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<h3>
Andreas Tille pushed to branch master
at <a href="https://salsa.debian.org/med-team/hmmer2">Debian Med / hmmer2</a>
</h3>
<h4>
Commits:
</h4>
<ul>
<li>
<strong><a href="https://salsa.debian.org/med-team/hmmer2/commit/cbd04d13727a3c80eb677470a102671c38aa93a0">cbd04d13</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2019-01-11T18:40:35Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Propagate hardening options
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/hmmer2/commit/d6aae46c87b1306f95e80e033411d66eb8e67f73">d6aae46c</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2019-01-11T18:55:48Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Try to create static library
</pre>
</li>
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<h4>3 changed files:</h4>
<ul>
<li class="file-stats">
<a href="#4d4a394ff4174f20019a8af4d8b6185efe92c21f">
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+
debian/patches/hardening.patch
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<li class="file-stats">
<a href="#bc34014ab4b9a49dd7a27bdd8d352912607c3a96">
debian/patches/series
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<li class="file-stats">
<a href="#f8c2e63ba03d7ba5e03eb3eb8d83b83e67d15718">
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+
debian/patches/static_lib.patch
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<h4>Changes:</h4>
<li id="4d4a394ff4174f20019a8af4d8b6185efe92c21f">
<a href="https://salsa.debian.org/med-team/hmmer2/compare/e8e828b135bc5fd7855253eea5e3ac3deb680306...d6aae46c87b1306f95e80e033411d66eb8e67f73#4d4a394ff4174f20019a8af4d8b6185efe92c21f"><strong>debian/patches/hardening.patch</strong></a>
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="diff">Author: Andreas Tille <tille@debian.org></span>
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<pre style="margin: 0;">+<span id="LC2" class="line" lang="diff">Last-Update: Fri, 11 Jan 2019 15:43:07 +0100</span>
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<pre style="margin: 0;">+<span id="LC3" class="line" lang="diff">Description: Propagate hardening options</span>
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<pre style="margin: 0;">+<span id="LC4" class="line" lang="diff"></span>
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<pre style="margin: 0;">+<span id="LC5" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">--- a/Makefile</span></span>
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<pre style="margin: 0;">+<span id="LC6" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+++ b/Makefile</span></span>
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<pre style="margin: 0;">+<span id="LC7" class="line" lang="diff"><span class="gu" style="color: #800080; font-weight: 600;">@@ -12,8 +12,8 @@ export MANDIR = ${prefix}/share/man</span></span>
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<pre style="margin: 0;">+<span id="LC8" class="line" lang="diff"> export PROGSUFFIX = 2</span>
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<pre style="margin: 0;">+<span id="LC9" class="line" lang="diff"> export MANSUFFIX = 1</span>
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<pre style="margin: 0;">+<span id="LC10" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC11" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">-export CFLAGS = -pipe -Wall -Wextra -fPIC -O3</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;">-export LIBS = -lm -pthread</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;">+export CFLAGS += -pipe -Wall -Wextra -fPIC -O3</span></span>
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<pre style="margin: 0;">+<span id="LC14" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+export LIBS = -lm -pthread</span></span>
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<pre style="margin: 0;">+<span id="LC15" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC16" class="line" lang="diff"> # The program lists below for HMMER are not necessarily</span>
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<pre style="margin: 0;">+<span id="LC17" class="line" lang="diff"> # a complete manifest. They are the list of stable programs that the</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;">--- a/src/Makefile</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;">+++ b/src/Makefile</span></span>
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<pre style="margin: 0;">+<span id="LC20" class="line" lang="diff"><span class="gu" style="color: #800080; font-weight: 600;">@@ -45,7 +45,7 @@ HDRS = config.h\</span></span>
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<pre style="margin: 0;">+<span id="LC21" class="line" lang="diff"> all: $(PROGS)</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"> ${PROGS}: %: %.o ${OBJS}</span>
