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<h3>
Nilesh Patra pushed to branch master
at <a href="https://salsa.debian.org/med-team/cyvcf2">Debian Med / cyvcf2</a>
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<h4>
Commits:
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<ul>
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<strong><a href="https://salsa.debian.org/med-team/cyvcf2/-/commit/842efd6f53d1bcc9e0839b0669b8260f7f23118e">842efd6f</a></strong>
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<span>by Nilesh Patra</span>
<i>at 2021-01-26T23:36:36+05:30</i>
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<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Attempt fixing i386 FTBFS with skipping a test that ends up with NaN values
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<strong><a href="https://salsa.debian.org/med-team/cyvcf2/-/commit/96df1e642ef950049cbdd1b826fac86cf2a4bfee">96df1e64</a></strong>
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<span>by Nilesh Patra</span>
<i>at 2021-01-26T23:37:33+05:30</i>
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<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Update changelog
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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="#dbd7767123e22159c0b72b2782db4dddedf5dfd8">
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+
debian/patches/i386.patch
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<li class="file-stats">
<a href="#bc34014ab4b9a49dd7a27bdd8d352912607c3a96">
debian/patches/series
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<h4>Changes:</h4>
<li id="9c96da0e9f91d7d8937b69b524702c106258f0d1">
<a href="https://salsa.debian.org/med-team/cyvcf2/-/compare/461002ec20796a52081bd5a4e3aa717e4dbf0d8a...96df1e642ef950049cbdd1b826fac86cf2a4bfee#9c96da0e9f91d7d8937b69b524702c106258f0d1"><strong>debian/changelog</strong></a>
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="plaintext">cyvcf2 (0.30.4-3) 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"> * Attempt fixing i386 FTBFS with skipping</span>
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<pre style="margin: 0;">+<span id="LC4" class="line" lang="plaintext"> a test that ends up with NaN values</span>
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<pre style="margin: 0;">+<span id="LC5" class="line" lang="plaintext"></span>
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<pre style="margin: 0;">+<span id="LC6" class="line" lang="plaintext"> -- Nilesh Patra <npatra974@gmail.com> Tue, 26 Jan 2021 23:36:46 +0530</span>
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<pre style="margin: 0;">+<span id="LC7" class="line" lang="plaintext"></span>
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<pre style="margin: 0;"> <span id="LC8" class="line" lang="plaintext">cyvcf2 (0.30.4-2) unstable; urgency=medium</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"> * Pull Upstream PR to fix ppc64el build</span>
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<li id="dbd7767123e22159c0b72b2782db4dddedf5dfd8">
<a href="https://salsa.debian.org/med-team/cyvcf2/-/compare/461002ec20796a52081bd5a4e3aa717e4dbf0d8a...96df1e642ef950049cbdd1b826fac86cf2a4bfee#dbd7767123e22159c0b72b2782db4dddedf5dfd8"><strong>debian/patches/i386.patch</strong></a>
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="diff"><span class="p">Description: Skip test on i386 because the file ends up with a few NaN values due to exceeding ranges, hence skipping</span></span>
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<pre style="margin: 0;">+<span id="LC2" class="line" lang="diff"><span class="p">Author: Nilesh Patra <npatra974@gmail.com></span></span>
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<pre style="margin: 0;">+<span id="LC3" class="line" lang="diff"><span class="p">Last-Update: 2021-01-26</span></span>
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<pre style="margin: 0;">+<span id="LC4" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">--- a/cyvcf2/tests/test_reader.py</span></span>
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<pre style="margin: 0;">+<span id="LC5" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+++ b/cyvcf2/tests/test_reader.py</span></span>
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<pre style="margin: 0;">+<span id="LC6" class="line" lang="diff"><span class="p">@@ -12,6 +12,8 @@</span></span>
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<pre style="margin: 0;">+<span id="LC7" class="line" lang="diff"> except ImportError:</span>
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<pre style="margin: 0;">+<span id="LC8" class="line" lang="diff"> from pathlib2 import Path # python 2 backport</span>
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<pre style="margin: 0;">+<span id="LC9" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC10" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+import platform</span></span>
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<pre style="margin: 0;">+<span id="LC11" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+import unittest</span></span>
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<pre style="margin: 0;">+<span id="LC12" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC13" class="line" lang="diff"> HERE = os.path.dirname(__file__)</span>
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<pre style="margin: 0;">+<span id="LC14" class="line" lang="diff"> VCF_PATH = os.path.join(HERE, "test.vcf.gz")</span>
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<pre style="margin: 0;">+<span id="LC15" class="line" lang="diff"><span class="p">@@ -1131,6 +1133,8 @@</span></span>
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<pre style="margin: 0;">+<span id="LC16" class="line" lang="diff"> vcf.seqlens</span>
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<pre style="margin: 0;">+<span id="LC17" class="line" lang="diff"> assert isinstance(ae.exception, AttributeError)</span>
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<pre style="margin: 0;">+<span id="LC18" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC19" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+@unittest.skipIf((platform.uname().machine == 'i386' or platform.uname().machine == 'x86_64') and platform.architecture()[0] == '32bit', \</span></span>
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<pre style="margin: 0;">+<span id="LC20" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+ reason="The file ends up with a few NaN values on i386 due to exceeding ranges, hence skipping")</span></span>
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<pre style="margin: 0;">+<span id="LC21" class="line" lang="diff"> def test_set_unknown_format():</span>
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<pre style="margin: 0;">+<span id="LC22" class="line" lang="diff"> vcf = VCF(VCF_PATH)</span>
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<pre style="margin: 0;">+<span id="LC23" class="line" lang="diff"> vcf.add_format_to_header({'ID':'NEW', 'Type':'Float', 'Number':1, 'Description':'...'})</span></pre>
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<a href="https://salsa.debian.org/med-team/cyvcf2/-/compare/461002ec20796a52081bd5a4e3aa717e4dbf0d8a...96df1e642ef950049cbdd1b826fac86cf2a4bfee#bc34014ab4b9a49dd7a27bdd8d352912607c3a96"><strong>debian/patches/series</strong></a>
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<pre style="margin: 0;"> <span id="LC1" class="line" lang="plaintext">add_htslib_link_dependency.patch</span>
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<pre style="margin: 0;"> <span id="LC2" class="line" lang="plaintext">#spelling</span>
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3
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<pre style="margin: 0;"> <span id="LC3" class="line" lang="plaintext">188.patch</span>
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<pre style="margin: 0;">+<span id="LC4" class="line" lang="plaintext">i386.patch</span></pre>
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