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<h3>
Liubov Chuprikova pushed to branch master
at <a href="https://salsa.debian.org/med-team/ncbi-tools6">Debian Med / ncbi-tools6</a>
</h3>
<h4>
Commits:
</h4>
<ul>
<li>
<strong><a href="https://salsa.debian.org/med-team/ncbi-tools6/commit/4ff9301c215bfb41c1c5f25b5d2a9216c52eb9cc">4ff9301c</a></strong>
<div>
<span>by Liubov Chuprikova</span>
<i>at 2018-04-05T10:59:57+00:00</i>
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<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Autopkgtest: changed test data file to smaller one
</pre>
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<h4>5 changed files:</h4>
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<li class="file-stats">
<a href="#adb7f75f79e3bb85eb62912a2904c5d24af878fb">
debian/copyright
</a>
</li>
<li class="file-stats">
<a href="#d0b2adb0358f0eab7dd3bb1849dd4e795a81f242">
debian/source/include-binaries
</a>
</li>
<li class="file-stats">
<a href="#8c77cc51b09ef1f7b294222180bcdb53ebb70e2f">
debian/tests/run-unit-test
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<li class="file-stats">
<a href="#87f0de57e05c473fc1b2f710f5a7d4bf1d8e23b2">
<span class="new-file">
+
debian/tests/test-data/nc0225.aso.gz
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<li class="file-stats">
<a href="#601b99d2202cf7650630cfc6bd0cf6d973b31d27">
<span class="deleted-file">
−
debian/tests/test-data/nc0305.aso.gz
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</a>
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<h4>Changes:</h4>
<li id="adb7f75f79e3bb85eb62912a2904c5d24af878fb">
<a href="https://salsa.debian.org/med-team/ncbi-tools6/commit/4ff9301c215bfb41c1c5f25b5d2a9216c52eb9cc#adb7f75f79e3bb85eb62912a2904c5d24af878fb"><strong>debian/copyright</strong></a>
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<td class="diff-line-num unfold js-unfold new_line" data-linenumber="13" 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">@@ -13,13 +13,13 @@ Copyright: 1998-1999 Stephane Bortzmeyer <bortzmeyer@pasteur.fr></td>
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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="LC13" class="line" lang="plaintext"> 2001-2017 Aaron M. Ucko <ucko@debian.org></span>
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<pre style="margin: 0;"> <span id="LC14" class="line" lang="plaintext">License: public_domain</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">Files: debian/tests/test-data/nc0<span class="idiff left right">30</span>5.aso.gz</span>
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<pre style="margin: 0;">+<span id="LC16" class="line" lang="plaintext">Files: debian/tests/test-data/nc0<span class="idiff left right">22</span>5.aso.gz</span>
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<pre style="margin: 0;"> <span id="LC17" class="line" lang="plaintext"> debian/tests/test-data/dsRNA_viruses.ags.gz</span>
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<pre style="margin: 0;"> <span id="LC18" class="line" lang="plaintext">Copyright: 1996-2018 NCBI </span>
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<pre style="margin: 0;"> <span id="LC19" class="line" lang="plaintext">License: public_domain</span>
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<pre style="margin: 0;"> <span id="LC20" class="line" lang="plaintext">Comment: </span>
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<pre style="margin: 0;"> <span id="LC21" class="line" lang="plaintext"> To dowload the files use:</span>
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<pre style="margin: 0;">-<span id="LC22" class="line" lang="plaintext"> wget ftp://ftp.ncbi.nih.gov/ncbi-asn1/daily-nc/nc0<span class="idiff left right">30</span>5.aso.gz</span>
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<pre style="margin: 0;">+<span id="LC22" class="line" lang="plaintext"> wget ftp://ftp.ncbi.nih.gov/ncbi-asn1/daily-nc/nc0<span class="idiff left right">22</span>5.aso.gz</span>
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<pre style="margin: 0;"> <span id="LC23" class="line" lang="plaintext"> wget ftp://ftp.ncbi.nlm.nih.gov/gene/DATA/ASN_BINARY/Viruses/dsRNA_viruses.ags.gz</span>
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<pre style="margin: 0;"> <span id="LC24" class="line" lang="plaintext"></span>
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<pre style="margin: 0;"> <span id="LC25" class="line" lang="plaintext">Files: debian/tests/test-data/trnascan-se_sample.output</span>
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<li id="d0b2adb0358f0eab7dd3bb1849dd4e795a81f242">
<a href="https://salsa.debian.org/med-team/ncbi-tools6/commit/4ff9301c215bfb41c1c5f25b5d2a9216c52eb9cc#d0b2adb0358f0eab7dd3bb1849dd4e795a81f242"><strong>debian/source/include-binaries</strong></a>
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1
