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<h3>
Sascha Steinbiss pushed to branch master
at <a href="https://salsa.debian.org/med-team/augustus">Debian Med / augustus</a>
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<h4>
Commits:
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<strong><a href="https://salsa.debian.org/med-team/augustus/commit/b64131e05bfb111b609e93cec4bb115119d7e268">b64131e0</a></strong>
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<span>by Sascha Steinbiss</span>
<i>at 2019-03-13T16:04:31Z</i>
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<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">use dynamic Built-Using
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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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<li class="file-stats">
<a href="#58ef006ab62b83b4bec5d81fe5b32c3b4c2d1cc2">
debian/control
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<a href="#8756c63497c8dc39f7773438edf53b220c773f67">
debian/rules
</a>
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<h4>Changes:</h4>
<li id="9c96da0e9f91d7d8937b69b524702c106258f0d1">
<a href="https://salsa.debian.org/med-team/augustus/commit/b64131e05bfb111b609e93cec4bb115119d7e268#9c96da0e9f91d7d8937b69b524702c106258f0d1"><strong>debian/changelog</strong></a>
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="plaintext">augustus (3.3.2+dfsg-2) 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"> * Use dynamic Built-Using in d/control.</span>
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<pre style="margin: 0;">+<span id="LC4" class="line" lang="plaintext"> Closes: #924359</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"> -- Sascha Steinbiss <satta@debian.org> Tue, 12 Mar 2019 14:08:22 +0100</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">augustus (3.3.2+dfsg-1) 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"> * New upstream release.</span>
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<a href="https://salsa.debian.org/med-team/augustus/commit/b64131e05bfb111b609e93cec4bb115119d7e268#58ef006ab62b83b4bec5d81fe5b32c3b4c2d1cc2"><strong>debian/control</strong></a>
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<td class="diff-line-num unfold js-unfold new_line" data-linenumber="28" 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">@@ -28,7 +28,7 @@ Architecture: any</td>
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<pre style="margin: 0;"> <span id="LC28" class="line" lang="mosel"><span class="n" style="color: #333;">Depends</span><span class="p">:</span> <span class="p">${</span><span class="n" style="color: #333;">shlibs</span><span class="p">:</span><span class="n" style="color: #333;">Depends</span><span class="p">},</span></span>
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<pre style="margin: 0;"> <span id="LC29" class="line" lang="mosel"> <span class="p">${</span><span class="n" style="color: #333;">misc</span><span class="p">:</span><span class="n" style="color: #333;">Depends</span><span class="p">},</span></span>
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<pre style="margin: 0;"> <span id="LC30" class="line" lang="mosel"> <span class="n" style="color: #333;">augustus</span><span class="p">-</span><span class="n" style="color: #333;">data</span></span>
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<td class="diff-line-num old old_line" data-linenumber="31" 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">
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<td class="diff-line-num new_line old" data-linenumber="31" 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">
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<pre style="margin: 0;">-<span id="LC31" class="line" lang="mosel"><span class="n" style="color: #333;">Built</span><span class="p">-</span><span class="n" style="color: #333;">Using</span><span class="p">:</span> <span class="n" style="color: #333;"><span class="idiff left">samtools</span></span><span class="p"><span class="idiff">-</span></span><span class="n" style="color: #333;"><span class="idiff">legacy</span></span><span class="idiff"> </span><span class="p"><span class="idiff">(=</span></span><span class="idiff"> </span><span class="m" style="color: #099;"><span class="idiff">0.1.19</span></span><span class="p"><span class="idiff">-</span></span><span class="m" style="color: #099;"><span class="idiff right">2</span></span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC31" class="line" lang="mosel"><span class="n" style="color: #333;">Built</span><span class="p">-</span><span class="n" style="color: #333;">Using</span><span class="p">:</span> <span class="n" style="color: #333;"><span class="idiff left">libbam</span></span><span class="p"><span class="idiff">-</span></span><span class="n" style="color: #333;"><span class="idiff">dev</span></span><span class="idiff"> </span><span class="p"><span class="idiff">(=</span></span><span class="idiff"> </span><span class="p"><span class="idiff">${</span></span><span class="n" style="color: #333;"><span class="idiff">libbam</span></span><span class="p"><span class="idiff">-</span></span><span class="n" style="color: #333;"><span class="idiff">dev</span></span><span class="p"><span class="idiff">:</span></span><span class="k" style="font-weight: 600;"><span class="idiff">Version</span></span><span class="p"><span class="idiff right">}</span>)</span></span>
