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<h3>
Andreas Tille pushed to branch master
at <a href="https://salsa.debian.org/med-team/seqwish">Debian Med / seqwish</a>
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<h4>
Commits:
</h4>
<ul>
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<strong><a href="https://salsa.debian.org/med-team/seqwish/-/commit/cc002249be2e10e885ce4bad05d2930b1c2ade19">cc002249</a></strong>
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<span>by Andreas Tille</span>
<i>at 2020-05-24T19:11:03+02:00</i>
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<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Debian packaged lib and todo
</pre>
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<h4>4 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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<li class="file-stats">
<a href="#bc34014ab4b9a49dd7a27bdd8d352912607c3a96">
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+
debian/patches/series
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<li class="file-stats">
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+
debian/patches/use_debian_packaged_libs.patch
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<h4>Changes:</h4>
<li id="9c96da0e9f91d7d8937b69b524702c106258f0d1">
<a href="https://salsa.debian.org/med-team/seqwish/-/commit/cc002249be2e10e885ce4bad05d2930b1c2ade19#9c96da0e9f91d7d8937b69b524702c106258f0d1"><strong>debian/changelog</strong></a>
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<pre style="margin: 0;"> <span id="LC1" class="line" lang="plaintext">seqwish (0.6-1) 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"> * Initial release (Closes: #<bug>)</span>
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<pre style="margin: 0;">+<span id="LC4" class="line" lang="plaintext"> TODO:</span>
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<pre style="margin: 0;">+<span id="LC5" class="line" lang="plaintext"> * https://github.com/ekg/mmmulti</span>
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<pre style="margin: 0;">+<span id="LC6" class="line" lang="plaintext"> * https://github.com/ekg/iitii</span>
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<pre style="margin: 0;">+<span id="LC7" class="line" lang="plaintext"> * https://github.com/ekg/mmap_allocator</span>
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<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">
<pre style="margin: 0;">+<span id="LC8" class="line" lang="plaintext"> * https://github.com/SaschaWitt/ips4o</span>
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<pre style="margin: 0;">+<span id="LC9" class="line" lang="plaintext"> * https://github.com/vgteam/BBHash</span>
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<pre style="margin: 0;">+<span id="LC10" class="line" lang="plaintext"> * https://github.com/ekg/atomicbitvector</span>
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<pre style="margin: 0;">+<span id="LC11" class="line" lang="plaintext"> </span>
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<td class="diff-line-num new new_line" data-linenumber="12" 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">
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<pre style="margin: 0;">+<span id="LC12" class="line" lang="plaintext"> * https://github.com/Taywee/args</span>
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<td class="diff-line-num new new_line" data-linenumber="13" 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">
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<pre style="margin: 0;">+<span id="LC13" class="line" lang="plaintext"> * https://github.com/gatoravi/gzip_reader</span>
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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"> ... and more</span>
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<pre style="margin: 0;"> <span id="LC16" class="line" lang="plaintext"></span>
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<pre style="margin: 0;"> <span id="LC17" class="line" lang="plaintext"> -- Andreas Tille <tille@debian.org> Sun, 24 May 2020 16:17:07 +0200</span></pre>
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<li id="58ef006ab62b83b4bec5d81fe5b32c3b4c2d1cc2">
<a href="https://salsa.debian.org/med-team/seqwish/-/commit/cc002249be2e10e885ce4bad05d2930b1c2ade19#58ef006ab62b83b4bec5d81fe5b32c3b4c2d1cc2"><strong>debian/control</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">@@ -3,7 +3,9 @@ Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.</td>
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<pre style="margin: 0;"> <span id="LC3" class="line" lang="plaintext">Uploaders: Andreas Tille <tille@debian.org></span>
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<pre style="margin: 0;"> <span id="LC4" class="line" lang="plaintext">Section: science</span>
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<pre style="margin: 0;"> <span id="LC5" class="line" lang="plaintext">Priority: optional</span>
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<pre style="margin: 0;">-<span id="LC6" class="line" lang="plaintext">Build-Depends: debhelper-compat (= 12)</span>
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<pre style="margin: 0;">+<span id="LC6" class="line" lang="plaintext">Build-Depends: debhelper-compat (= 12),</span>
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<pre style="margin: 0;">+<span id="LC7" class="line" lang="plaintext"> cmake,</span>
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<pre style="margin: 0;">+<span id="LC8" class="line" lang="plaintext"> libsdsl-dev</span>
