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<h3>
Shayan Doust pushed to branch master
at <a href="https://salsa.debian.org/med-team/covtobed">Debian Med / covtobed</a>
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<h4>
Commits:
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<ul>
<li>
<strong><a href="https://salsa.debian.org/med-team/covtobed/-/commit/3da5fe0bad7180a07700c06ac9d847a4ff571314">3da5fe0b</a></strong>
<div>
<span>by Shayan Doust</span>
<i>at 2020-06-04T16:52:26+01:00</i>
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<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Bump up standards version
</pre>
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<li>
<strong><a href="https://salsa.debian.org/med-team/covtobed/-/commit/59d4b0e2ca6441499d883b8abdac8548cc5ccaa6">59d4b0e2</a></strong>
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<span>by Shayan Doust</span>
<i>at 2020-06-04T16:54:17+01:00</i>
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<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Package dependencies
</pre>
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<strong><a href="https://salsa.debian.org/med-team/covtobed/-/commit/d789f476502b16127ca6f94aa60bf9f01b02a9b6">d789f476</a></strong>
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<span>by Shayan Doust</span>
<i>at 2020-06-04T16:56:22+01:00</i>
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<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Shouldn't ommit $(shlibs:Depends) as we are linking against C library
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<strong><a href="https://salsa.debian.org/med-team/covtobed/-/commit/c680ab9f918cc7009a183e1ae4c443398a7e35ca">c680ab9f</a></strong>
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<span>by Shayan Doust</span>
<i>at 2020-06-04T17:02:26+01:00</i>
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<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Append ITP bug in changelog
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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="#58ef006ab62b83b4bec5d81fe5b32c3b4c2d1cc2">
debian/control
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<h4>Changes:</h4>
<li id="9c96da0e9f91d7d8937b69b524702c106258f0d1">
<a href="https://salsa.debian.org/med-team/covtobed/-/compare/e0f2e3195485a21df09f778eff246c03c812c64f...c680ab9f918cc7009a183e1ae4c443398a7e35ca#9c96da0e9f91d7d8937b69b524702c106258f0d1"><strong>debian/changelog</strong></a>
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<pre style="margin: 0;"> <span id="LC1" class="line" lang="plaintext">covtobed (1.1.2+dfsg-1) UNRELEASED; urgency=medium</span>
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<pre style="margin: 0;"> <span id="LC2" class="line" lang="plaintext"></span>
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<pre style="margin: 0;">-<span id="LC3" class="line" lang="plaintext"> * Initial release (Closes: #<span class="idiff left right"><bug></span>)</span>
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<td class="diff-line-num new new_line" data-linenumber="3" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
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<pre style="margin: 0;">+<span id="LC3" class="line" lang="plaintext"> * Initial release (Closes: #<span class="idiff left right">962057</span>)</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"> -- Shayan Doust <hello@shayandoust.me> Sat, 30 May 2020 18:45:28 +0100</span></pre>
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<li id="58ef006ab62b83b4bec5d81fe5b32c3b4c2d1cc2">
<a href="https://salsa.debian.org/med-team/covtobed/-/compare/e0f2e3195485a21df09f778eff246c03c812c64f...c680ab9f918cc7009a183e1ae4c443398a7e35ca#58ef006ab62b83b4bec5d81fe5b32c3b4c2d1cc2"><strong>debian/control</strong></a>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="6" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="6" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -6,7 +6,7 @@ Priority: optional</td>
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<pre style="margin: 0;"> <span id="LC6" class="line" lang="plaintext">Build-Depends: debhelper-compat (= 13),</span>
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<pre style="margin: 0;"> <span id="LC7" class="line" lang="plaintext"> libbamtools-dev,</span>
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<pre style="margin: 0;"> <span id="LC8" class="line" lang="plaintext"> zlib1g-dev</span>
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<pre style="margin: 0;">-<span id="LC9" class="line" lang="plaintext">Standards-Version: 4.<span class="idiff left right">3</span>.0</span>
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<pre style="margin: 0;">+<span id="LC9" class="line" lang="plaintext">Standards-Version: 4.<span class="idiff left right">5</span>.0</span>
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<pre style="margin: 0;"> <span id="LC10" class="line" lang="plaintext">Vcs-Browser: https://salsa.debian.org/med-team/covtobed</span>
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<td class="diff-line-num old_line" data-linenumber="11" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
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<pre style="margin: 0;"> <span id="LC11" class="line" lang="plaintext">Vcs-Git: https://salsa.debian.org/med-team/covtobed.git</span>
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<pre style="margin: 0;"> <span id="LC12" class="line" lang="plaintext">Homepage: https://github.com/telatin/covtobed</span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="14" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
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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">@@ -14,7 +14,9 @@ Homepage: https://github.com/telatin/covtobed</td>
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<pre style="margin: 0;"> <span id="LC14" class="line" lang="plaintext">Package: covtobed</span>
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<pre style="margin: 0;"> <span id="LC15" class="line" lang="plaintext">Architecture: any</span>
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<pre style="margin: 0;"> <span id="LC16" class="line" lang="plaintext">Depends: ${shlibs:Depends},</span>
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<pre style="margin: 0;">-<span id="LC17" class="line" lang="plaintext"> ${misc:Depends}</span>
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<pre style="margin: 0;">+<span id="LC17" class="line" lang="plaintext"> ${misc:Depends},</span>
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<pre style="margin: 0;">+<span id="LC18" class="line" lang="plaintext"> bamtools,</span>
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<td class="diff-line-num new new_line" data-linenumber="19" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
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<pre style="margin: 0;">+<span id="LC19" class="line" lang="plaintext"> zlib1g</span>
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18
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<pre style="margin: 0;"> <span id="LC20" class="line" lang="plaintext">Description: convert the coverage track from a BAM file into a BED file</span>
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<td class="diff-line-num old_line" data-linenumber="19" 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">
19
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<pre style="margin: 0;"> <span id="LC21" class="line" lang="plaintext"> Reads one (or more) alignment files (sorted BAM) and prints a BED with</span>
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<pre style="margin: 0;"> <span id="LC22" class="line" lang="plaintext"> the coverage. It will join consecutive bases with the same coverage, and</span>
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