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<h3>
Michael R. Crusoe pushed to branch master
at <a href="https://salsa.debian.org/med-team/trinityrnaseq">Debian Med / trinityrnaseq</a>
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<h4>
Commits:
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<strong><a href="https://salsa.debian.org/med-team/trinityrnaseq/-/commit/f1fe384018753aa43e02f91a259303ea4e994f4e">f1fe3840</a></strong>
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<span>by Michael R. Crusoe</span>
<i>at 2021-01-19T07:34:05+01:00</i>
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<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Add patch to remove m64 flag. Hopefully helps arm64 to compile.
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<h4>3 changed files:</h4>
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<a href="#9c96da0e9f91d7d8937b69b524702c106258f0d1">
debian/changelog
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<a href="#bc34014ab4b9a49dd7a27bdd8d352912607c3a96">
debian/patches/series
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+
debian/patches/strip_m64
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<h4>Changes:</h4>
<li id="9c96da0e9f91d7d8937b69b524702c106258f0d1">
<a href="https://salsa.debian.org/med-team/trinityrnaseq/-/commit/f1fe384018753aa43e02f91a259303ea4e994f4e#9c96da0e9f91d7d8937b69b524702c106258f0d1"><strong>debian/changelog</strong></a>
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="plaintext">trinityrnaseq (2.11.0+dfsg-4) 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"> * Add patch to remove m64 flag. Hopefully helps arm64 to compile.</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 <crusoe@debian.org> Tue, 19 Jan 2021 07:33:58 +0100</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">trinityrnaseq (2.11.0+dfsg-3) unstable; urgency=medium</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"> * debian/tests/control: adjust so that the tests don't have to pass on archs</span>
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<li id="bc34014ab4b9a49dd7a27bdd8d352912607c3a96">
<a href="https://salsa.debian.org/med-team/trinityrnaseq/-/commit/f1fe384018753aa43e02f91a259303ea4e994f4e#bc34014ab4b9a49dd7a27bdd8d352912607c3a96"><strong>debian/patches/series</strong></a>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="20" 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="20" 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">@@ -20,3 +20,4 @@ skip_blat</td>
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<pre style="margin: 0;"> <span id="LC20" class="line" lang="plaintext">fix-gcc-10.patch</span>
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<pre style="margin: 0;"> <span id="LC21" class="line" lang="plaintext">bamsifter_build</span>
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<pre style="margin: 0;"> <span id="LC22" class="line" lang="plaintext">skip_DTU_STAR_test</span>
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<pre style="margin: 0;">+<span id="LC23" class="line" lang="plaintext">strip_m64</span></pre>
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<li id="fb48b16f89b5d54f32262e7f7be24655af3ea0bd">
<a href="https://salsa.debian.org/med-team/trinityrnaseq/-/commit/f1fe384018753aa43e02f91a259303ea4e994f4e#fb48b16f89b5d54f32262e7f7be24655af3ea0bd"><strong>debian/patches/strip_m64</strong></a>
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="diff"><span class="p">From: Michael R. Crusoe <crusoe@debian.org></span></span>
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<pre style="margin: 0;">+<span id="LC2" class="line" lang="diff"><span class="p">Subject: remove -m64 flag, hopefully helps arm64 compile</span></span>
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<pre style="margin: 0;">+<span id="LC3" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">--- trinityrnaseq.orig/Chrysalis/CMakeLists.txt</span></span>
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<pre style="margin: 0;">+<span id="LC4" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+++ trinityrnaseq/Chrysalis/CMakeLists.txt</span></span>
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<pre style="margin: 0;">+<span id="LC5" class="line" lang="diff"><span class="p">@@ -13,7 +13,7 @@</span></span>
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<pre style="margin: 0;">+<span id="LC6" class="line" lang="diff"> set(CMAKE_BUILD_TYPE "${default_build_type}")</span>
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<pre style="margin: 0;">+<span id="LC7" class="line" lang="diff"> endif()</span>
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<pre style="margin: 0;">+<span id="LC8" class="line" lang="diff"> </span>
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<td class="diff-line-num new new_line" data-linenumber="9" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
9
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<pre style="margin: 0;">+<span id="LC9" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">-set(CMAKE_CXX_FLAGS "${CMAKE_CXX_FLAGS} -pipe -W -Wall -Wpedantic -fopenmp -pthread -m64")</span></span>
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<td class="diff-line-num new new_line" data-linenumber="10" 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">
10
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<pre style="margin: 0;">+<span id="LC10" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+set(CMAKE_CXX_FLAGS "${CMAKE_CXX_FLAGS} -pipe -W -Wall -Wpedantic -fopenmp -pthread")</span></span>
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<td class="diff-line-num new new_line" data-linenumber="11" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
11
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<pre style="margin: 0;">+<span id="LC11" class="line" lang="diff"> </span>
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12
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<pre style="margin: 0;">+<span id="LC12" class="line" lang="diff"> set(CMAKE_CXX_FLAGS_RELEASE "${CMAKE_CXX_FLAGS_RELEASE} -O2 -DNDEBUG ")</span>
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13
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<pre style="margin: 0;">+<span id="LC13" class="line" lang="diff"> set(CMAKE_CXX_FLAGS_DEBUG "${CMAKE_CXX_FLAGS_DEBUG} -g -O0")</span>
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14
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<pre style="margin: 0;">+<span id="LC14" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">--- trinityrnaseq.orig/Inchworm/CMakeLists.txt</span></span>
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15
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<pre style="margin: 0;">+<span id="LC15" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+++ trinityrnaseq/Inchworm/CMakeLists.txt</span></span>
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<pre style="margin: 0;">+<span id="LC16" class="line" lang="diff"><span class="p">@@ -13,7 +13,7 @@</span></span>
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<pre style="margin: 0;">+<span id="LC17" class="line" lang="diff"> set(CMAKE_BUILD_TYPE "${default_build_type}")</span>
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<pre style="margin: 0;">+<span id="LC18" class="line" lang="diff"> endif()</span>
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19
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<pre style="margin: 0;">+<span id="LC19" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC20" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">-set(CMAKE_CXX_FLAGS "${CMAKE_CXX_FLAGS} -pipe -W -Wall -Wpedantic -fopenmp -m64")</span></span>
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<pre style="margin: 0;">+<span id="LC21" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+set(CMAKE_CXX_FLAGS "${CMAKE_CXX_FLAGS} -pipe -W -Wall -Wpedantic -fopenmp")</span></span>
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<pre style="margin: 0;">+<span id="LC22" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC23" class="line" lang="diff"> set(CMAKE_CXX_FLAGS_RELEASE "${CMAKE_CXX_FLAGS_RELEASE} -O2 -DNDEBUG ")</span>
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<pre style="margin: 0;">+<span id="LC24" class="line" lang="diff"> set(CMAKE_CXX_FLAGS_DEBUG "${CMAKE_CXX_FLAGS_DEBUG} -g -O0")</span></pre>
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