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7
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9
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<pre style="margin: 0;"> <span id="LC9" class="line" lang="plaintext">Standards-Version: 4.5.0</span>
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8
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10
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<pre style="margin: 0;"> <span id="LC10" class="line" lang="plaintext">Vcs-Browser: https://salsa.debian.org/med-team/seqwish</span>
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9
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11
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<pre style="margin: 0;"> <span id="LC11" class="line" lang="plaintext">Vcs-Git: https://salsa.debian.org/med-team/seqwish.git</span>
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<li id="bc34014ab4b9a49dd7a27bdd8d352912607c3a96">
<a href="https://salsa.debian.org/med-team/seqwish/-/commit/cc002249be2e10e885ce4bad05d2930b1c2ade19#bc34014ab4b9a49dd7a27bdd8d352912607c3a96"><strong>debian/patches/series</strong></a>
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1
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="plaintext">use_debian_packaged_libs.patch</span></pre>
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<li id="ee54dc79014b3def963898e50c98877d46c6b27e">
<a href="https://salsa.debian.org/med-team/seqwish/-/commit/cc002249be2e10e885ce4bad05d2930b1c2ade19#ee54dc79014b3def963898e50c98877d46c6b27e"><strong>debian/patches/use_debian_packaged_libs.patch</strong></a>
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1
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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/CMakeLists.txt</span></span>
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2
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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/CMakeLists.txt</span></span>
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3
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<pre style="margin: 0;">+<span id="LC3" class="line" lang="diff"><span class="p">@@ -25,6 +25,7 @@</span> include_directories("${PROJECT_SOURCE_DI</span>
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<pre style="margin: 0;">+<span id="LC4" class="line" lang="diff"> # Add external projects</span>
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<pre style="margin: 0;">+<span id="LC5" class="line" lang="diff"> include(${CMAKE_ROOT}/Modules/ExternalProject.cmake)</span>
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<pre style="margin: 0;">+<span id="LC6" class="line" lang="diff"> </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;">+if(!DEBIAN_BUILD)</span></span>
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<pre style="margin: 0;">+<span id="LC8" class="line" lang="diff"> # sdsl-lite (full build using its cmake config)</span>
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<pre style="margin: 0;">+<span id="LC9" class="line" lang="diff"> ExternalProject_Add(sdsl-lite</span>
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<pre style="margin: 0;">+<span id="LC10" class="line" lang="diff"> SOURCE_DIR "${CMAKE_SOURCE_DIR}/deps/sdsl-lite"</span>
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<pre style="margin: 0;">+<span id="LC11" class="line" lang="diff"><span class="p">@@ -36,6 +37,12 @@</span> set(sdsl-lite_INCLUDE "${INSTALL_DIR}/sr</span>
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<pre style="margin: 0;">+<span id="LC12" class="line" lang="diff"> set(sdsl-lite-divsufsort_INCLUDE "${INSTALL_DIR}/src/sdsl-lite-build/external/libdivsufsort/include")</span>
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13
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<pre style="margin: 0;">+<span id="LC13" class="line" lang="diff"> set(sdsl-lite_LIB "${INSTALL_DIR}/src/sdsl-lite-build/lib")</span>
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<pre style="margin: 0;">+<span id="LC14" class="line" lang="diff"> set(sdsl-lite-divsufsort_LIB "${INSTALL_DIR}/src/sdsl-lite-build/external/libdivsufsort/lib")</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;">+else()</span></span>
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<pre style="margin: 0;">+<span id="LC16" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+message("Use Debian packaged sdsl-lite")</span></span>
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<pre style="margin: 0;">+<span id="LC17" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+message("=================================")</span></span>
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<pre style="margin: 0;">+<span id="LC18" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+# FIXME: Not yet tested</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;">+# add_custom_target(libsdsl)</span></span>
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<pre style="margin: 0;">+<span id="LC20" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+endif()</span></span>
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<pre style="margin: 0;">+<span id="LC21" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC22" class="line" lang="diff"> # taywee's C++ args library, header only</span>
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<pre style="margin: 0;">+<span id="LC23" class="line" lang="diff"> ExternalProject_Add(tayweeargs</span></pre>
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