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<h3>
Andreas Tille pushed to branch master
at <a href="https://salsa.debian.org/med-team/python-pbcore">Debian Med / python-pbcore</a>
</h3>
<h4>
Commits:
</h4>
<ul>
<li>
<strong><a href="https://salsa.debian.org/med-team/python-pbcore/-/commit/f671f9be7f8a5e7a472154caad59f2f38183beb9">f671f9be</a></strong>
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<span>by Andreas Tille</span>
<i>at 2021-12-23T10:26:56+01:00</i>
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<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Attempt to enhance creation of documentation to address bug #919052
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<strong><a href="https://salsa.debian.org/med-team/python-pbcore/-/commit/0325d76a8c5cc56d4a65827b0d9bf718ae6ca573">0325d76a</a></strong>
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<span>by Andreas Tille</span>
<i>at 2021-12-23T10:27:53+01:00</i>
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<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">abandon pyxb, use xmlschema for validation if installed
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<li>
<strong><a href="https://salsa.debian.org/med-team/python-pbcore/-/commit/a6e20c9798343b99701e7086e09836e7ee7e0f11">a6e20c97</a></strong>
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<span>by Andreas Tille</span>
<i>at 2021-12-23T10:47:48+01:00</i>
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<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Why is dh_auto_test trying so hard to install wheel despite it is available?
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<h4>6 changed files:</h4>
<ul>
<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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<li class="file-stats">
<a href="#1b23313bd3f1f57520aebc03684b1b96cdb46daa">
<span class="new-file">
+
debian/patches/b24746790c7105212e45dc2f40115d231bd8baae.patch
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<li class="file-stats">
<a href="#b54f95ceed6a4d4b9631dca4ea08d40175072c74">
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+
debian/patches/do_not_call_pip_to_fetch_wheel.patch
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<a href="#bc34014ab4b9a49dd7a27bdd8d352912607c3a96">
debian/patches/series
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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/python-pbcore/-/compare/b8db011dcaea3c6eb07ca0509049f07a23f93b01...a6e20c9798343b99701e7086e09836e7ee7e0f11#9c96da0e9f91d7d8937b69b524702c106258f0d1"><strong>debian/changelog</strong></a>
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<pre style="margin: 0;"> <span id="LC1" class="line" lang="plaintext">python-pbcore (2.1.2+dfsg-1) UNRELEASED; 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"> [ Michael R. Crusoe ]</span>
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<pre style="margin: 0;"> <span id="LC4" class="line" lang="plaintext"> * Team upload.</span>
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<pre style="margin: 0;"> <span id="LC5" class="line" lang="plaintext"> * New upstream version</span>
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<pre style="margin: 0;"> <span id="LC6" class="line" lang="plaintext"> * Remove trailing whitespace in debian/rules (routine-update)</span>
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<pre style="margin: 0;">-<span id="LC6" class="line" lang="plaintext"><span class="idiff left right"> * TODO: package pyxb or remove use of it from this package</span></span>
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<pre style="margin: 0;">-<span id="LC7" class="line" lang="plaintext"> <span class="idiff left right"> Upstream has addressed this</span></span>
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<pre style="margin: 0;">-<span id="LC8" class="line" lang="plaintext"> <span class="idiff left right"> https://github.com/PacificBiosciences/pbcore/issues/12</span>2</span>
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<pre style="margin: 0;">-<span id="LC9" class="line" lang="plaintext"> <span class="idiff left right"> but not released, yet (Steffen)</span></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"> <span class="idiff left right">[ Andreas Tille ]</span></span>
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<pre style="margin: 0;">+<span id="LC9" class="line" lang="plaintext"> <span class="idiff left right">* Attempt to enhance creation of documentation to address bug #91905</span>2</span>
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<pre style="margin: 0;">+<span id="LC10" class="line" lang="plaintext"> <span class="idiff left right">* abandon pyxb, use xmlschema for validation if installed</span></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"> -- Michael R. Crusoe <crusoe@debian.org> Thu, 04 Jun 2020 14:53:42 +0200</span>
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<pre style="margin: 0;"> <span id="LC13" class="line" lang="plaintext"></span>
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<a href="https://salsa.debian.org/med-team/python-pbcore/-/compare/b8db011dcaea3c6eb07ca0509049f07a23f93b01...a6e20c9798343b99701e7086e09836e7ee7e0f11#58ef006ab62b83b4bec5d81fe5b32c3b4c2d1cc2"><strong>debian/control</strong></a>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="18" 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="18" 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">@@ -18,6 +18,7 @@ Build-Depends: debhelper-compat (= 12),</td>
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<pre style="margin: 0;"> <span id="LC18" class="line" lang="plaintext"> python3-pytest-xdist <!nocheck>,</span>
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<pre style="margin: 0;"> <span id="LC19" class="line" lang="plaintext"> python3-pytest-cov <!nocheck>,</span>
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<pre style="margin: 0;"> <span id="LC20" class="line" lang="plaintext"> python3-biopython (>= 1.74) <!nocheck>,</span>
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<pre style="margin: 0;">+<span id="LC21" class="line" lang="plaintext"> python3-wheel <!nocheck>,</span>
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<pre style="margin: 0;"> <span id="LC22" class="line" lang="plaintext"> pylint,</span>
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<pre style="margin: 0;"> <span id="LC23" class="line" lang="plaintext"> python3-coverage</span>
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23
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<pre style="margin: 0;"> <span id="LC24" class="line" lang="plaintext">Standards-Version: 4.5.0</span>
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<li id="1b23313bd3f1f57520aebc03684b1b96cdb46daa">
<a href="https://salsa.debian.org/med-team/python-pbcore/-/compare/b8db011dcaea3c6eb07ca0509049f07a23f93b01...a6e20c9798343b99701e7086e09836e7ee7e0f11#1b23313bd3f1f57520aebc03684b1b96cdb46daa"><strong>debian/patches/b24746790c7105212e45dc2f40115d231bd8baae.patch</strong></a>
The diff for this file was not included because it is too large.
