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<h3>
Michael R. Crusoe pushed to branch master
at <a href="https://salsa.debian.org/med-team/bcftools">Debian Med / bcftools</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/bcftools/commit/af2393138695e802124a798132526b991d475ad3">af239313</a></strong>
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<span>by Michael R. Crusoe</span>
<i>at 2019-08-06T16:46:10Z</i>
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<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">skip i386 due to lack of tabix/libhts
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<strong><a href="https://salsa.debian.org/med-team/bcftools/commit/2d79916316c5e451e6ba5aa3838b954d3ca3299d">2d799163</a></strong>
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<span>by Michael R. Crusoe</span>
<i>at 2019-08-06T17:32:45Z</i>
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<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">don't parallelize the tests
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<h4>4 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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<a href="#8756c63497c8dc39f7773438edf53b220c773f67">
debian/rules
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<li class="file-stats">
<a href="#83223a554d33ba7e1888274ff8ac43adb8147ba0">
debian/tests/control
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<h4>Changes:</h4>
<li id="9c96da0e9f91d7d8937b69b524702c106258f0d1">
<a href="https://salsa.debian.org/med-team/bcftools/compare/2195caeaaa363f4c308bb018e568fbe17607b0c4...2d79916316c5e451e6ba5aa3838b954d3ca3299d#9c96da0e9f91d7d8937b69b524702c106258f0d1"><strong>debian/changelog</strong></a>
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<pre style="margin: 0;">-<span id="LC1" class="line" lang="plaintext">bcftools (1.9-2) <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">bcftools (1.9-2) <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"> * Team upload.</span>
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<pre style="margin: 0;"> <span id="LC4" class="line" lang="plaintext"> * Remove now-unneeded lintian-override</span>
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<pre style="margin: 0;">-<span id="LC5" class="line" lang="plaintext"> * Re<span class="idiff left right">duce test failures on i386 from 113 to 18 by compiling with -msse</span></span>
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<pre style="margin: 0;">-<span id="LC6" class="line" lang="plaintext"> <span class="idiff left right"> and -mfpmath=sse</span></span>
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<pre style="margin: 0;">+<span id="LC5" class="line" lang="plaintext"> * Re<span class="idiff left right">move i386 as libhts/tabix has dropped it</span></span>
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<pre style="margin: 0;">+<span id="LC6" class="line" lang="plaintext"> <span class="idiff left right">* Temporarily disable failing plugins tests</span></span>
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<pre style="margin: 0;"> <span id="LC7" class="line" lang="plaintext"> * Remove trailing whitespace in debian/copyright</span>
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<pre style="margin: 0;"> <span id="LC8" class="line" lang="plaintext"> * Standards-Version: 4.3.0, no changes needed</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"> -- Michael R. Crusoe <michael.crusoe@gmail.com> <span class="idiff left right">Wed, 16 Jan 2019 01:18:22 -08</span>00</span>
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<pre style="margin: 0;">+<span id="LC10" class="line" lang="plaintext"> -- Michael R. Crusoe <michael.crusoe@gmail.com> <span class="idiff left right">Tue, 06 Aug 2019 19:32:16 +02</span>00</span>
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<pre style="margin: 0;"> <span id="LC11" class="line" lang="plaintext"></span>
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<pre style="margin: 0;"> <span id="LC12" class="line" lang="plaintext">bcftools (1.9-1) unstable; urgency=medium</span>
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<pre style="margin: 0;"> <span id="LC13" class="line" lang="plaintext"></span>
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<li id="58ef006ab62b83b4bec5d81fe5b32c3b4c2d1cc2">
<a href="https://salsa.debian.org/med-team/bcftools/compare/2195caeaaa363f4c308bb018e568fbe17607b0c4...2d79916316c5e451e6ba5aa3838b954d3ca3299d#58ef006ab62b83b4bec5d81fe5b32c3b4c2d1cc2"><strong>debian/control</strong></a>
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<td class="diff-line-num unfold js-unfold old_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="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">@@ -16,7 +16,7 @@ Vcs-Git: https://salsa.debian.org/med-team/bcftools.git</td>
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<pre style="margin: 0;"> <span id="LC16" class="line" lang="plaintext">Homepage: http://samtools.github.io/bcftools/</span>
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<pre style="margin: 0;"> <span id="LC17" class="line" lang="plaintext"></span>
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<pre style="margin: 0;"> <span id="LC18" class="line" lang="plaintext">Package: bcftools</span>
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<pre style="margin: 0;">-<span id="LC19" class="line" lang="plaintext">Architecture: any</span>
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<pre style="margin: 0;">+<span id="LC19" class="line" lang="plaintext">Architecture: any<span class="idiff left right">-amd64 arm64 armel armhf mips mips64el mipsel ppc64el s390x alpha hppa ia64 m68k powerpc powerpcspe ppc64 riscv64 sh4 sparc64 x32</span></span>
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20
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<pre style="margin: 0;"> <span id="LC20" class="line" lang="plaintext">Depends: ${shlibs:Depends},</span>
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<pre style="margin: 0;"> <span id="LC21" class="line" lang="plaintext"> ${misc:Depends},</span>
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22
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<pre style="margin: 0;"> <span id="LC22" class="line" lang="plaintext"> ${perl:Depends}</span>
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<a href="https://salsa.debian.org/med-team/bcftools/compare/2195caeaaa363f4c308bb018e568fbe17607b0c4...2d79916316c5e451e6ba5aa3838b954d3ca3299d#8756c63497c8dc39f7773438edf53b220c773f67"><strong>debian/rules</strong></a>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -2,9 +2,6 @@</td>
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2
