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<div class="content">
<h3 style="margin-top: 20px; margin-bottom: 10px;">
Andreas Tille pushed to branch master at <a href="https://salsa.debian.org/med-team/trinityrnaseq">Debian Med / trinityrnaseq</a>
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<h4 style="margin-top: 10px; margin-bottom: 10px;">
Commits:
</h4>
<ul>
<li>
<strong style="font-weight: bold;"><a href="https://salsa.debian.org/med-team/trinityrnaseq/-/commit/db7490b71cf2701bfd9944ee4a69572b5f1126d7">db7490b7</a></strong>
<div>
<span> by Andreas Tille </span> <i> at 2023-01-21T12:04:50+01:00 </i>
</div>
<pre class="commit-message" style='white-space: pre-wrap; display: block; font-size: 0.8125rem; color: #303030; position: relative; font-family: "Menlo", "DejaVu Sans Mono", "Liberation Mono", "Consolas", "Ubuntu Mono", "Courier New", "andale mono", "lucida console", monospace; word-break: break-all; word-wrap: break-word; background-color: #fafafa; border-radius: 2px; margin: 0; padding: 8px 12px; border: 1px solid #dbdbdb;'>routine-update: New upstream version
</pre>
</li>
<li>
<strong style="font-weight: bold;"><a href="https://salsa.debian.org/med-team/trinityrnaseq/-/commit/8f062390ba66b192c30c5968d1cbbbe34d5d3adb">8f062390</a></strong>
<div>
<span> by Andreas Tille </span> <i> at 2023-01-21T12:04:55+01:00 </i>
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<pre class="commit-message" style='white-space: pre-wrap; display: block; font-size: 0.8125rem; color: #303030; position: relative; font-family: "Menlo", "DejaVu Sans Mono", "Liberation Mono", "Consolas", "Ubuntu Mono", "Courier New", "andale mono", "lucida console", monospace; word-break: break-all; word-wrap: break-word; background-color: #fafafa; border-radius: 2px; margin: 0; padding: 8px 12px; border: 1px solid #dbdbdb;'>New upstream version 2.15.0+dfsg</pre>
</li>
<li>
<strong style="font-weight: bold;"><a href="https://salsa.debian.org/med-team/trinityrnaseq/-/commit/a0b93e5733d62a94e661bc5b2c59a819579dc95b">a0b93e57</a></strong>
<div>
<span> by Andreas Tille </span> <i> at 2023-01-21T12:07:35+01:00 </i>
</div>
<pre class="commit-message" style='white-space: pre-wrap; display: block; font-size: 0.8125rem; color: #303030; position: relative; font-family: "Menlo", "DejaVu Sans Mono", "Liberation Mono", "Consolas", "Ubuntu Mono", "Courier New", "andale mono", "lucida console", monospace; word-break: break-all; word-wrap: break-word; background-color: #fafafa; border-radius: 2px; margin: 0; padding: 8px 12px; border: 1px solid #dbdbdb;'>Update upstream source from tag 'upstream/2.15.0+dfsg'
Update to upstream version '2.15.0+dfsg'
with Debian dir a358fb171c02bdafc85e07e0bf202b62578e84da</pre>
</li>
<li>
<strong style="font-weight: bold;"><a href="https://salsa.debian.org/med-team/trinityrnaseq/-/commit/832df6ad6d03224a0dfa7a123096123054cbaa9b">832df6ad</a></strong>
<div>
<span> by Andreas Tille </span> <i> at 2023-01-21T12:07:35+01:00 </i>
</div>
<pre class="commit-message" style='white-space: pre-wrap; display: block; font-size: 0.8125rem; color: #303030; position: relative; font-family: "Menlo", "DejaVu Sans Mono", "Liberation Mono", "Consolas", "Ubuntu Mono", "Courier New", "andale mono", "lucida console", monospace; word-break: break-all; word-wrap: break-word; background-color: #fafafa; border-radius: 2px; margin: 0; padding: 8px 12px; border: 1px solid #dbdbdb;'>routine-update: Standards-Version: 4.6.2
</pre>
</li>
<li>
<strong style="font-weight: bold;"><a href="https://salsa.debian.org/med-team/trinityrnaseq/-/commit/62612843604d3e647193b85efa64453a16fd79b3">62612843</a></strong>
<div>
<span> by Andreas Tille </span> <i> at 2023-01-21T12:15:30+01:00 </i>
</div>
<pre class="commit-message" style='white-space: pre-wrap; display: block; font-size: 0.8125rem; color: #303030; position: relative; font-family: "Menlo", "DejaVu Sans Mono", "Liberation Mono", "Consolas", "Ubuntu Mono", "Courier New", "andale mono", "lucida console", monospace; word-break: break-all; word-wrap: break-word; background-color: #fafafa; border-radius: 2px; margin: 0; padding: 8px 12px; border: 1px solid #dbdbdb;'>Refresh patches