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<pre style="margin: 0;">-<span id="LC1" class="line" lang="plaintext">debian/tests/test-data/nc0<span class="idiff left right">30</span>5.aso.gz</span>
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1
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="plaintext">debian/tests/test-data/nc0<span class="idiff left right">22</span>5.aso.gz</span>
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<pre style="margin: 0;"> <span id="LC2" class="line" lang="plaintext">debian/tests/test-data/dsRNA_viruses.ags.gz</span></pre>
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<li id="8c77cc51b09ef1f7b294222180bcdb53ebb70e2f">
<a href="https://salsa.debian.org/med-team/ncbi-tools6/commit/4ff9301c215bfb41c1c5f25b5d2a9216c52eb9cc#8c77cc51b09ef1f7b294222180bcdb53ebb70e2f"><strong>debian/tests/run-unit-test</strong></a>
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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="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="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -14,43 +14,43 @@ cp /usr/share/ncbi/data/autofix.prt .</td>
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<pre style="margin: 0;"> <span id="LC14" class="line" lang="shell">gunzip <span class="k" style="font-weight: 600;">*</span>.gz</span>
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<pre style="margin: 0;"> <span id="LC15" class="line" lang="shell"></span>
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<pre style="margin: 0;"> <span id="LC16" class="line" lang="shell"><span class="nb" style="color: #0086b3;">echo</span> <span class="s1" style="color: #d14;">'---asn2all test---'</span></span>
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<pre style="margin: 0;">-<span id="LC17" class="line" lang="shell">/usr/bin/asn2all <span class="nt" style="color: navy;">-i</span> nc0<span class="idiff left">305.aso </span><span class="nt" style="color: navy;"><span class="idiff">-b</span></span><span class="idiff"> </span><span class="nt" style="color: navy;"><span class="idiff">-f</span></span><span class="idiff"> g </span><span class="nt" style="color: navy;"><span class="idiff">-o</span></span><span class="idiff"> nc0305.nuc </span><span class="nt" style="color: navy;"><span class="idiff">-v</span></span><span class="idiff right"> nc030</span>5.prt</span>
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<pre style="margin: 0;">-<span id="LC18" class="line" lang="shell"><span class="o" style="font-weight: 600;">[</span> <span class="nt" style="color: navy;">-s</span> nc0<span class="idiff left right">30</span>5.nuc <span class="o" style="font-weight: 600;">]</span></span>
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<pre style="margin: 0;">-<span id="LC19" class="line" lang="shell"><span class="o" style="font-weight: 600;">[</span> <span class="nt" style="color: navy;">-s</span> nc0<span class="idiff left right">30</span>5.prt <span class="o" style="font-weight: 600;">]</span></span>
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<pre style="margin: 0;">+<span id="LC17" class="line" lang="shell">/usr/bin/asn2all <span class="nt" style="color: navy;">-i</span> nc0<span class="idiff left">225.aso </span><span class="nt" style="color: navy;"><span class="idiff">-b</span></span><span class="idiff"> </span><span class="nt" style="color: navy;"><span class="idiff">-f</span></span><span class="idiff"> g </span><span class="nt" style="color: navy;"><span class="idiff">-o</span></span><span class="idiff"> nc0225.nuc </span><span class="nt" style="color: navy;"><span class="idiff">-v</span></span><span class="idiff right"> nc022</span>5.prt</span>
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<pre style="margin: 0;">+<span id="LC18" class="line" lang="shell"><span class="o" style="font-weight: 600;">[</span> <span class="nt" style="color: navy;">-s</span> nc0<span class="idiff left right">22</span>5.nuc <span class="o" style="font-weight: 600;">]</span></span>
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<pre style="margin: 0;">+<span id="LC19" class="line" lang="shell"><span class="o" style="font-weight: 600;">[</span> <span class="nt" style="color: navy;">-s</span> nc0<span class="idiff left right">22</span>5.prt <span class="o" style="font-weight: 600;">]</span></span>
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<pre style="margin: 0;"> <span id="LC20" class="line" lang="shell"></span>
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<pre style="margin: 0;"> <span id="LC21" class="line" lang="shell"><span class="nb" style="color: #0086b3;">echo</span> <span class="s1" style="color: #d14;">'---asn2asn test---'</span></span>