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<li id="b54f95ceed6a4d4b9631dca4ea08d40175072c74">
<a href="https://salsa.debian.org/med-team/python-pbcore/-/compare/b8db011dcaea3c6eb07ca0509049f07a23f93b01...a6e20c9798343b99701e7086e09836e7ee7e0f11#b54f95ceed6a4d4b9631dca4ea08d40175072c74"><strong>debian/patches/do_not_call_pip_to_fetch_wheel.patch</strong></a>
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">--- a/Makefile</span></span>
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<pre style="margin: 0;">+<span id="LC2" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+++ b/Makefile</span></span>
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<pre style="margin: 0;">+<span id="LC3" class="line" lang="diff"><span class="p">@@ -73,6 +73,6 @@</span> validate-metadata:</span>
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<pre style="margin: 0;">+<span id="LC4" class="line" lang="diff"> xmllint --schema ../xsd-datamodels/PacBioCollectionMetadata.xsd pbcore/data/datasets/CollectionMetadata.xml</span>
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<pre style="margin: 0;">+<span id="LC5" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC6" class="line" lang="diff"> wheel:</span>
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<pre style="margin: 0;">+<span id="LC7" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">- which pip</span></span>
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<pre style="margin: 0;">+<span id="LC8" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">- pip wheel --wheel-dir=${WHEELHOUSE} --no-deps .</span></span>
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<pre style="margin: 0;">+<span id="LC9" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+ # which pip</span></span>
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<pre style="margin: 0;">+<span id="LC10" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+ echo "Do not call 'pip wheel --wheel-dir=${WHEELHOUSE} --no-deps .'"</span></span>
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<pre style="margin: 0;">+<span id="LC11" class="line" lang="diff"> ls -larth ${WHEELHOUSE}</span></pre>
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<li id="bc34014ab4b9a49dd7a27bdd8d352912607c3a96">
<a href="https://salsa.debian.org/med-team/python-pbcore/-/compare/b8db011dcaea3c6eb07ca0509049f07a23f93b01...a6e20c9798343b99701e7086e09836e7ee7e0f11#bc34014ab4b9a49dd7a27bdd8d352912607c3a96"><strong>debian/patches/series</strong></a>
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<td class="diff-line-num unfold js-unfold new_line" data-linenumber="2" 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">@@ -2,3 +2,5 @@ doc-theme.patch</td>
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<pre style="margin: 0;"> <span id="LC2" class="line" lang="plaintext">enable-build-time-testing.patch</span>
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<pre style="margin: 0;"> <span id="LC3" class="line" lang="plaintext"># ignore-pyxb.patch</span>
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<pre style="margin: 0;"> <span id="LC4" class="line" lang="plaintext"># exclude_test_missing_data.patch</span>
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<pre style="margin: 0;">+<span id="LC5" class="line" lang="plaintext">b24746790c7105212e45dc2f40115d231bd8baae.patch</span>
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<pre style="margin: 0;">+<span id="LC6" class="line" lang="plaintext">do_not_call_pip_to_fetch_wheel.patch</span></pre>
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<li id="8756c63497c8dc39f7773438edf53b220c773f67">
<a href="https://salsa.debian.org/med-team/python-pbcore/-/compare/b8db011dcaea3c6eb07ca0509049f07a23f93b01...a6e20c9798343b99701e7086e09836e7ee7e0f11#8756c63497c8dc39f7773438edf53b220c773f67"><strong>debian/rules</strong></a>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="14" 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>
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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">@@ -14,7 +14,7 @@ export LC_ALL=C.UTF-8</td>
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<pre style="margin: 0;"> <span id="LC14" class="line" lang="plaintext"></span>
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<pre style="margin: 0;"> <span id="LC15" class="line" lang="plaintext">override_dh_auto_build:</span>
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<pre style="margin: 0;"> <span id="LC16" class="line" lang="plaintext"> dh_auto_build</span>
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<pre style="margin: 0;">-<span id="LC17" class="line" lang="plaintext"> $(MAKE) doc</span>
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<pre style="margin: 0;">+<span id="LC17" class="line" lang="plaintext"> <span class="idiff left">PYTHONPATH=$(shell pybuild --print build_dir --interpreter python3) </span>$(MAKE) doc<span class="idiff right"> || true</span></span>
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<pre style="margin: 0;"> <span id="LC18" class="line" lang="plaintext"></span>
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<pre style="margin: 0;"> <span id="LC19" class="line" lang="plaintext">override_dh_install:</span>
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<pre style="margin: 0;"> <span id="LC20" class="line" lang="plaintext"> dh_install</span>
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