin: 0;">-<span id="LC37" class="line" lang="shell"><span class="c" style="color: #998; font-style: italic;"># TODO: 10 DONE: 5 Running: 3 -> 8</span></span>
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<pre style="margin: 0;">-<span id="LC38" class="line" lang="shell">diamond blastp <span class="nt" style="color: #000080;">--threads</span> 1 <span class="nt" style="color: #000080;">--db</span> <span class="s1" style="color: #d14;">'test/L.faa.diamond'</span> <span class="nt" style="color: #000080;">--query</span> <span class="s1" style="color: #d14;">'test/C2.faa'</span> <span class="nt" style="color: #000080;">--out</span> <span class="nv" style="color: #008080;">$TESTDIR</span>/C2.faa.vs.L.faa.diamond <span class="nt" style="color: #000080;">-e</span> 1e-05 <span class="nt" style="color: #000080;">--outfmt</span> 6 <span class="nt" style="color: #000080;">--sensitive</span> 2>/dev/null</span>
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<pre style="margin: 0;">-<span id="LC39" class="line" lang="shell">diamond blastp <span class="nt" style="color: #000080;">--threads</span> 1 <span class="nt" style="color: #000080;">--db</span> <span class="s1" style="color: #d14;">'test/C2.faa.diamond'</span> <span class="nt" style="color: #000080;">--query</span> <span class="s1" style="color: #d14;">'test/L.faa'</span> <span class="nt" style="color: #000080;">--out</span> <span class="nv" style="color: #008080;">$TESTDIR</span>/L.faa.vs.C2.faa.diamond <span class="nt" style="color: #000080;">-e</span> 1e-05 <span class="nt" style="color: #000080;">--outfmt</span> 6 <span class="nt" style="color: #000080;">--sensitive</span> 2>/dev/null</span>
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<pre style="margin: 0;">-<span id="LC40" class="line" lang="shell">diamond blastp <span class="nt" style="color: #000080;">--threads</span> 1 <span class="nt" style="color: #000080;">--db</span> <span class="s1" style="color: #d14;">'test/L.faa.diamond'</span> <span class="nt" style="color: #000080;">--query</span> <span class="s1" style="color: #d14;">'test/E.faa'</span> <span class="nt" style="color: #000080;">--out</span> <span class="nv" style="color: #008080;">$TESTDIR</span>/E.faa.vs.L.faa.diamond <span class="nt" style="color: #000080;">-e</span> 1e-05 <span class="nt" style="color: #000080;">--outfmt</span> 6 <span class="nt" style="color: #000080;">--sensitive</span> 2>/dev/null</span>
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<pre style="margin: 0;">-<span id="LC41" class="line" lang="shell">diamond blastp <span class="nt" style="color: #000080;">--threads</span> 1 <span class="nt" style="color: #000080;">--db</span> <span class="s1" style="color: #d14;">'test/M.faa.diamond'</span> <span class="nt" style="color: #000080;">--query</span> <span class="s1" style="color: #d14;">'test/E.faa'</span> <span class="nt" style="color: #000080;">--out</span> <span class="nv" style="color: #008080;">$TESTDIR</span>/E.faa.vs.M.faa.diamond <span class="nt" style="color: #000080;">-e</span> 1e-05 <span class="nt" style="color: #000080;">--outfmt</span> 6 <span class="nt" style="color: #000080;">--sensitive</span> 2>/dev/null</span>
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<pre style="margin: 0;">+<span id="LC38" class="line" lang="shell"><span class="c" style="color: #998; font-style: italic;"># DONE: 7 Running: 0 -> 3</span></span>
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<pre style="margin: 0;">+<span id="LC39" class="line" lang="shell">diamond blastp <span class="nt" style="color: #000080;">--threads</span> 1 <span class="nt" style="color: #000080;">--db</span> <span class="s1" style="color: #d14;">'test/L.faa.diamond'</span> <span class="nt" style="color: #000080;">--query</span> <span class="s1" style="color: #d14;">'test/M.faa'</span> <span class="nt" style="color: #000080;">--out</span> <span class="nv" style="color: #008080;">$TESTDIR</span>/M.faa.vs.L.faa.diamond <span class="nt" style="color: #000080;">-e</span> 1e-05 <span class="nt" style="color: #000080;">--outfmt</span> 6 <span class="nt" style="color: #000080;">--sensitive</span></span>
