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<h3>
Pierre Gruet pushed to branch master
at <a href="https://salsa.debian.org/med-team/sepp">Debian Med / sepp</a>
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<h4>
Commits:
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<ul>
<li>
<strong><a href="https://salsa.debian.org/med-team/sepp/-/commit/edfbdeb5b9999b4e93a4970e54d20bd599a2a714">edfbdeb5</a></strong>
<div>
<span>by Pierre Gruet</span>
<i>at 2021-09-29T15:04:18+02:00</i>
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<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Not advertising tipp at the moment, it has not exited the NEW queue yet
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<li>
<strong><a href="https://salsa.debian.org/med-team/sepp/-/commit/dc541e6886fd2b5bd35e9abb024ff682612d11bd">dc541e68</a></strong>
<div>
<span>by Pierre Gruet</span>
<i>at 2021-09-29T15:10:39+02:00</i>
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<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Trim trailing whitespace.
Changes-By: lintian-brush
Fixes: lintian: trailing-whitespace
See-also: https://lintian.debian.org/tags/trailing-whitespace.html
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<strong><a href="https://salsa.debian.org/med-team/sepp/-/commit/8f23da4dd72117ed39b7d98913e3cd536cf10e2a">8f23da4d</a></strong>
<div>
<span>by Pierre Gruet</span>
<i>at 2021-09-29T18:41:52+02:00</i>
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<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Upload to unstable
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<h4>3 changed files:</h4>
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<li class="file-stats">
<a href="#9c96da0e9f91d7d8937b69b524702c106258f0d1">
debian/changelog
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<a href="#58ef006ab62b83b4bec5d81fe5b32c3b4c2d1cc2">
debian/control
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<a href="#9109a4b2f35a36bf677a6da0f4cb0a05a4729a93">
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−
debian/sepp.NEWS
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<h4>Changes:</h4>
<li id="9c96da0e9f91d7d8937b69b524702c106258f0d1">
<a href="https://salsa.debian.org/med-team/sepp/-/compare/141f87ee53a14a19c7d376a03e81ea47377d2cc6...8f23da4dd72117ed39b7d98913e3cd536cf10e2a#9c96da0e9f91d7d8937b69b524702c106258f0d1"><strong>debian/changelog</strong></a>
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<pre style="margin: 0;">-<span id="LC1" class="line" lang="plaintext">sepp (4.5.1+dfsg-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">sepp (4.5.1+dfsg-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"> [Pierre Gruet]</span>
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<td class="new_line diff-line-num" data-linenumber="4" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
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<pre style="margin: 0;"> <span id="LC4" class="line" lang="plaintext"> * New upstream version 4.5.1+dfsg</span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="6" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="6" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -6,7 +6,6 @@ sepp (4.5.1+dfsg-1) UNRELEASED; urgency=medium</td>
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<pre style="margin: 0;"> <span id="LC6" class="line" lang="plaintext"> * tipp is now shipped in another package:</span>
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<td class="new_line diff-line-num" data-linenumber="7" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
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<pre style="margin: 0;"> <span id="LC7" class="line" lang="plaintext"> - deleting information related to tipp in the debian/ folder</span>
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<td class="old_line diff-line-num" data-linenumber="8" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
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<pre style="margin: 0;"> <span id="LC8" class="line" lang="plaintext"> - adding d/sepp.maintscript to remove /etc/sepp/tipp/config</span>
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<pre style="margin: 0;">-<span id="LC9" class="line" lang="plaintext"> - providing a NEWS file to inform users that tipp now has its own package</span>
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<td class="old_line diff-line-num" data-linenumber="10" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
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<pre style="margin: 0;"> <span id="LC9" class="line" lang="plaintext"> * Raising Standards version to 4.6.0 (no change)</span>
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<td class="old_line diff-line-num" data-linenumber="11" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
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<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;">
<pre style="margin: 0;"> <span id="LC10" class="line" lang="plaintext"> * Refreshing patches, deleting three upstreamed ones</span>
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<pre style="margin: 0;"> <span id="LC11" class="line" lang="plaintext"> * Using the Debian path of hmmbuild in the test testUPP</span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="17" 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="16" 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">@@ -17,7 +16,7 @@ sepp (4.5.1+dfsg-1) UNRELEASED; urgency=medium</td>
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<pre style="margin: 0;"> <span id="LC16" class="line" lang="plaintext"> [Steffen Moeller]</span>
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<pre style="margin: 0;"> <span id="LC17" class="line" lang="plaintext"> * Fixed omitted invocation of unversioned 'python' in run-sepp.sh</span>
