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<h3>

Jelmer Vernooĳ pushed to branch master

at <a href="https://salsa.debian.org/med-team/macs">Debian Med / macs</a>

</h3>

<h4>

Commits:

</h4>

<ul>

<li>

<strong><a href="https://salsa.debian.org/med-team/macs/commit/50c16d53bbbc440540784bd550a8f71b9b5e6746">50c16d53</a></strong>

<div>

<span>by Jelmer Vernooĳ</span>

<i>at 2018-10-24T23:04:31Z</i>

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<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Trim trailing whitespace.

Fixed-Lintian-Tags: file-contains-trailing-whitespace

Fixes lintian: file-contains-trailing-whitespace

See https://lintian.debian.org/tags/file-contains-trailing-whitespace.html for more details.

</pre>

</li>

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<h4>2 changed files:</h4>

<ul>

<li class="file-stats">

<a href="#9c96da0e9f91d7d8937b69b524702c106258f0d1">

debian/changelog

</a>

</li>

<li class="file-stats">

<a href="#58ef006ab62b83b4bec5d81fe5b32c3b4c2d1cc2">

debian/control

</a>

</li>

</ul>

<h4>Changes:</h4>

<li id="9c96da0e9f91d7d8937b69b524702c106258f0d1">

<a href="https://salsa.debian.org/med-team/macs/commit/50c16d53bbbc440540784bd550a8f71b9b5e6746#9c96da0e9f91d7d8937b69b524702c106258f0d1"><strong>debian/changelog</strong></a>

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<pre style="margin: 0;">+<span id="LC1" class="line" lang="plaintext">macs (2.1.2.1-2) UNRELEASED; urgency=medium</span>

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<pre style="margin: 0;">+<span id="LC2" class="line" lang="plaintext"></span>

</pre>

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<pre style="margin: 0;">+<span id="LC3" class="line" lang="plaintext">  * Trim trailing whitespace.</span>

</pre>

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4

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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"> -- Jelmer Vernooĳ <jelmer@debian.org>  Wed, 24 Oct 2018 23:04:31 +0000</span>

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<pre style="margin: 0;">+<span id="LC6" class="line" lang="plaintext"></span>

</pre>

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<pre style="margin: 0;"> <span id="LC7" class="line" lang="plaintext">macs (2.1.2.1-1) unstable; urgency=medium</span>

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<pre style="margin: 0;"> <span id="LC8" class="line" lang="plaintext"></span>

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<pre style="margin: 0;"> <span id="LC9" class="line" lang="plaintext">  [ Jelmer Vernooĳ ]</span>

</pre>

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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="103" 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="109" 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">@@ -103,7 +109,7 @@ macs (2.0.9.1-1ubuntu2) lucid; urgency=low</td>

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<pre style="margin: 0;"> <span id="LC109" class="line" lang="plaintext"></span>

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<pre style="margin: 0;"> <span id="LC110" class="line" lang="plaintext">  * Package for PPA</span>

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<td class="diff-line-num old_line" data-linenumber="105" 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="LC111" class="line" lang="plaintext">  * Packaged from version 2.0.9-1</span>

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<pre style="margin: 0;">-<span id="LC106" class="line" lang="plaintext">  * Changed debian/rules to override dh_auto_clean to remove *.c files<span class="idiff left right"> </span></span>

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<pre style="margin: 0;">+<span id="LC112" class="line" lang="plaintext">  * Changed debian/rules to override dh_auto_clean to remove *.c files</span>

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<pre style="margin: 0;"> <span id="LC113" class="line" lang="plaintext"></span>

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<td class="diff-line-num old_line" data-linenumber="108" 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="LC114" class="line" lang="plaintext"> -- H. Soon Gweon (Key for package building) <soonio@gmail.com>  Thu, 05 Jan 2012 13:10:02 +0000</span>

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<pre style="margin: 0;"> <span id="LC115" class="line" lang="plaintext"></span>

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</li>

<li id="58ef006ab62b83b4bec5d81fe5b32c3b4c2d1cc2">

<a href="https://salsa.debian.org/med-team/macs/commit/50c16d53bbbc440540784bd550a8f71b9b5e6746#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">@@ -22,11 +22,11 @@ Depends: ${python:Depends},</td>

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<pre style="margin: 0;"> <span id="LC22" class="line" lang="plaintext">         ${shlibs:Depends},</span>

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<pre style="margin: 0;"> <span id="LC23" class="line" lang="plaintext">         ${misc:Depends}</span>

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<pre style="margin: 0;"> <span id="LC24" class="line" lang="plaintext">Description: Model-based Analysis of ChIP-Seq on short reads sequencers</span>

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<pre style="margin: 0;">-<span id="LC25" class="line" lang="plaintext"> MACS empirically models the length of the sequenced ChIP fragments, which<span class="idiff left right"> </span></span>

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<pre style="margin: 0;">-<span id="LC26" class="line" lang="plaintext"> tends to be shorter than sonication or library construction size estimates,<span class="idiff left right"> </span></span>

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<pre style="margin: 0;">-<span id="LC27" class="line" lang="plaintext"> and uses it to improve the spatial resolution of predicted binding sites.<span class="idiff left right"> </span></span>

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<td class="diff-line-num old old_line" data-linenumber="28" 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="LC28" class="line" lang="plaintext"> MACS also uses a dynamic Poisson distribution to effectively capture local<span class="idiff left right"> </span></span>

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<pre style="margin: 0;">-<span id="LC29" class="line" lang="plaintext"> biases in the genome sequence, allowing for more sensitive and robust<span class="idiff left right"> </span></span>

</pre>

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<pre style="margin: 0;">-<span id="LC30" class="line" lang="plaintext"> prediction. MACS compares favorably to existing ChIP-Seq peak-finding<span class="idiff left right"> </span></span>

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<pre style="margin: 0;">-<span id="LC31" class="line" lang="plaintext"> algorithms, is publicly available open source, and can be used for ChIP-Seq<span class="idiff left right"> </span></span>

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<pre style="margin: 0;">+<span id="LC25" class="line" lang="plaintext"> MACS empirically models the length of the sequenced ChIP fragments, which</span>

</pre>

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<td class="diff-line-num new new_line" data-linenumber="26" 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="LC26" class="line" lang="plaintext"> tends to be shorter than sonication or library construction size estimates,</span>

</pre>

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<td class="diff-line-num new old_line" data-linenumber="32" 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="LC27" class="line" lang="plaintext"> and uses it to improve the spatial resolution of predicted binding sites.</span>

</pre>

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<td class="diff-line-num new old_line" data-linenumber="32" 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="LC28" class="line" lang="plaintext"> MACS also uses a dynamic Poisson distribution to effectively capture local</span>

</pre>

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<td class="diff-line-num new old_line" data-linenumber="32" 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="LC29" class="line" lang="plaintext"> biases in the genome sequence, allowing for more sensitive and robust</span>

</pre>

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<td class="diff-line-num new old_line" data-linenumber="32" 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="LC30" class="line" lang="plaintext"> prediction. MACS compares favorably to existing ChIP-Seq peak-finding</span>

</pre>

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<pre style="margin: 0;">+<span id="LC31" class="line" lang="plaintext"> algorithms, is publicly available open source, and can be used for ChIP-Seq</span>

</pre>

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<td class="diff-line-num old_line" data-linenumber="32" 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="diff-line-num new_line" data-linenumber="32" 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="LC32" class="line" lang="plaintext"> with or without control samples.</span></pre>

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