</pre>
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<h4 style="margin-top: 10px; margin-bottom: 10px;">
30 changed files:
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<a href="#03e88c709aa4aed8f1aa1a413a6424ca2b0d8228">
Analysis/SuperTranscripts/DTU/dexseq_wrapper.pl
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<a href="#36238d5fa26683466193f61b8d724919bec12681">
Changelog.txt
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<a href="#944fc0660cf2284778015de0a454475d13bbedd5">
Chrysalis/analysis/ReadsToTranscripts.cc
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<a href="#56cd058343dc500d70fb6c2c4aac98dc5da7cbe5">
Docker/Dockerfile
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<a href="#bbb101bc2f90c8750e858f6e53300be082686b61">
Docker/VERSION.txt
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<a href="#38a1509983bbe2895edd2ee265ebb7a303c5892a">
PerlLib/SAM_entry.pm
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Trinity
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<a href="#9c96da0e9f91d7d8937b69b524702c106258f0d1">
debian/changelog
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<a href="#58ef006ab62b83b4bec5d81fe5b32c3b4c2d1cc2">
debian/control
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debian/patches/adjust-trimmomatic-adapters-path
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debian/patches/disable-version-check
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<a href="#9c3921224f13bb64ee0668e34e9072c2d81fed1e">
debian/patches/fix_system_paths
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<a href="#72669d62f752131a2dfe59922b4077894b381668">
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sample_data/test_Trinity_Assembly/misc_run_tests/__runMe_using_Grid_uger.HpcGridRunner.singularity_intra.sh
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sample_data/test_Trinity_Assembly/misc_run_tests/__test_runMe_singularity.intra.sh
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sample_data/test_Trinity_Assembly/runMe.sh
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<a href="#47bc5d0dfe2f4008180506114f96d4d825b32a7e">
trinity-plugins/ParaFly/Makefile
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trinity-plugins/ParaFly/config.log
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trinity-plugins/ParaFly/config.status
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<a href="#90415f747080bbf074e23f3a19581f6a23d283c0">
trinity-plugins/ParaFly/src/Makefile
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<a href="#9930cd567f0068457d37fa43b49741f818a7c3ed">
trinity-plugins/bamsifter/build_htslib.sh
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<a href="#bd1199542150373290556ab6568c4a7bcba118d8">
trinity-plugins/bamsifter/sift_bam_max_cov.cpp
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trinity_ext_sample_data/test_Assembly_DiffReadFormattings/Makefile
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trinity_ext_sample_data/test_Assembly_DiffReadFormattings/ensure_min_asm.pl
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<a href="#9c588d137636207393cca0a356e4b71158c951e8">
trinity_ext_sample_data/test_GenomeGuidedTrinity/run_Schizo_TrinityGG_jaccard_clip.sh
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trinity_ext_sample_data/test_GenomeGuidedTrinity/run_chr17_GG_wLongreads.sh
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<a href="#55abd477bafe4b2ab9fe2e3361307b27dcc21f29">
trinity_ext_sample_data/test_GenomeGuidedTrinity/run_genome-guided_Trinity_use_existing_bam.sh
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trinity_ext_sample_data/test_GenomeGuidedTrinity/run_small_GG_mutliScaff_test.sh
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trinity_ext_sample_data/test_full_edgeR_pipeline/Makefile
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util/insilico_read_normalization.pl
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util/misc/SAM_to_gff3.minimap2.pl
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The diff was not included because it is too large.
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