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<pre style="margin: 0;">-<span id="LC22" class="line" lang="shell">/usr/bin/asn2asn <span class="nt" style="color: navy;">-i</span> nc0<span class="idiff left">305.aso </span><span class="nt" style="color: navy;"><span class="idiff">-b</span></span><span class="idiff"> </span><span class="nt" style="color: navy;"><span class="idiff">-o</span></span><span class="idiff right"> nc030</span>5.text</span>
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<pre style="margin: 0;">-<span id="LC23" class="line" lang="shell"><span class="o" style="font-weight: 600;">[</span> <span class="nt" style="color: navy;">-s</span> nc0<span class="idiff left right">30</span>5.text <span class="o" style="font-weight: 600;">]</span></span>
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<pre style="margin: 0;">+<span id="LC22" class="line" lang="shell">/usr/bin/asn2asn <span class="nt" style="color: navy;">-i</span> nc0<span class="idiff left">225.aso </span><span class="nt" style="color: navy;"><span class="idiff">-b</span></span><span class="idiff"> </span><span class="nt" style="color: navy;"><span class="idiff">-o</span></span><span class="idiff right"> nc022</span>5.text</span>
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<pre style="margin: 0;">+<span id="LC23" class="line" lang="shell"><span class="o" style="font-weight: 600;">[</span> <span class="nt" style="color: navy;">-s</span> nc0<span class="idiff left right">22</span>5.text <span class="o" style="font-weight: 600;">]</span></span>
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<pre style="margin: 0;"> <span id="LC24" class="line" lang="shell"></span>
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<pre style="margin: 0;"> <span id="LC25" class="line" lang="shell"><span class="nb" style="color: #0086b3;">echo</span> <span class="s1" style="color: #d14;">'---asn2fsa test---'</span></span>
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<pre style="margin: 0;">-<span id="LC26" class="line" lang="shell">/usr/bin/asn2fsa <span class="nt" style="color: navy;">-i</span> nc0<span class="idiff left">305.aso </span><span class="nt" style="color: navy;"><span class="idiff">-b</span></span><span class="idiff"> </span><span class="nt" style="color: navy;"><span class="idiff">-a</span></span><span class="idiff"> t </span><span class="nt" style="color: navy;"><span class="idiff">-o</span></span><span class="idiff"> nc0305.fna </span><span class="nt" style="color: navy;"><span class="idiff">-v</span></span><span class="idiff right"> nc030</span>5.faa</span>
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<pre style="margin: 0;">-<span id="LC27" class="line" lang="shell"><span class="o" style="font-weight: 600;">[</span> <span class="nt" style="color: navy;">-s</span> nc0<span class="idiff left right">30</span>5.fna <span class="o" style="font-weight: 600;">]</span></span>
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<pre style="margin: 0;">-<span id="LC28" class="line" lang="shell"><span class="o" style="font-weight: 600;">[</span> <span class="nt" style="color: navy;">-s</span> nc0<span class="idiff left right">30</span>5.faa <span class="o" style="font-weight: 600;">]</span></span>
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<pre style="margin: 0;">+<span id="LC26" class="line" lang="shell">/usr/bin/asn2fsa <span class="nt" style="color: navy;">-i</span> nc0<span class="idiff left">225.aso </span><span class="nt" style="color: navy;"><span class="idiff">-b</span></span><span class="idiff"> </span><span class="nt" style="color: navy;"><span class="idiff">-a</span></span><span class="idiff"> t </span><span class="nt" style="color: navy;"><span class="idiff">-o</span></span><span class="idiff"> nc0225.fna </span><span class="nt" style="color: navy;"><span class="idiff">-v</span></span><span class="idiff right"> nc022</span>5.faa</span>
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<pre style="margin: 0;">+<span id="LC27" class="line" lang="shell"><span class="o" style="font-weight: 600;">[</span> <span class="nt" style="color: navy;">-s</span> nc0<span class="idiff left right">22</span>5.fna <span class="o" style="font-weight: 600;">]</span></span>
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<pre style="margin: 0;">+<span id="LC28" class="line" lang="shell"><span class="o" style="font-weight: 600;">[</span> <span class="nt" style="color: navy;">-s</span> nc0<span class="idiff left right">22</span>5.faa <span class="o" style="font-weight: 600;">]</span></span>
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<pre style="margin: 0;"> <span id="LC29" class="line" lang="shell"></span>
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<pre style="margin: 0;"> <span id="LC30" class="line" lang="shell"><span class="nb" style="color: #0086b3;">echo</span> <span class="s1" style="color: #d14;">'---asn2gb test---'</span></span>
