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<h3>
Steffen Möller pushed to branch master
at <a href="https://salsa.debian.org/med-team/diamond-aligner">Debian Med / diamond-aligner</a>
</h3>
<h4>
Commits:
</h4>
<ul>
<li>
<strong><a href="https://salsa.debian.org/med-team/diamond-aligner/commit/e83bc042658f3d3f3b7dbf80a84069a0dc4bfc35">e83bc042</a></strong>
<div>
<span>by Steffen Moeller</span>
<i>at 2019-09-21T09:42:39Z</i>
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<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Uploaded to unstable.
</pre>
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</ul>
<h4>3 changed files:</h4>
<ul>
<li class="file-stats">
<a href="#9c96da0e9f91d7d8937b69b524702c106258f0d1">
debian/changelog
</a>
</li>
<li class="file-stats">
<a href="#7504edb146624613085f847641b8908c861bf3ee">
debian/patches/82feea2aee5c82e283704b9317cb5e8abc625f90.patch
</a>
</li>
<li class="file-stats">
<a href="#a843f1917fbc7b44df009557ff4d2e9bfb456b58">
debian/patches/no_march_native.patch
</a>
</li>
</ul>
<h4>Changes:</h4>
<li id="9c96da0e9f91d7d8937b69b524702c106258f0d1">
<a href="https://salsa.debian.org/med-team/diamond-aligner/commit/e83bc042658f3d3f3b7dbf80a84069a0dc4bfc35#9c96da0e9f91d7d8937b69b524702c106258f0d1"><strong>debian/changelog</strong></a>
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<pre style="margin: 0;">-<span id="LC1" class="line" lang="plaintext">diamond-aligner (0.9.26+dfsg-1) <span class="idiff left right">UNRELEASED</span>; urgency=medium</span>
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="plaintext">diamond-aligner (0.9.26+dfsg-1) <span class="idiff left right">unstable</span>; 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"> * Team upload.</span>
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<pre style="margin: 0;"> <span id="LC4" class="line" lang="plaintext"> * New upstream version</span>
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<li id="7504edb146624613085f847641b8908c861bf3ee">
<a href="https://salsa.debian.org/med-team/diamond-aligner/commit/e83bc042658f3d3f3b7dbf80a84069a0dc4bfc35#7504edb146624613085f847641b8908c861bf3ee"><strong>debian/patches/82feea2aee5c82e283704b9317cb5e8abc625f90.patch</strong></a>
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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="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="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -7,16 +7,16 @@ Subject: [PATCH] Fixed #295.</td>
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<pre style="margin: 0;"> <span id="LC7" class="line" lang="diff"> src/dp/needleman_wunsch.cpp | 2 +-</span>
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<pre style="margin: 0;"> <span id="LC8" class="line" lang="diff"> 1 file changed, 1 insertion(+), 1 deletion(-)</span>
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<pre style="margin: 0;"> <span id="LC9" class="line" lang="diff"></span>
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<pre style="margin: 0;">-<span id="LC10" class="line" lang="diff"><span class="idiff left right">diff --git a/src/dp/needleman_wunsch.cpp b</span>/src/dp/needleman_wunsch.cpp</span>
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<pre style="margin: 0;">-<span id="LC11" class="line" lang="diff"><span class="gh" style="color: #999;"><span class="idiff left right">index abb47bb..2050eea 100644</span></span></span>
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<pre style="margin: 0;">-<span id="LC12" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">--- <span class="idiff left right">a</span>/src/dp/needleman_wunsch.cpp</span></span>
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<pre style="margin: 0;">-<span id="LC13" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+++ <span class="idiff left right">b</span>/src/dp/needleman_wunsch.cpp</span></span>
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<td class="diff-line-num old old_line" data-linenumber="14" 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="LC14" class="line" lang="diff"><span class="p">@@ -167,7 +167,7 @@</span> const Fixed_score_buffer<_score>& needle<span class="idiff left right">man_wunsch(sequence query, sequence subj</span></span>
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<pre style="margin: 0;">+<span id="LC10" class="line" lang="diff"><span class="idiff left right">Index: diamond-aligner</span>/src/dp/needleman_wunsch.cpp</span>
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<pre style="margin: 0;">+<span id="LC11" class="line" lang="diff"><span class="gh" style="color: #999;"><span class="idiff left right">===================================================================</span></span></span>
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<pre style="margin: 0;">+<span id="LC12" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">--- <span class="idiff left right">diamond-aligner.orig</span>/src/dp/needleman_wunsch.cpp</span></span>
