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<h3>
Michael R. Crusoe pushed to branch master
at <a href="https://salsa.debian.org/med-team/snakemake">Debian Med / snakemake</a>
</h3>
<h4>
Commits:
</h4>
<ul>
<li>
<strong><a href="https://salsa.debian.org/med-team/snakemake/commit/9590032b53b6fef399691bc4ceac972eac6c2a2b">9590032b</a></strong>
<div>
<span>by Michael R. Crusoe</span>
<i>at 2019-09-06T03:38:21Z</i>
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<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">don't ship pycache, .pyc
</pre>
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<strong><a href="https://salsa.debian.org/med-team/snakemake/commit/a1945ce7dbc14f4feccce5bf92ecd98015676647">a1945ce7</a></strong>
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<span>by Michael R. Crusoe</span>
<i>at 2019-09-06T04:55:26Z</i>
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<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">set $HOME to fix build on sbuild
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<h4>3 changed files:</h4>
<ul>
<li class="file-stats">
<a href="#9c96da0e9f91d7d8937b69b524702c106258f0d1">
debian/changelog
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<a href="#f5f51601866c86e59a004bd93fa415f5675be8c5">
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+
debian/clean
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<li class="file-stats">
<a href="#8756c63497c8dc39f7773438edf53b220c773f67">
debian/rules
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<h4>Changes:</h4>
<li id="9c96da0e9f91d7d8937b69b524702c106258f0d1">
<a href="https://salsa.debian.org/med-team/snakemake/compare/e8198d44850ce964298f7c1e7aab8d44b7b662f9...a1945ce7dbc14f4feccce5bf92ecd98015676647#9c96da0e9f91d7d8937b69b524702c106258f0d1"><strong>debian/changelog</strong></a>
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<pre style="margin: 0;">-<span id="LC1" class="line" lang="plaintext">snakemake (5.5.4-1) UNRELEASED; urgency=medium</span>
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="plaintext">snakemake (5.5.4-2) 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"> * set $HOME to fix build on sbuild</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"> -- Michael R. Crusoe <michael.crusoe@gmail.com> Fri, 06 Sep 2019 13:50:09 +0900</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">snakemake (5.5.4-1) unstable; urgency=medium</span>
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<pre style="margin: 0;"> <span id="LC8" class="line" lang="plaintext"></span>
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<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;">
<pre style="margin: 0;"> <span id="LC9" class="line" lang="plaintext"> [ Dylan Aïssi ]</span>
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<td class="diff-line-num new_line" data-linenumber="10" 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="LC10" class="line" lang="plaintext"> * Apply patch from Chris Lamb to make the build reproducible</span>
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<td class="diff-line-num unfold js-unfold 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">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="13" 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">@@ -7,7 +13,7 @@ snakemake (5.5.4-1) UNRELEASED; urgency=medium</td>
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<pre style="margin: 0;"> <span id="LC13" class="line" lang="plaintext"> [ Michael R. Crusoe ]</span>
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<pre style="margin: 0;"> <span id="LC14" class="line" lang="plaintext"> * New upstream release</span>
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<td class="diff-line-num new_line" data-linenumber="15" 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="LC15" class="line" lang="plaintext"> * debian/control: Add missing build-deps (as shown in errors during the</span>
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<pre style="margin: 0;">-<span id="LC10" class="line" lang="plaintext"> documenation building)</span>
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<td class="diff-line-num new new_line" data-linenumber="16" 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="LC16" class="line" lang="plaintext"> documen<span class="idiff left right">t</span>ation building)</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="LC17" class="line" lang="plaintext"> * debian/README.source: Document missing (optional?) dependencies</span>
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<pre style="margin: 0;"> <span id="LC18" class="line" lang="plaintext"> * debian/rules: Fix test invocation, as almost all tests were missed;</span>
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<pre style="margin: 0;"> <span id="LC19" class="line" lang="plaintext"> Document what is known about the skipped tests</span>
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<li id="f5f51601866c86e59a004bd93fa415f5675be8c5">
<a href="https://salsa.debian.org/med-team/snakemake/compare/e8198d44850ce964298f7c1e7aab8d44b7b662f9...a1945ce7dbc14f4feccce5bf92ecd98015676647#f5f51601866c86e59a004bd93fa415f5675be8c5"><strong>debian/clean</strong></a>
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="plaintext">fakehome/</span></pre>
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<li id="8756c63497c8dc39f7773438edf53b220c773f67">
<a href="https://salsa.debian.org/med-team/snakemake/compare/e8198d44850ce964298f7c1e7aab8d44b7b662f9...a1945ce7dbc14f4feccce5bf92ecd98015676647#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">@@ -3,6 +3,7 @@</td>
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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"># output every command that modifies files on the build system.</span>
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4
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4
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<pre style="margin: 0;"> <span id="LC4" class="line" lang="plaintext"># export DH_VERBOSE = 1</span>
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5
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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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6
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<pre style="margin: 0;">+<span id="LC6" class="line" lang="plaintext">export HOME=$(CURDIR)/fakehome</span>
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6
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7
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<pre style="margin: 0;"> <span id="LC7" class="line" lang="plaintext">export PYBUILD_NAME=snakemake</span>
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7
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8
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<pre style="margin: 0;"> <span id="LC8" class="line" lang="plaintext">export PYBUILD_DESTDIR_python3=debian/snakemake</span>
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8
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9
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<pre style="margin: 0;"> <span id="LC9" class="line" lang="plaintext">export PYBUILD_BEFORE_TEST_python3=chmod +x {dir}/bin/snakemake; cp -r {dir}/bin {dir}/tests {build_dir}</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">@@ -33,7 +34,14 @@ override_dh_auto_build:</td>
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<pre style="margin: 0;"> <span id="LC34" class="line" lang="plaintext"> PYTHONPATH=$(shell pybuild --print build_dir --interpreter python3) \</span>
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<pre style="margin: 0;"> <span id="LC35" class="line" lang="plaintext"> python3 setup.py build_sphinx</span>
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<pre style="margin: 0;"> <span id="LC36" class="line" lang="plaintext"></span>
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<pre style="margin: 0;">+<span id="LC37" class="line" lang="plaintext">override_dh_auto_install:</span>
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<pre style="margin: 0;">+<span id="LC38" class="line" lang="plaintext"> dh_auto_install</span>
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<pre style="margin: 0;">+<span id="LC39" class="line" lang="plaintext"> find . -name '__pycache__' | xargs rm -Rf</span>
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<pre style="margin: 0;">+<span id="LC40" class="line" lang="plaintext"> find . -name '*.pyc' | xargs rm -Rf</span>
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<pre style="margin: 0;">+<span id="LC41" class="line" lang="plaintext"> find debian -name '.gitignore' | xargs rm -Rf</span>
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<pre style="margin: 0;">+<span id="LC42" class="line" lang="plaintext"></span>
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<pre style="margin: 0;"> <span id="LC43" class="line" lang="plaintext">override_dh_auto_test:</span>
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37
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<pre style="margin: 0;"> <span id="LC44" class="line" lang="plaintext">ifeq (,$(filter nocheck,$(DEB_BUILD_OPTIONS)))</span>
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<pre style="margin: 0;">+<span id="LC45" class="line" lang="plaintext"> mkdir -p $(CURDIR)/fakehome</span>
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<pre style="margin: 0;"> <span id="LC46" class="line" lang="plaintext"> PYBUILD_SYSTEM=custom dh_auto_test</span>
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<pre style="margin: 0;"> <span id="LC47" class="line" lang="plaintext">endif</span></pre>
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