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<pre style="margin: 0;">+<span id="LC40" class="line" lang="shell">diamond blastp <span class="nt" style="color: #000080;">--threads</span> 1 <span class="nt" style="color: #000080;">--db</span> <span class="s1" style="color: #d14;">'test/M.faa.diamond'</span> <span class="nt" style="color: #000080;">--query</span> <span class="s1" style="color: #d14;">'test/L.faa'</span> <span class="nt" style="color: #000080;">--out</span> <span class="nv" style="color: #008080;">$TESTDIR</span>/L.faa.vs.M.faa.diamond <span class="nt" style="color: #000080;">-e</span> 1e-05 <span class="nt" style="color: #000080;">--outfmt</span> 6 <span class="nt" style="color: #000080;">--sensitive</span></span>
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<pre style="margin: 0;"> <span id="LC41" class="line" lang="shell"></span>
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<pre style="margin: 0;">-<span id="LC43" class="line" lang="shell"><span class="c" style="color: #998; font-style: italic;">#TODO: 10 DONE: 6 Running: 3 -> 7</span></span>
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<pre style="margin: 0;">-<span id="LC44" class="line" lang="shell">diamond blastp <span class="nt" style="color: #000080;">--threads</span> 1 <span class="nt" style="color: #000080;">--db</span> <span class="s1" style="color: #d14;">'test/M.faa.diamond'</span> <span class="nt" style="color: #000080;">--query</span> <span class="s1" style="color: #d14;">'test/C2.faa'</span> <span class="nt" style="color: #000080;">--out</span> <span class="nv" style="color: #008080;">$TESTDIR</span>/C2.faa.vs.M.faa.diamond <span class="nt" style="color: #000080;">-e</span> 1e-05 <span class="nt" style="color: #000080;">--outfmt</span> 6 <span class="nt" style="color: #000080;">--sensitive</span> 2>/dev/null</span>
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<pre style="margin: 0;">-<span id="LC45" class="line" lang="shell">diamond blastp <span class="nt" style="color: #000080;">--threads</span> 1 <span class="nt" style="color: #000080;">--db</span> <span class="s1" style="color: #d14;">'test/C2.faa.diamond'</span> <span class="nt" style="color: #000080;">--query</span> <span class="s1" style="color: #d14;">'test/M.faa'</span> <span class="nt" style="color: #000080;">--out</span> <span class="nv" style="color: #008080;">$TESTDIR</span>/M.faa.vs.C2.faa.diamond <span class="nt" style="color: #000080;">-e</span> 1e-05 <span class="nt" style="color: #000080;">--outfmt</span> 6 <span class="nt" style="color: #000080;">--sensitive</span> 2>/dev/null</span>
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<pre style="margin: 0;">-<span id="LC46" class="line" lang="shell">diamond blastp <span class="nt" style="color: #000080;">--threads</span> 1 <span class="nt" style="color: #000080;">--db</span> <span class="s1" style="color: #d14;">'test/M.faa.diamond'</span> <span class="nt" style="color: #000080;">--query</span> <span class="s1" style="color: #d14;">'test/L.faa'</span> <span class="nt" style="color: #000080;">--out</span> <span class="nv" style="color: #008080;">$TESTDIR</span>/L.faa.vs.M.faa.diamond <span class="nt" style="color: #000080;">-e</span> 1e-05 <span class="nt" style="color: #000080;">--outfmt</span> 6 <span class="nt" style="color: #000080;">--sensitive</span> 2>/dev/null</span>
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42
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<pre style="margin: 0;">+<span id="LC42" class="line" lang="shell"><span class="c" style="color: #998; font-style: italic;"># DONE: 8 Running: 0 -> 2</span></span>