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<pre style="margin: 0;">-<span id="LC31" class="line" lang="shell">/usr/bin/asn2gb <span class="nt" style="color: navy;">-i</span> nc0<span class="idiff left">305.aso </span><span class="nt" style="color: navy;"><span class="idiff">-b</span></span><span class="idiff"> </span><span class="nt" style="color: navy;"><span class="idiff">-a</span></span><span class="idiff"> t </span><span class="nt" style="color: navy;"><span class="idiff">-o</span></span><span class="idiff right"> nc030</span>5.gbk</span>
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<pre style="margin: 0;">-<span id="LC32" class="line" lang="shell"><span class="o" style="font-weight: 600;">[</span> <span class="nt" style="color: navy;">-s</span> nc0<span class="idiff left right">30</span>5.gbk <span class="o" style="font-weight: 600;">]</span></span>
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<pre style="margin: 0;">+<span id="LC31" class="line" lang="shell">/usr/bin/asn2gb <span class="nt" style="color: navy;">-i</span> nc0<span class="idiff left">225.aso </span><span class="nt" style="color: navy;"><span class="idiff">-b</span></span><span class="idiff"> </span><span class="nt" style="color: navy;"><span class="idiff">-a</span></span><span class="idiff"> t </span><span class="nt" style="color: navy;"><span class="idiff">-o</span></span><span class="idiff right"> nc022</span>5.gbk</span>
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<pre style="margin: 0;">+<span id="LC32" class="line" lang="shell"><span class="o" style="font-weight: 600;">[</span> <span class="nt" style="color: navy;">-s</span> nc0<span class="idiff left right">22</span>5.gbk <span class="o" style="font-weight: 600;">]</span></span>
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<pre style="margin: 0;"> <span id="LC33" class="line" lang="shell"></span>
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<pre style="margin: 0;"> <span id="LC34" class="line" lang="shell"><span class="nb" style="color: #0086b3;">echo</span> <span class="s1" style="color: #d14;">'---asn2idx test---'</span></span>
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<pre style="margin: 0;">-<span id="LC35" class="line" lang="shell">/usr/bin/asn2idx <span class="nt" style="color: navy;">-b</span> <span class="nt" style="color: navy;">-p</span> <span class="nb" style="color: #0086b3;">.</span> < nc0<span class="idiff left right">30</span>5.aso</span>
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<pre style="margin: 0;">-<span id="LC36" class="line" lang="shell"><span class="o" style="font-weight: 600;">[</span> <span class="nt" style="color: navy;">-s</span> nc0<span class="idiff left right">30</span>5.idx <span class="o" style="font-weight: 600;">]</span></span>
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<pre style="margin: 0;">+<span id="LC35" class="line" lang="shell">/usr/bin/asn2idx <span class="nt" style="color: navy;">-b</span> <span class="nt" style="color: navy;">-p</span> <span class="nb" style="color: #0086b3;">.</span> < nc0<span class="idiff left right">22</span>5.aso</span>
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<pre style="margin: 0;">+<span id="LC36" class="line" lang="shell"><span class="o" style="font-weight: 600;">[</span> <span class="nt" style="color: navy;">-s</span> nc0<span class="idiff left right">22</span>5.idx <span class="o" style="font-weight: 600;">]</span></span>
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<pre style="margin: 0;"> <span id="LC37" class="line" lang="shell"><span class="o" style="font-weight: 600;">[</span> <span class="nt" style="color: navy;">-s</span> master.idx <span class="o" style="font-weight: 600;">]</span></span>
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<pre style="margin: 0;"> <span id="LC38" class="line" lang="shell"></span>
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<pre style="margin: 0;"> <span id="LC39" class="line" lang="shell"><span class="nb" style="color: #0086b3;">echo</span> <span class="s1" style="color: #d14;">'---asn2xml test---'</span></span>
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<pre style="margin: 0;">-<span id="LC40" class="line" lang="shell">/usr/bin/asn2xml <span class="nt" style="color: navy;">-i</span> nc0<span class="idiff left">305.aso </span><span class="nt" style="color: navy;"><span class="idiff">-o</span></span><span class="idiff right"> nc030</span>5.xml</span>
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<pre style="margin: 0;">-<span id="LC41" class="line" lang="shell"><span class="o" style="font-weight: 600;">[</span> <span class="nt" style="color: navy;">-s</span> nc0<span class="idiff left right">30</span>5.xml <span class="o" style="font-weight: 600;">]</span></span>
