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<h3>
Michael R. Crusoe pushed to branch master
at <a href="https://salsa.debian.org/med-team/ffindex">Debian Med / ffindex</a>
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<h4>
Commits:
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<ul>
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<strong><a href="https://salsa.debian.org/med-team/ffindex/commit/5a7eeb53972e97ee264eb67d9df2f6c7089e4e14">5a7eeb53</a></strong>
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<span>by Michael R. Crusoe</span>
<i>at 2019-03-03T19:51:53Z</i>
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<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">enable cross building
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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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<a href="#0d8181cd8c9dbe68093a8faf79725cbbd10e3e73">
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+
debian/patches/cross.patch
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<li class="file-stats">
<a href="#bc34014ab4b9a49dd7a27bdd8d352912607c3a96">
debian/patches/series
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<h4>Changes:</h4>
<li id="9c96da0e9f91d7d8937b69b524702c106258f0d1">
<a href="https://salsa.debian.org/med-team/ffindex/commit/5a7eeb53972e97ee264eb67d9df2f6c7089e4e14#9c96da0e9f91d7d8937b69b524702c106258f0d1"><strong>debian/changelog</strong></a>
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="plaintext">ffindex (0.9.9.9-2) 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"> * Team upload.</span>
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<pre style="margin: 0;">+<span id="LC4" class="line" lang="plaintext"> * Add patch from helmutg@ to enable cross building; thanks! Closes: #923637.</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"> -- Michael R. Crusoe <michael.crusoe@gmail.com> Sun, 03 Mar 2019 13:49:30 -0600</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">ffindex (0.9.9.9-1) 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 version</span>
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<a href="https://salsa.debian.org/med-team/ffindex/commit/5a7eeb53972e97ee264eb67d9df2f6c7089e4e14#58ef006ab62b83b4bec5d81fe5b32c3b4c2d1cc2"><strong>debian/control</strong></a>
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<td class="diff-line-num unfold js-unfold new_line" data-linenumber="9" 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">@@ -9,7 +9,8 @@ Build-Depends: debhelper (>= 12~),</td>
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<pre style="margin: 0;"> <span id="LC9" class="line" lang="plaintext"> libopenmpi-dev,</span>
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<pre style="margin: 0;"> <span id="LC10" class="line" lang="plaintext"> openmpi-bin,</span>
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<pre style="margin: 0;"> <span id="LC11" class="line" lang="plaintext"> cmake (>= 3.11),</span>
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<pre style="margin: 0;">-<span id="LC12" class="line" lang="plaintext"> chrpath</span>
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<pre style="margin: 0;">+<span id="LC12" class="line" lang="plaintext"> chrpath,</span>
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<pre style="margin: 0;">+<span id="LC13" class="line" lang="plaintext"> pkg-config</span>
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<pre style="margin: 0;"> <span id="LC14" class="line" lang="plaintext">Standards-Version: 4.3.0</span>
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<pre style="margin: 0;"> <span id="LC15" class="line" lang="plaintext">Vcs-Browser: https://salsa.debian.org/med-team/ffindex</span>
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<pre style="margin: 0;"> <span id="LC16" class="line" lang="plaintext">Vcs-Git: https://salsa.debian.org/med-team/ffindex.git</span>
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<li id="0d8181cd8c9dbe68093a8faf79725cbbd10e3e73">
<a href="https://salsa.debian.org/med-team/ffindex/commit/5a7eeb53972e97ee264eb67d9df2f6c7089e4e14#0d8181cd8c9dbe68093a8faf79725cbbd10e3e73"><strong>debian/patches/cross.patch</strong></a>
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="diff">Author: Helmut Grohne <helmutg@debian.org></span>
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<pre style="margin: 0;">+<span id="LC2" class="line" lang="diff">Description: enable cross building</span>
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<pre style="margin: 0;">+<span id="LC3" class="line" lang="diff"></span>
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<pre style="margin: 0;">+<span id="LC4" class="line" lang="diff">ffindex fails to cross build from source, because it uses mpicc. mpicc</span>
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5
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<pre style="margin: 0;">+<span id="LC5" class="line" lang="diff">is unfixable in terms of cross building, which is why it is being moved</span>
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6
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<pre style="margin: 0;">+<span id="LC6" class="line" lang="diff">to pkg-config upstream. Rather than wrap your build in mpicc, you can</span>
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7
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<pre style="margin: 0;">+<span id="LC7" class="line" lang="diff">compute the relevant flags using pkg-config just like any other library.</span>
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<pre style="margin: 0;">+<span id="LC8" class="line" lang="diff"></span>
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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;">--- ffindex-0.9.9.9.orig/src/Makefile</span></span>
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<pre style="margin: 0;">+<span id="LC10" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+++ ffindex-0.9.9.9/src/Makefile</span></span>
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<pre style="margin: 0;">+<span id="LC11" class="line" lang="diff"><span class="gu" style="color: #800080; font-weight: 600;">@@ -7,7 +7,10 @@</span></span>
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<pre style="margin: 0;">+<span id="LC12" class="line" lang="diff"> #CC=gcc</span>
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<pre style="margin: 0;">+<span id="LC13" class="line" lang="diff"> #CC=icc</span>