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<pre style="margin: 0;">+<span id="LC43" class="line" lang="shell">diamond blastp <span class="nt" style="color: #000080;">--ignore-warnings</span> <span class="nt" style="color: #000080;">--threads</span> 1 <span class="nt" style="color: #000080;">--db</span> <span class="s1" style="color: #d14;">'test/L.faa.diamond'</span> <span class="nt" style="color: #000080;">--query</span> <span class="s1" style="color: #d14;">'test/C2.faa'</span> <span class="nt" style="color: #000080;">--out</span> <span class="nv" style="color: #008080;">$TESTDIR</span>/C2.faa.vs.L.faa.diamond <span class="nt" style="color: #000080;">-e</span> 1e-05 <span class="nt" style="color: #000080;">--outfmt</span> 6 <span class="nt" style="color: #000080;">--sensitive</span></span>
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<pre style="margin: 0;">+<span id="LC44" class="line" lang="shell">diamond blastp <span class="nt" style="color: #000080;">--threads</span> 1 <span class="nt" style="color: #000080;">--db</span> <span class="s1" style="color: #d14;">'test/C2.faa.diamond'</span> <span class="nt" style="color: #000080;">--query</span> <span class="s1" style="color: #d14;">'test/L.faa'</span> <span class="nt" style="color: #000080;">--out</span> <span class="nv" style="color: #008080;">$TESTDIR</span>/L.faa.vs.C2.faa.diamond <span class="nt" style="color: #000080;">-e</span> 1e-05 <span class="nt" style="color: #000080;">--outfmt</span> 6 <span class="nt" style="color: #000080;">--sensitive</span></span>
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45
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<pre style="margin: 0;">+<span id="LC45" class="line" lang="shell"></span>
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<pre style="margin: 0;">+<span id="LC46" class="line" lang="shell"><span class="c" style="color: #998; font-style: italic;"># DONE: 9 Running: 0 -> 1</span></span>
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<pre style="margin: 0;">+<span id="LC47" class="line" lang="shell">diamond blastp <span class="nt" style="color: #000080;">--ignore-warnings</span> <span class="nt" style="color: #000080;">--threads</span> 1 <span class="nt" style="color: #000080;">--db</span> <span class="s1" style="color: #d14;">'test/M.faa.diamond'</span> <span class="nt" style="color: #000080;">--query</span> <span class="s1" style="color: #d14;">'test/C2.faa'</span> <span class="nt" style="color: #000080;">--out</span> <span class="nv" style="color: #008080;">$TESTDIR</span>/C2.faa.vs.M.faa.diamond <span class="nt" style="color: #000080;">-e</span> 1e-05 <span class="nt" style="color: #000080;">--outfmt</span> 6 <span class="nt" style="color: #000080;">--sensitive</span></span>
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<pre style="margin: 0;">+<span id="LC48" class="line" lang="shell">diamond blastp <span class="nt" style="color: #000080;">--threads</span> 1 <span class="nt" style="color: #000080;">--db</span> <span class="s1" style="color: #d14;">'test/C2.faa.diamond'</span> <span class="nt" style="color: #000080;">--query</span> <span class="s1" style="color: #d14;">'test/M.faa'</span> <span class="nt" style="color: #000080;">--out</span> <span class="nv" style="color: #008080;">$TESTDIR</span>/M.faa.vs.C2.faa.diamond <span class="nt" style="color: #000080;">-e</span> 1e-05 <span class="nt" style="color: #000080;">--outfmt</span> 6 <span class="nt" style="color: #000080;">--sensitive</span></span>
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<pre style="margin: 0;"> <span id="LC49" class="line" lang="shell"></span>
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<pre style="margin: 0;"> <span id="LC50" class="line" lang="shell"><span class="nb" style="color: #0086b3;">rm</span> <span class="nt" style="color: #000080;">-rf</span> <span class="nv" style="color: #008080;">$TESTDIR</span></span></pre>
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