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<pre style="margin: 0;">+<span id="LC40" class="line" lang="shell">/usr/bin/asn2xml <span class="nt" style="color: navy;">-i</span> nc0<span class="idiff left">225.aso </span><span class="nt" style="color: navy;"><span class="idiff">-o</span></span><span class="idiff right"> nc022</span>5.xml</span>
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<pre style="margin: 0;">+<span id="LC41" class="line" lang="shell"><span class="o" style="font-weight: 600;">[</span> <span class="nt" style="color: navy;">-s</span> nc0<span class="idiff left right">22</span>5.xml <span class="o" style="font-weight: 600;">]</span></span>
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<pre style="margin: 0;"> <span id="LC42" class="line" lang="shell"></span>
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<pre style="margin: 0;"> <span id="LC43" class="line" lang="shell"><span class="nb" style="color: #0086b3;">echo</span> <span class="s1" style="color: #d14;">'---asndisc test---'</span></span>
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<pre style="margin: 0;">-<span id="LC44" class="line" lang="shell">/usr/bin/asndisc <span class="nt" style="color: navy;">-i</span> nc0<span class="idiff left">305.aso </span><span class="nt" style="color: navy;"><span class="idiff">-b</span></span><span class="idiff"> </span><span class="nt" style="color: navy;"><span class="idiff">-a</span></span><span class="idiff"> t </span><span class="nt" style="color: navy;"><span class="idiff">-o</span></span><span class="idiff right"> nc030</span>5.disc</span>
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<pre style="margin: 0;">-<span id="LC45" class="line" lang="shell"><span class="o" style="font-weight: 600;">[</span> <span class="nt" style="color: navy;">-s</span> nc0<span class="idiff left right">30</span>5.disc <span class="o" style="font-weight: 600;">]</span></span>
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44
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<pre style="margin: 0;">+<span id="LC44" class="line" lang="shell">/usr/bin/asndisc <span class="nt" style="color: navy;">-i</span> nc0<span class="idiff left">225.aso </span><span class="nt" style="color: navy;"><span class="idiff">-b</span></span><span class="idiff"> </span><span class="nt" style="color: navy;"><span class="idiff">-a</span></span><span class="idiff"> t </span><span class="nt" style="color: navy;"><span class="idiff">-o</span></span><span class="idiff right"> nc022</span>5.disc</span>
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<pre style="margin: 0;">+<span id="LC45" class="line" lang="shell"><span class="o" style="font-weight: 600;">[</span> <span class="nt" style="color: navy;">-s</span> nc0<span class="idiff left right">22</span>5.disc <span class="o" style="font-weight: 600;">]</span></span>
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46
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<pre style="margin: 0;"> <span id="LC46" class="line" lang="shell"></span>
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47
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<pre style="margin: 0;"> <span id="LC47" class="line" lang="shell"><span class="nb" style="color: #0086b3;">echo</span> <span class="s1" style="color: #d14;">'---asnval test---'</span></span>
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48
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<pre style="margin: 0;">-<span id="LC48" class="line" lang="shell">/usr/bin/asnval <span class="nt" style="color: navy;">-i</span> nc0<span class="idiff left">305.aso </span><span class="nt" style="color: navy;"><span class="idiff">-b</span></span><span class="idiff"> </span><span class="nt" style="color: navy;"><span class="idiff">-a</span></span><span class="idiff"> t </span><span class="nt" style="color: navy;"><span class="idiff">-o</span></span><span class="idiff right"> nc030</span>5.val</span>
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49
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<pre style="margin: 0;">-<span id="LC49" class="line" lang="shell"><span class="o" style="font-weight: 600;">[</span> <span class="nt" style="color: navy;">-f</span> nc0<span class="idiff left right">30</span>5.val <span class="o" style="font-weight: 600;">]</span></span>
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50
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<pre style="margin: 0;">-<span id="LC50" class="line" lang="shell"><span class="o" style="font-weight: 600;">[</span> <span class="o" style="font-weight: 600;">!</span> <span class="nt" style="color: navy;">-s</span> nc0<span class="idiff left right">30</span>5.val <span class="o" style="font-weight: 600;">]</span> <span class="c" style="color: #998; font-style: italic;"># empty</span></span>
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48