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<pre style="margin: 0;">+<span id="LC14" class="line" lang="diff"> #CC=clang</span>
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<pre style="margin: 0;">+<span id="LC15" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+PKG_CONFIG?=pkg-config</span></span>
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<pre style="margin: 0;">+<span id="LC16" class="line" lang="diff"> CFLAGS+=-std=c99 -O2 -g -fPIC -Wall -pedantic -D_GNU_SOURCE=1 -I. $(CPPFLAGS)</span>
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<pre style="margin: 0;">+<span id="LC17" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+CFLAGS_MPI=$(shell $(PKG_CONFIG) --cflags mpi)</span></span>
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<pre style="margin: 0;">+<span id="LC18" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+LDFLAGS_MPI=$(shell $(PKG_CONFIG) --libs mpi)</span></span>
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<pre style="margin: 0;">+<span id="LC19" class="line" lang="diff"> SOCURRENT=2</span>
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<pre style="margin: 0;">+<span id="LC20" class="line" lang="diff"> SOREVISION=0</span>
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<pre style="margin: 0;">+<span id="LC21" class="line" lang="diff"> SOAGE=2</span>
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<pre style="margin: 0;">+<span id="LC22" class="line" lang="diff"><span class="gu" style="color: #800080; font-weight: 600;">@@ -61,16 +64,16 @@</span></span>
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<pre style="margin: 0;">+<span id="LC23" class="line" lang="diff"> $(CC) $(CFLAGS) -o $@ ffindex_apply.o $(LDFLAGS) -L. -lffindex</span>
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<pre style="margin: 0;">+<span id="LC24" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC25" class="line" lang="diff"> ffindex_apply_mpi: ffindex_apply_mpi.o $(FFINDEX_LIBS)</span>
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<pre style="margin: 0;">+<span id="LC26" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">- mpicc $(CFLAGS) -DHAVE_MPI -o $@ ffindex_apply_mpi.o $(LDFLAGS) -L. -lffindex</span></span>
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<pre style="margin: 0;">+<span id="LC27" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+ $(CC) $(CFLAGS_MPI) $(LDFLAGS_MPI) $(CFLAGS) -DHAVE_MPI -o $@ ffindex_apply_mpi.o $(LDFLAGS) -L. -lffindex</span></span>
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<pre style="margin: 0;">+<span id="LC28" class="line" lang="diff"> </span>
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29
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<pre style="margin: 0;">+<span id="LC29" class="line" lang="diff"> ffindex_apply_mpi.o: ffindex_apply_mpi.c $(FFINDEX_HEADERS)</span>
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30
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<pre style="margin: 0;">+<span id="LC30" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">- mpicc $(CFLAGS) -DHAVE_MPI -c ffindex_apply_mpi.c -o $@ </span></span>
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31
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<pre style="margin: 0;">+<span id="LC31" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+ $(CC) $(CFLAGS_MPI) $(CFLAGS) -DHAVE_MPI -c ffindex_apply_mpi.c -o $@ </span></span>
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32
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<pre style="margin: 0;">+<span id="LC32" class="line" lang="diff"> </span>
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33
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<pre style="margin: 0;">+<span id="LC33" class="line" lang="diff"> ffindex_apply_mpi_spawn: ffindex_apply_mpi_spawn.o $(FFINDEX_LIBS)</span>
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34
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<pre style="margin: 0;">+<span id="LC34" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">- mpicc $(CFLAGS) -o $@ ffindex_apply_mpi_spawn.o $(LDFLAGS)</span></span>
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<pre style="margin: 0;">+<span id="LC35" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+ $(CC) $(CFLAGS_MPI) $(LDFLAGS_MPI) $(CFLAGS) -o $@ ffindex_apply_mpi_spawn.o $(LDFLAGS)</span></span>
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<pre style="margin: 0;">+<span id="LC36" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC37" class="line" lang="diff"> ffindex_apply_mpi_spawn.o: ffindex_apply_mpi_spawn.o $(FFINDEX_HEADERS)</span>
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<pre style="margin: 0;">+<span id="LC38" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">- mpicc $(CFLAGS) -c ffindex_apply_mpi_spawn.c -o $@ </span></span>
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<pre style="margin: 0;">+<span id="LC39" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+ $(CC) $(CFLAGS_MPI) $(CFLAGS) -c ffindex_apply_mpi_spawn.c -o $@ </span></span>
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40
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<pre style="margin: 0;">+<span id="LC40" class="line" lang="diff"> </span>
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41
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<pre style="margin: 0;">+<span id="LC41" class="line" lang="diff"> ffindex_from_fasta: ffindex_from_fasta.o $(FFINDEX_LIBS)</span>
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<pre style="margin: 0;">+<span id="LC42" class="line" lang="diff"> $(CC) -o $@ ffindex_from_fasta.o $(LDFLAGS) $(STATIC)</span></pre>
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<a href="https://salsa.debian.org/med-team/ffindex/commit/5a7eeb53972e97ee264eb67d9df2f6c7089e4e14#bc34014ab4b9a49dd7a27bdd8d352912607c3a96"><strong>debian/patches/series</strong></a>
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1
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1
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<pre style="margin: 0;"> <span id="LC1" class="line" lang="plaintext">Makefile.patch</span>
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2
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2
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<pre style="margin: 0;"> <span id="LC2" class="line" lang="plaintext">basename.patch</span>
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3
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<pre style="margin: 0;">+<span id="LC3" class="line" lang="plaintext">cross.patch</span></pre>
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