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<pre style="margin: 0;">+<span id="LC24" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">- ${CC} ${CFLAGS} ${MYLIBDIR} -o $@ $@.o ${OBJS} ${MYLIBS} ${PTHREAD_LIBS} ${LIBS}</span></span>
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<pre style="margin: 0;">+<span id="LC25" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+ ${CC} ${CFLAGS} ${MYLIBDIR} -o $@ $@.o ${OBJS} ${MYLIBS} ${PTHREAD_LIBS} ${LIBS} $(LDFLAGS)</span></span>
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<pre style="margin: 0;">+<span id="LC26" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC27" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC28" class="line" lang="diff"> #################################################################</span></pre>
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<li id="bc34014ab4b9a49dd7a27bdd8d352912607c3a96">
<a href="https://salsa.debian.org/med-team/hmmer2/compare/e8e828b135bc5fd7855253eea5e3ac3deb680306...d6aae46c87b1306f95e80e033411d66eb8e67f73#bc34014ab4b9a49dd7a27bdd8d352912607c3a96"><strong>debian/patches/series</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">@@ -2,3 +2,5 @@ use_debian_packaged_biosquid.patch</td>
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<pre style="margin: 0;"> <span id="LC2" class="line" lang="plaintext">build_libhmmer.a_with-fPIC.patch</span>
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<pre style="margin: 0;"> <span id="LC3" class="line" lang="plaintext">fix_typo.patch</span>
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<pre style="margin: 0;"> <span id="LC4" class="line" lang="plaintext">fix_install.patch</span>
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<pre style="margin: 0;">+<span id="LC5" class="line" lang="plaintext">hardening.patch</span>
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<pre style="margin: 0;">+<span id="LC6" class="line" lang="plaintext">#static_lib.patch</span></pre>
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<a href="https://salsa.debian.org/med-team/hmmer2/compare/e8e828b135bc5fd7855253eea5e3ac3deb680306...d6aae46c87b1306f95e80e033411d66eb8e67f73#f8c2e63ba03d7ba5e03eb3eb8d83b83e67d15718"><strong>debian/patches/static_lib.patch</strong></a>
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="diff">Author: Andreas Tille <tille@debian.org></span>
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<pre style="margin: 0;">+<span id="LC2" class="line" lang="diff">Last-Update: Fri, 11 Jan 2019 15:43:07 +0100</span>
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<pre style="margin: 0;">+<span id="LC3" class="line" lang="diff">Description: Try to create static library</span>
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<pre style="margin: 0;">+<span id="LC4" class="line" lang="diff"> Unfortunately this does not work - thus the patch is deactivated</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"><span class="gd" style="color: #000; background-color: #fdd;">--- a/src/Makefile</span></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/src/Makefile</span></span>
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<pre style="margin: 0;">+<span id="LC8" class="line" lang="diff"><span class="gu" style="color: #800080; font-weight: 600;">@@ -54,9 +54,9 @@ ${PROGS}: %: %.o ${OBJS}</span></span>
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<pre style="margin: 0;">+<span id="LC9" class="line" lang="diff"> module: $(HMMLIB)</span>
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<pre style="margin: 0;">+<span id="LC10" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC11" class="line" lang="diff"> $(HMMLIB): $(OBJS)</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;">-# $(AR) libhmmer.a $(OBJS)</span></span>
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<pre style="margin: 0;">+<span id="LC13" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">-# $(RANLIB) libhmmer.a</span></span>
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<pre style="margin: 0;">+<span id="LC14" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">-# chmod 644 libhmmer.a</span></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;">+ $(AR) libhmmer.a $(OBJS)</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;">+ $(RANLIB) libhmmer.a</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;">+ chmod 644 libhmmer.a</span></span>
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<pre style="margin: 0;">+<span id="LC18" class="line" lang="diff"> gcc -shared $(OBJS) -o $@</span>
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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></pre>
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