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206af46fe1
* gnu/packages/bioinformatics.scm (vsearch): Update to 2.4.0. [source]: Convert most operations in the snippet to patch form and adjust for 2.4.0. * gnu/packages/patches/vsearch-unbundle-cityhash.patch: New file. * gnu/local.mk (dist_patch_DATA): Add it.
73 lines
2 KiB
Diff
73 lines
2 KiB
Diff
diff --git a/src/Makefile.am b/src/Makefile.am
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index e56a8a2..4adcc48 100644
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--- a/src/Makefile.am
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+++ b/src/Makefile.am
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@@ -3,7 +3,7 @@ bin_PROGRAMS = $(top_builddir)/bin/vsearch
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if TARGET_PPC
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AM_CXXFLAGS=-Wall -Wsign-compare -O3 -g -mcpu=power8
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else
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-AM_CXXFLAGS=-Wall -Wsign-compare -O3 -g
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+AM_CXXFLAGS=-Wall -Wsign-compare -O3 -g -lcityhash
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endif
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AM_CFLAGS=$(AM_CXXFLAGS)
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@@ -18,8 +18,6 @@ allpairs.h \
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arch.h \
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bitmap.h \
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chimera.h \
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-city.h \
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-citycrc.h \
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cluster.h \
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cpu.h \
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db.h \
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@@ -59,31 +57,26 @@ xstring.h
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if TARGET_PPC
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libcpu_a_SOURCES = cpu.cc $(VSEARCHHEADERS)
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-noinst_LIBRARIES = libcpu.a libcityhash.a
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+noinst_LIBRARIES = libcpu.a
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else
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libcpu_sse2_a_SOURCES = cpu.cc $(VSEARCHHEADERS)
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libcpu_sse2_a_CXXFLAGS = $(AM_CXXFLAGS) -msse2
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libcpu_ssse3_a_SOURCES = cpu.cc $(VSEARCHHEADERS)
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libcpu_ssse3_a_CXXFLAGS = $(AM_CXXFLAGS) -mssse3 -DSSSE3
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-noinst_LIBRARIES = libcpu_sse2.a libcpu_ssse3.a libcityhash.a
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+noinst_LIBRARIES = libcpu_sse2.a libcpu_ssse3.a
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endif
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-libcityhash_a_SOURCES = city.cc city.h
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-
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if TARGET_WIN
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-libcityhash_a_CXXFLAGS = -Wall -Wno-sign-compare -O3 -g -D_MSC_VER
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-__top_builddir__bin_vsearch_LDFLAGS = -static
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-__top_builddir__bin_vsearch_LDADD = libregex.a libcityhash.a libcpu_ssse3.a libcpu_sse2.a
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+__top_builddir__bin_vsearch_LDFLAGS = -static -lcityhash
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+__top_builddir__bin_vsearch_LDADD = libregex.a libcpu_ssse3.a libcpu_sse2.a
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else
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-libcityhash_a_CXXFLAGS = -Wall -Wno-sign-compare -O3 -g
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-
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if TARGET_PPC
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-__top_builddir__bin_vsearch_LDADD = libcityhash.a libcpu.a
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+__top_builddir__bin_vsearch_LDADD = libcpu.a
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else
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-__top_builddir__bin_vsearch_LDADD = libcityhash.a libcpu_ssse3.a libcpu_sse2.a
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+__top_builddir__bin_vsearch_LDADD = libcpu_ssse3.a libcpu_sse2.a
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endif
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endif
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diff --git a/src/vsearch.h b/src/vsearch.h
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index f2c244b..5f51bbe 100644
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--- a/src/vsearch.h
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+++ b/src/vsearch.h
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@@ -148,7 +148,7 @@
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#include <bzlib.h>
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#endif
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-#include "city.h"
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+#include <city.h>
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#include "md5.h"
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#include "sha1.h"
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