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<h3>
Étienne Mollier pushed to branch upstream
at <a href="https://salsa.debian.org/med-team/python-bcbio-gff">Debian Med / python-bcbio-gff</a>
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<h4>
Commits:
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<strong><a href="https://salsa.debian.org/med-team/python-bcbio-gff/-/commit/912c8c8568a6702c5ce29334819a47e8827990f0">912c8c85</a></strong>
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<span>by Étienne Mollier</span>
<i>at 2022-01-16T16:29:22+01:00</i>
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<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">New upstream version 0.6.9</pre>
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<h4>4 changed files:</h4>
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<a href="#ba3404825a4d349f45211497986428bd4b75a757">
BCBio/GFF/GFFParser.py
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<a href="#377317303b32a87f51356a964b30d05b7cf78ba3">
BCBio/GFF/__init__.py
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<a href="#7d26833a43d8865f6d9679068f6f9ee7d6e13dcf">
PKG-INFO
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<a href="#788d776bfe907f02f738f7115e219184170cb4f7">
bcbio_gff.egg-info/PKG-INFO
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<h4>Changes:</h4>
<li id="ba3404825a4d349f45211497986428bd4b75a757">
<a href="https://salsa.debian.org/med-team/python-bcbio-gff/-/commit/912c8c8568a6702c5ce29334819a47e8827990f0#ba3404825a4d349f45211497986428bd4b75a757"><strong>BCBio/GFF/GFFParser.py</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">@@ -406,7 +406,7 @@ class _AbstractMapReduceGFF:</td>
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<pre style="margin: 0;"> <span id="LC406" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">find_id</span> <span class="ow" style="font-weight: 600;">in</span> <span class="n" style="color: #333;">base</span><span class="p">:</span></span>
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<pre style="margin: 0;"> <span id="LC407" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">find_id</span></span>
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<pre style="margin: 0;"> <span id="LC408" class="line" lang="python"> <span class="c1" style="color: #998; font-style: italic;"># NCBI style IDs in find_id</span></span>
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<pre style="margin: 0;">-<span id="LC409" class="line" lang="python"> <span class="k" style="font-weight: 600;">elif</span> <span class="n" style="color: #333;">find_id</span><span class="p">.</span><span class="n" style="color: #333;">find</span><span class="p">(</span><span class="s" style="color: #d14;">"|"</span><span class="p">)</span> <span class="o" style="font-weight: 600;">></span> <span class="mi" style="color: #099;">0</span><span class="p">:</span></span>
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<pre style="margin: 0;">+<span id="LC409" class="line" lang="python"> <span class="k" style="font-weight: 600;">elif</span> <span class="n" style="color: #333;"><span class="idiff left">find_id</span></span><span class="idiff"> </span><span class="ow" style="font-weight: 600;"><span class="idiff">and</span></span><span class="idiff right"> </span><span class="n" style="color: #333;">find_id</span><span class="p">.</span><span class="n" style="color: #333;">find</span><span class="p">(</span><span class="s" style="color: #d14;">"|"</span><span class="p">)</span> <span class="o" style="font-weight: 600;">></span> <span class="mi" style="color: #099;">0</span><span class="p">:</span></span>
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<pre style="margin: 0;"> <span id="LC410" class="line" lang="python"> <span class="k" style="font-weight: 600;">for</span> <span class="n" style="color: #333;">test_id</span> <span class="ow" style="font-weight: 600;">in</span> <span class="p">[</span><span class="n" style="color: #333;">x</span><span class="p">.</span><span class="n" style="color: #333;">strip</span><span class="p">()</span> <span class="k" style="font-weight: 600;">for</span> <span class="n" style="color: #333;">x</span> <span class="ow" style="font-weight: 600;">in</span> <span class="n" style="color: #333;">find_id</span><span class="p">.</span><span class="n" style="color: #333;">split</span><span class="p">(</span><span class="s" style="color: #d14;">"|"</span><span class="p">)[</span><span class="mi" style="color: #099;">1</span><span class="p">:]]:</span></span>
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<pre style="margin: 0;"> <span id="LC411" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">test_id</span> <span class="ow" style="font-weight: 600;">and</span> <span class="n" style="color: #333;">test_id</span> <span class="ow" style="font-weight: 600;">in</span> <span class="n" style="color: #333;">base</span><span class="p">:</span></span>
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<pre style="margin: 0;"> <span id="LC412" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">test_id</span></span>
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<li id="377317303b32a87f51356a964b30d05b7cf78ba3">