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<pre style="margin: 0;"> <span id="LC18" class="line" lang="plaintext"></span>
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<pre style="margin: 0;">-<span id="LC20" class="line" lang="plaintext"> -- Pierre Gruet <pgt@debian.org> <span class="idiff left">Mon</span>, 2<span class="idiff">7</span> Sep 2021 17:<span class="idiff">28</span>:3<span class="idiff right">4</span> +0200</span>
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<pre style="margin: 0;">+<span id="LC19" class="line" lang="plaintext"> -- Pierre Gruet <pgt@debian.org> <span class="idiff left">Wed</span>, 2<span class="idiff">9</span> Sep 2021 17:<span class="idiff">16</span>:3<span class="idiff right">3</span> +0200</span>
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<pre style="margin: 0;"> <span id="LC20" class="line" lang="plaintext"></span>
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<pre style="margin: 0;"> <span id="LC21" class="line" lang="plaintext">sepp (4.3.10+dfsg-5) unstable; urgency=medium</span>
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<pre style="margin: 0;"> <span id="LC22" class="line" lang="plaintext"></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">@@ -34,7 +33,7 @@ sepp (4.3.10+dfsg-4) unstable; urgency=medium</td>
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<pre style="margin: 0;"> <span id="LC33" class="line" lang="plaintext"> * d/rules clean: Allowing for repeated builds cleaning *.jar *.class</span>
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<pre style="margin: 0;"> <span id="LC34" class="line" lang="plaintext"></span>
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<pre style="margin: 0;"> <span id="LC35" class="line" lang="plaintext"> -- Steffen Moeller <moeller@debian.org> Sat, 12 Dec 2020 19:39:54 +0100</span>
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<pre style="margin: 0;">-<span id="LC37" class="line" lang="plaintext"><span class="idiff left right"> </span></span>
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<pre style="margin: 0;">+<span id="LC36" class="line" lang="plaintext"></span>
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<pre style="margin: 0;"> <span id="LC37" class="line" lang="plaintext">sepp (4.3.10+dfsg-3) unstable; urgency=medium</span>
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<pre style="margin: 0;"> <span id="LC38" class="line" lang="plaintext"></span>
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<pre style="margin: 0;"> <span id="LC39" class="line" lang="plaintext"> * Team upload.</span>
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<a href="https://salsa.debian.org/med-team/sepp/-/compare/141f87ee53a14a19c7d376a03e81ea47377d2cc6...8f23da4dd72117ed39b7d98913e3cd536cf10e2a#58ef006ab62b83b4bec5d81fe5b32c3b4c2d1cc2"><strong>debian/control</strong></a>
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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">@@ -33,7 +33,6 @@ Depends: ${shlibs:Depends},</td>
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<pre style="margin: 0;"> <span id="LC33" class="line" lang="plaintext"> libgoogle-gson-java,</span>
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<pre style="margin: 0;"> <span id="LC34" class="line" lang="plaintext"> libjson-java,</span>
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<pre style="margin: 0;"> <span id="LC35" class="line" lang="plaintext"> ncbi-blast+</span>
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<pre style="margin: 0;">-<span id="LC36" class="line" lang="plaintext">Suggests: tipp</span>
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<pre style="margin: 0;"> <span id="LC36" class="line" lang="plaintext">Description: phylogeny with ensembles of Hidden Markov Models</span>
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<pre style="margin: 0;"> <span id="LC37" class="line" lang="plaintext"> The tool SEPP implementing these methods uses ensembles of Hidden Markov</span>
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<pre style="margin: 0;"> <span id="LC38" class="line" lang="plaintext"> Models (HMMs) in different ways, each focusing on a different problem.</span>
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<a href="https://salsa.debian.org/med-team/sepp/-/compare/141f87ee53a14a19c7d376a03e81ea47377d2cc6...8f23da4dd72117ed39b7d98913e3cd536cf10e2a#9109a4b2f35a36bf677a6da0f4cb0a05a4729a93"><strong>debian/sepp.NEWS</strong>
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<pre style="margin: 0;">-<span id="LC1" class="line" lang="plaintext">sepp (4.5.1+dfsg-1) unstable; urgency=medium</span>
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<pre style="margin: 0;">-<span id="LC2" class="line" lang="plaintext"></span>
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<pre style="margin: 0;">-<span id="LC3" class="line" lang="plaintext"> The scripts</span>
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<pre style="margin: 0;">-<span id="LC4" class="line" lang="plaintext"> - run_abundance.py</span>
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<pre style="margin: 0;">-<span id="LC5" class="line" lang="plaintext"> - run_tipp.py</span>
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<pre style="margin: 0;">-<span id="LC6" class="line" lang="plaintext"> - run_tipp_tool.py</span>
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<pre style="margin: 0;">-<span id="LC7" class="line" lang="plaintext"> are no longer provided by the sepp package. Instead, they are shipped by</span>
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<pre style="margin: 0;">-<span id="LC8" class="line" lang="plaintext"> the tipp package. If you use them, you should consider installing tipp.</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="LC10" class="line" lang="plaintext"> -- Pierre Gruet <pgt@debian.org> Mon, 27 Sep 2021 18:22:49 +0200</span></pre>
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