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<pre style="margin: 0;">+<span id="LC48" class="line" lang="shell">/usr/bin/asnval <span class="nt" style="color: navy;">-i</span> nc0<span class="idiff left">225.aso </span><span class="nt" style="color: navy;"><span class="idiff">-b</span></span><span class="idiff"> </span><span class="nt" style="color: navy;"><span class="idiff">-a</span></span><span class="idiff"> t </span><span class="nt" style="color: navy;"><span class="idiff">-o</span></span><span class="idiff right"> nc022</span>5.val</span>
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49
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<pre style="margin: 0;">+<span id="LC49" class="line" lang="shell"><span class="o" style="font-weight: 600;">[</span> <span class="nt" style="color: navy;">-f</span> nc0<span class="idiff left right">22</span>5.val <span class="o" style="font-weight: 600;">]</span></span>
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50
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<pre style="margin: 0;">+<span id="LC50" class="line" lang="shell"><span class="o" style="font-weight: 600;">[</span> <span class="o" style="font-weight: 600;">!</span> <span class="nt" style="color: navy;">-s</span> nc0<span class="idiff left right">22</span>5.val <span class="o" style="font-weight: 600;">]</span> <span class="c" style="color: #998; font-style: italic;"># empty</span></span>
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51
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51
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<pre style="margin: 0;"> <span id="LC51" class="line" lang="shell"></span>
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52
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52
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<pre style="margin: 0;"> <span id="LC52" class="line" lang="shell"><span class="nb" style="color: #0086b3;">echo</span> <span class="s1" style="color: #d14;">'---asnmacro test---'</span></span>
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53
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<pre style="margin: 0;">-<span id="LC53" class="line" lang="shell">/usr/bin/asnmacro <span class="nt" style="color: navy;">-i</span> nc0<span class="idiff left right">30</span>5.aso <span class="nt" style="color: navy;">-b</span> <span class="nt" style="color: navy;">-m</span> autofix.prt <span class="nt" style="color: navy;">-o</span> asnmacro.output</span>
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53
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<pre style="margin: 0;">+<span id="LC53" class="line" lang="shell">/usr/bin/asnmacro <span class="nt" style="color: navy;">-i</span> nc0<span class="idiff left right">22</span>5.aso <span class="nt" style="color: navy;">-b</span> <span class="nt" style="color: navy;">-m</span> autofix.prt <span class="nt" style="color: navy;">-o</span> asnmacro.output</span>
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54
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54
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<pre style="margin: 0;"> <span id="LC54" class="line" lang="shell"><span class="o" style="font-weight: 600;">[</span> <span class="nt" style="color: navy;">-s</span> asnmacro.output <span class="o" style="font-weight: 600;">]</span></span>
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55
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55
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<pre style="margin: 0;"> <span id="LC55" class="line" lang="shell"></span>
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56
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56
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<pre style="margin: 0;"> <span id="LC56" class="line" lang="shell"><span class="nb" style="color: #0086b3;">echo</span> <span class="s1" style="color: #d14;">'---asntool test---'</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="58" 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="58" 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">@@ -58,8 +58,8 @@ echo '---asntool test---'</td>
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58
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58
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<pre style="margin: 0;"> <span id="LC58" class="line" lang="shell"><span class="o" style="font-weight: 600;">[</span> <span class="nt" style="color: navy;">-s</span> asntool.output <span class="o" style="font-weight: 600;">]</span></span>
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59
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59
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<pre style="margin: 0;"> <span id="LC59" class="line" lang="shell"></span>
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<pre style="margin: 0;"> <span id="LC60" class="line" lang="shell"><span class="nb" style="color: #0086b3;">echo</span> <span class="s1" style="color: #d14;">'---cleanasn test---'</span></span>