<a href="https://salsa.debian.org/med-team/python-bcbio-gff/-/commit/912c8c8568a6702c5ce29334819a47e8827990f0#377317303b32a87f51356a964b30d05b7cf78ba3"><strong>BCBio/GFF/__init__.py</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">@@ -3,4 +3,4 @@</td>
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<pre style="margin: 0;"> <span id="LC3" class="line" lang="python"><span class="kn" style="font-weight: 600;">from</span> <span class="nn" style="color: #555;">BCBio.GFF.GFFParser</span> <span class="kn" style="font-weight: 600;">import</span> <span class="n" style="color: #333;">GFFParser</span><span class="p">,</span> <span class="n" style="color: #333;">DiscoGFFParser</span><span class="p">,</span> <span class="n" style="color: #333;">GFFExaminer</span><span class="p">,</span> <span class="n" style="color: #333;">parse</span><span class="p">,</span> <span class="n" style="color: #333;">parse_simple</span></span>
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<pre style="margin: 0;"> <span id="LC4" class="line" lang="python"><span class="kn" style="font-weight: 600;">from</span> <span class="nn" style="color: #555;">BCBio.GFF.GFFOutput</span> <span class="kn" style="font-weight: 600;">import</span> <span class="n" style="color: #333;">GFF3Writer</span><span class="p">,</span> <span class="n" style="color: #333;">write</span></span>
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<pre style="margin: 0;"> <span id="LC5" class="line" lang="python"></span>
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<pre style="margin: 0;">-<span id="LC6" class="line" lang="python"><span class="n" style="color: #333;">__version__</span> <span class="o" style="font-weight: 600;">=</span> <span class="s" style="color: #d14;">"0.6.<span class="idiff left right">8</span>"</span></span></pre>
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<pre style="margin: 0;">+<span id="LC6" class="line" lang="python"><span class="n" style="color: #333;">__version__</span> <span class="o" style="font-weight: 600;">=</span> <span class="s" style="color: #d14;">"0.6.<span class="idiff left right">9</span>"</span></span></pre>
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<a href="https://salsa.debian.org/med-team/python-bcbio-gff/-/commit/912c8c8568a6702c5ce29334819a47e8827990f0#7d26833a43d8865f6d9679068f6f9ee7d6e13dcf"><strong>PKG-INFO</strong></a>
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<pre style="margin: 0;"> <span id="LC1" class="line" lang="plaintext">Metadata-Version: 1.0</span>
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<pre style="margin: 0;"> <span id="LC2" class="line" lang="plaintext">Name: bcbio-gff</span>
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<pre style="margin: 0;">-<span id="LC3" class="line" lang="plaintext">Version: 0.6.<span class="idiff left right">8</span></span>
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<pre style="margin: 0;">+<span id="LC3" class="line" lang="plaintext">Version: 0.6.<span class="idiff left right">9</span></span>
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<pre style="margin: 0;"> <span id="LC4" class="line" lang="plaintext">Summary: Read and write Generic Feature Format (GFF) with Biopython integration.</span>
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<pre style="margin: 0;"> <span id="LC5" class="line" lang="plaintext">Home-page: https://github.com/chapmanb/bcbb/tree/master/gff</span>
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<pre style="margin: 0;"> <span id="LC6" class="line" lang="plaintext">Author: Brad Chapman</span>
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<a href="https://salsa.debian.org/med-team/python-bcbio-gff/-/commit/912c8c8568a6702c5ce29334819a47e8827990f0#788d776bfe907f02f738f7115e219184170cb4f7"><strong>bcbio_gff.egg-info/PKG-INFO</strong></a>
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<pre style="margin: 0;"> <span id="LC1" class="line" lang="plaintext">Metadata-Version: 1.0</span>
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<pre style="margin: 0;"> <span id="LC2" class="line" lang="plaintext">Name: bcbio-gff</span>
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<pre style="margin: 0;">-<span id="LC3" class="line" lang="plaintext">Version: 0.6.<span class="idiff left right">8</span></span>
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3
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<pre style="margin: 0;">+<span id="LC3" class="line" lang="plaintext">Version: 0.6.<span class="idiff left right">9</span></span>
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4
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<pre style="margin: 0;"> <span id="LC4" class="line" lang="plaintext">Summary: Read and write Generic Feature Format (GFF) with Biopython integration.</span>
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5
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<pre style="margin: 0;"> <span id="LC5" class="line" lang="plaintext">Home-page: https://github.com/chapmanb/bcbb/tree/master/gff</span>
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6
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<pre style="margin: 0;"> <span id="LC6" class="line" lang="plaintext">Author: Brad Chapman</span>
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