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<pre style="margin: 0;"> <span id="LC2" class="line" lang="plaintext"></span>
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3
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<pre style="margin: 0;"> <span id="LC3" class="line" lang="plaintext">#export DH_VERBOSE = 1</span>
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<pre style="margin: 0;"> <span id="LC4" class="line" lang="plaintext">#include /usr/share/dpkg/default.mk</span>
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5
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<pre style="margin: 0;">-<span id="LC5" class="line" lang="plaintext">ifneq (,$(filter $(DEB_HOST_ARCH),i386 kfreebsd-i386 hurd-i386))</span>
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<pre style="margin: 0;">-<span id="LC6" class="line" lang="plaintext"> export DEB_CFLAGS_MAINT_APPEND=-msse -mfpmath=sse</span>
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7
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<pre style="margin: 0;">-<span id="LC7" class="line" lang="plaintext">endif</span>
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8
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5
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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">%:</span>
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<pre style="margin: 0;"> <span id="LC7" class="line" lang="plaintext"> dh $@</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">@@ -40,3 +37,8 @@ override_dh_install:</td>
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<pre style="margin: 0;"> <span id="LC37" class="line" lang="plaintext"> for pscript in `grep -Rl '#!/usr/bin/env \+perl' debian/*` ; do \</span>
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<pre style="margin: 0;"> <span id="LC38" class="line" lang="plaintext"> sed -i '1s?#!/usr/bin/env \+perl?#!/usr/bin/perl?' $${pscript} ; \</span>
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<pre style="margin: 0;"> <span id="LC39" class="line" lang="plaintext"> done</span>
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<pre style="margin: 0;">+<span id="LC40" class="line" lang="plaintext"></span>
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<pre style="margin: 0;">+<span id="LC41" class="line" lang="plaintext">override_dh_auto_test:</span>
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42
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<pre style="margin: 0;">+<span id="LC42" class="line" lang="plaintext">ifeq (,$(filter nocheck,$(DEB_BUILD_OPTIONS)))</span>
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43
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<pre style="margin: 0;">+<span id="LC43" class="line" lang="plaintext"> make test-no-plugins VERBOSE=1</span>
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44
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<pre style="margin: 0;">+<span id="LC44" class="line" lang="plaintext">endif</span></pre>
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<a href="https://salsa.debian.org/med-team/bcftools/compare/2195caeaaa363f4c308bb018e568fbe17607b0c4...2d79916316c5e451e6ba5aa3838b954d3ca3299d#83223a554d33ba7e1888274ff8ac43adb8147ba0"><strong>debian/tests/control</strong></a>
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1
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1
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<pre style="margin: 0;"> <span id="LC1" class="line" lang="plaintext">Test-Command:</span>
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2
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<pre style="margin: 0;">-<span id="LC2" class="line" lang="plaintext"> ln -s /usr/bin/bcftools bcftools &&</span>
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2
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<pre style="margin: 0;">+<span id="LC2" class="line" lang="plaintext"> <span class="idiff left right">mv -f bcftools bcftools.orig || /bin/true; </span>ln -s /usr/bin/bcftools bcftools &&</span>
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3
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3
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<pre style="margin: 0;"> <span id="LC3" class="line" lang="plaintext"> ./test/test.pl</span>
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<td class="diff-line-num old old_line" data-linenumber="4" 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">
4
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<pre style="margin: 0;">-<span id="LC4" class="line" lang="plaintext"> --plugins</span>
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5
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4
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<pre style="margin: 0;"> <span id="LC4" class="line" lang="plaintext"> --exec bgzip=/usr/bin/bgzip</span>
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6
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<pre style="margin: 0;">-<span id="LC6" class="line" lang="plaintext"> --exec tabix=/usr/bin/tabix</span>
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<td class="diff-line-num new old_line" data-linenumber="7" 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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<td class="diff-line-num new new_line" data-linenumber="5" 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">
5
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<pre style="margin: 0;">+<span id="LC5" class="line" lang="plaintext"> --exec tabix=/usr/bin/tabix<span class="idiff left right"> && mv -f bcftools.orig bcftools</span></span>
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<td class="diff-line-num old_line" 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">
7
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<td class="diff-line-num 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">
6
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<pre style="margin: 0;"> <span id="LC6" class="line" lang="plaintext">Depends:</span>
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<td class="diff-line-num old_line" 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">
8
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7
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<pre style="margin: 0;"> <span id="LC7" class="line" lang="plaintext"> @,</span>
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9
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8
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<pre style="margin: 0;"> <span id="LC8" class="line" lang="plaintext"> tabix,</span>
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