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<pre style="margin: 0;">+<span id="LC13" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+++ <span class="idiff left right">diamond-aligner</span>/src/dp/needleman_wunsch.cpp</span></span>
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<pre style="margin: 0;">+<span id="LC14" class="line" lang="diff"><span class="p">@@ -167,7 +167,7 @@</span> const Fixed_score_buffer<_score>& needle</span>
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<pre style="margin: 0;"> <span id="LC15" class="line" lang="diff"> return mtx.score_buffer();</span>
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<pre style="margin: 0;"> <span id="LC16" class="line" lang="diff"> }</span>
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<pre style="margin: 0;"> <span id="LC17" class="line" lang="diff"> </span>
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<pre style="margin: 0;">-<span id="LC18" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">-template const Fixed_score_buffer<int>& needleman_wunsch(sequence query, sequence subject, int &max_score, const Local&, const int&);</span></span>
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<pre style="margin: 0;">-<span id="LC19" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+//<span class="idiff left right"> template const Fixed_score_buffer<int>& needleman_wunsch</span>(sequence query, sequence subject, int &max_score, const Local&, const int&);</span></span>
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<pre style="margin: 0;">+<span id="LC18" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">-template const Fixed_score_buffer<int>& needleman_wunsch<span class="idiff left right"><int, Local></span>(sequence query, sequence subject, int &max_score, const Local&, const int&);</span></span>
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<pre style="margin: 0;">+<span id="LC19" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+//<span class="idiff left right">template const Fixed_score_buffer<int>& needleman_wunsch<int, Local></span>(sequence query, sequence subject, int &max_score, const Local&, const int&);</span></span>
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<pre style="margin: 0;"> <span id="LC20" class="line" lang="diff"> </span>
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<pre style="margin: 0;"> <span id="LC21" class="line" lang="diff"> int needleman_wunsch(sequence query, sequence subject, int qbegin, int qend, int sbegin, int send, unsigned node, unsigned edge, Diag_graph &diags, bool log)</span>
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<pre style="margin: 0;"> <span id="LC22" class="line" lang="diff"> {</span></pre>
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<a href="https://salsa.debian.org/med-team/diamond-aligner/commit/e83bc042658f3d3f3b7dbf80a84069a0dc4bfc35#a843f1917fbc7b44df009557ff4d2e9bfb456b58"><strong>debian/patches/no_march_native.patch</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">@@ -3,9 +3,11 @@ Bug-Debian: https://bugs.debian.org/906615</td>
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<pre style="margin: 0;"> <span id="LC3" class="line" lang="diff"><span class="p">Author: Andreas Tille <tille@debian.org></span></span>
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<pre style="margin: 0;"> <span id="LC4" class="line" lang="diff"><span class="p">Last-Update: Sun, 19 Aug 2018 06:38:58 +0200</span></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">--- a/CMakeLists.txt</span>
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<pre style="margin: 0;">-<span id="LC7" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+++ b/CMakeLists.txt</span></span>
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<pre style="margin: 0;">-<span id="LC8" class="line" lang="diff"><span class="p">@@ -14,10 +14,10 @@</span> if(CMAKE_BUILD_MARCH)</span>
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<pre style="margin: 0;">+<span id="LC6" class="line" lang="diff">Index: diamond-aligner/CMakeLists.txt</span>
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<pre style="margin: 0;">+<span id="LC7" class="line" lang="diff"><span class="gh" style="color: #999;">===================================================================</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;">--- diamond-aligner.orig/CMakeLists.txt</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;">+++ diamond-aligner/CMakeLists.txt</span></span>
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<pre style="margin: 0;">+<span id="LC10" class="line" lang="diff"><span class="p">@@ -38,10 +38,10 @@</span> elseif(CMAKE_BUILD_MARCH)</span>
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<pre style="margin: 0;"> <span id="LC11" class="line" lang="diff"> set(CMAKE_CXX_FLAGS "${CMAKE_CXX_FLAGS} -march=${CMAKE_BUILD_MARCH}")</span>
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<pre style="margin: 0;"> <span id="LC12" class="line" lang="diff"> else()</span>
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<pre style="margin: 0;"> <span id="LC13" class="line" lang="diff"> include(CheckCXXCompilerFlag)</span>
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