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<pre style="margin: 0;">-<span id="LC61" class="line" lang="shell">/usr/bin/cleanasn <span class="nt" style="color: navy;">-b</span> <span class="nt" style="color: navy;">-a</span> t <span class="nt" style="color: navy;">-D</span> t <span class="nt" style="color: navy;">-i</span> nc0<span class="idiff left">305.aso </span><span class="nt" style="color: navy;"><span class="idiff">-o</span></span><span class="idiff right"> nc030</span>5_cleaned.aso</span>
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<pre style="margin: 0;">-<span id="LC62" class="line" lang="shell"><span class="o" style="font-weight: 600;">[</span> <span class="nt" style="color: navy;">-s</span> nc0<span class="idiff left right">30</span>5_cleaned.aso <span class="o" style="font-weight: 600;">]</span></span>
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<pre style="margin: 0;">+<span id="LC61" class="line" lang="shell">/usr/bin/cleanasn <span class="nt" style="color: navy;">-b</span> <span class="nt" style="color: navy;">-a</span> t <span class="nt" style="color: navy;">-D</span> t <span class="nt" style="color: navy;">-i</span> nc0<span class="idiff left">225.aso </span><span class="nt" style="color: navy;"><span class="idiff">-o</span></span><span class="idiff right"> nc022</span>5_cleaned.aso</span>
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<pre style="margin: 0;">+<span id="LC62" class="line" lang="shell"><span class="o" style="font-weight: 600;">[</span> <span class="nt" style="color: navy;">-s</span> nc0<span class="idiff left right">22</span>5_cleaned.aso <span class="o" style="font-weight: 600;">]</span></span>
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<pre style="margin: 0;"> <span id="LC63" class="line" lang="shell"></span>
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<pre style="margin: 0;"> <span id="LC64" class="line" lang="shell"><span class="nb" style="color: #0086b3;">echo</span> <span class="s1" style="color: #d14;">'---debruijn test---'</span></span>
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<pre style="margin: 0;"> <span id="LC65" class="line" lang="shell">/usr/bin/debruijn <span class="nt" style="color: navy;">-a</span> ncbistdaa <span class="nt" style="color: navy;">-n</span> 4 <span class="o" style="font-weight: 600;">></span> debruijn.output</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">@@ -69,7 +69,7 @@ echo '---gene2xml test---'</td>
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<pre style="margin: 0;"> <span id="LC69" class="line" lang="shell">/usr/bin/gene2xml <span class="nt" style="color: navy;">-b</span> <span class="nt" style="color: navy;">-i</span> dsRNA_viruses.ags <span class="nt" style="color: navy;">-o</span> dsRNA_viruses.xgs</span>
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<pre style="margin: 0;"> <span id="LC70" class="line" lang="shell"><span class="o" style="font-weight: 600;">[</span> <span class="nt" style="color: navy;">-s</span> dsRNA_viruses.xgs <span class="o" style="font-weight: 600;">]</span></span>
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<pre style="margin: 0;"> <span id="LC71" class="line" lang="shell"></span>
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<pre style="margin: 0;">-<span id="LC72" class="line" lang="shell"><span class="nb" style="color: #0086b3;">grep</span> <span class="s1" style="color: #d14;">'GI:'</span> nc0<span class="idiff left right">30</span>5.gbk | head | sed <span class="s1" style="color: #d14;">'s/.*GI://'</span> <span class="o" style="font-weight: 600;">></span> GIs.txt</span>
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<pre style="margin: 0;">+<span id="LC72" class="line" lang="shell"><span class="nb" style="color: #0086b3;">grep</span> <span class="s1" style="color: #d14;">'GI:'</span> nc0<span class="idiff left right">22</span>5.gbk | head | sed <span class="s1" style="color: #d14;">'s/.*GI://'</span> <span class="o" style="font-weight: 600;">></span> GIs.txt</span>
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<pre style="margin: 0;"> <span id="LC73" class="line" lang="shell"><span class="c" style="color: #998; font-style: italic;"># _insdseqget_ and _idfetch_ testing requires internet connection.</span></span>
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<pre style="margin: 0;"> <span id="LC74" class="line" lang="shell"><span class="c" style="color: #998; font-style: italic;"># Comment the lines below to skip the testing.</span></span>
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<pre style="margin: 0;"> <span id="LC75" class="line" lang="shell"><span class="nb" style="color: #0086b3;">echo</span> <span class="s1" style="color: #d14;">'---insdseqget test---'</span></span>
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