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<pre style="margin: 0;"> <span id="LC32" class="line" lang="mosel"><span class="n" style="color: #333;">Description</span><span class="p">:</span> <span class="n" style="color: #333;">gene</span> <span class="n" style="color: #333;">prediction</span> <span class="k" style="font-weight: 600;">in</span> <span class="n" style="color: #333;">eukaryotic</span> <span class="n" style="color: #333;">genomes</span></span>
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<pre style="margin: 0;"> <span id="LC33" class="line" lang="mosel"> <span class="n" style="color: #333;">AUGUSTUS</span> <span class="n" style="color: #333;">is</span> <span class="n" style="color: #333;">a</span> <span class="n" style="color: #333;">software</span> <span class="n" style="color: #333;">for</span> <span class="n" style="color: #333;">gene</span> <span class="n" style="color: #333;">prediction</span> <span class="k" style="font-weight: 600;">in</span> <span class="n" style="color: #333;">eukaryotic</span> <span class="n" style="color: #333;">genomic</span> <span class="n" style="color: #333;">sequences</span></span>
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<pre style="margin: 0;"> <span id="LC34" class="line" lang="mosel"> <span class="n" style="color: #333;">that</span> <span class="n" style="color: #333;">is</span> <span class="n" style="color: #333;">based</span> <span class="n" style="color: #333;">on</span> <span class="n" style="color: #333;">a</span> <span class="n" style="color: #333;">generalized</span> <span class="n" style="color: #333;">hidden</span> <span class="n" style="color: #333;">Markov</span> <span class="k" style="font-weight: 600;">model</span> <span class="p">(</span><span class="n" style="color: #333;">HMM</span><span class="p">),</span> <span class="n" style="color: #333;">a</span> <span class="n" style="color: #333;">probabilistic</span></span>
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<a href="https://salsa.debian.org/med-team/augustus/commit/b64131e05bfb111b609e93cec4bb115119d7e268#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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<pre style="margin: 0;"> <span id="LC3" class="line" lang="plaintext">export DEB_BUILD_MAINT_OPTIONS = hardening=+all</span>
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<pre style="margin: 0;"> <span id="LC4" class="line" lang="plaintext">export TOOLDIR = /usr/include</span>
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<pre style="margin: 0;"> <span id="LC5" class="line" lang="plaintext">export AUGUSTUS_CONFIG_PATH=$(CURDIR)/config</span>
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<pre style="margin: 0;">+<span id="LC6" class="line" lang="plaintext">export LIBBAM_PKG_VERSION=$(shell apt-cache policy libbam-dev | grep Installed | cut -f2 -d: | cut -c2-)</span>
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<pre style="margin: 0;"> <span id="LC7" class="line" lang="plaintext">.PHONY: bam2hints homGeneMapping checkTargetSortedness joingenes</span>
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<pre style="margin: 0;"> <span id="LC8" class="line" lang="plaintext"></span>
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<pre style="margin: 0;"> <span id="LC9" class="line" lang="plaintext">%:</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">@@ -45,6 +46,7 @@ override_dh_auto_clean:</td>
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<pre style="margin: 0;"> <span id="LC46" class="line" lang="plaintext"> $(MAKE) -C auxprogs/compileSpliceCands clean</span>
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<pre style="margin: 0;"> <span id="LC47" class="line" lang="plaintext"> $(MAKE) -C auxprogs/filterBam clean</span>
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<pre style="margin: 0;"> <span id="LC48" class="line" lang="plaintext"> rm -rf bin</span>
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<pre style="margin: 0;">+<span id="LC49" class="line" lang="plaintext"> rm -f debian/*substvars</span>
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<pre style="margin: 0;"> <span id="LC50" class="line" lang="plaintext"></span>
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<pre style="margin: 0;"> <span id="LC51" class="line" lang="plaintext">override_dh_auto_build: aln2wig bam2hints bam2wig checkTargetSortedness compileSpliceCands filterBam homGeneMapping joingenes</span>
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<pre style="margin: 0;"> <span id="LC52" class="line" lang="plaintext"> dh_auto_build</span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -85,3 +87,7 @@ override_dh_auto_install:</td>
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<pre style="margin: 0;"> <span id="LC87" class="line" lang="plaintext"></span>
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<pre style="margin: 0;"> <span id="LC88" class="line" lang="plaintext">override_dh_compress:</span>
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<pre style="margin: 0;"> <span id="LC89" class="line" lang="plaintext"> dh_compress -Xtutorial</span>
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<pre style="margin: 0;">+<span id="LC90" class="line" lang="plaintext"></span>
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<pre style="margin: 0;">+<span id="LC91" class="line" lang="plaintext">override_dh_gencontrol:</span>
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<pre style="margin: 0;">+<span id="LC92" class="line" lang="plaintext"> echo "libbam-dev:Version=$(LIBBAM_PKG_VERSION)" >> debian/augustus.substvars</span>
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<pre style="margin: 0;">+<span id="LC93" class="line" lang="plaintext"> dh_gencontrol</span></pre>
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