diff options
| author | Ludovic Courtès <ludo@gnu.org> | 2017-02-10 17:40:25 +0100 |
|---|---|---|
| committer | Ludovic Courtès <ludo@gnu.org> | 2017-02-10 17:40:25 +0100 |
| commit | 768f0ac9dd9993827430d62d0f72a5020f476892 (patch) | |
| tree | 600f7ca7cedb221147edfc92356e11bc6c56f311 /gnu/packages/bioinformatics.scm | |
| parent | 955ba55c6bf3a22264b56274ec22cad1551c1ce6 (diff) | |
| parent | 49dbae548e92e0521ae125239282a04d8ea924cf (diff) | |
| download | patches-768f0ac9dd9993827430d62d0f72a5020f476892.tar patches-768f0ac9dd9993827430d62d0f72a5020f476892.tar.gz | |
Merge branch 'master' into core-updates
Diffstat (limited to 'gnu/packages/bioinformatics.scm')
| -rw-r--r-- | gnu/packages/bioinformatics.scm | 29 |
1 files changed, 5 insertions, 24 deletions
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index d7089959ea..a448b51c6c 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -5748,7 +5748,7 @@ track. The database is exposed as a @code{TxDb} object.") (define-public vsearch (package (name "vsearch") - (version "2.3.4") + (version "2.4.0") (source (origin (method url-fetch) @@ -5758,31 +5758,12 @@ track. The database is exposed as a @code{TxDb} object.") (file-name (string-append name "-" version ".tar.gz")) (sha256 (base32 - "1xyraxmhyx62mxx8z7c8waygvcijwkh48ms1ar60w2cv2y2sn4al")) - (modules '((guix build utils))) + "007q9a50hdw4vs2iajabvbw7qccml4r8cbqzyi5ipkkf42jk3vnr")) + (patches (search-patches "vsearch-unbundle-cityhash.patch")) (snippet '(begin - ;; Remove bundled cityhash and '-mtune=native'. - (substitute* "src/Makefile.am" - (("^AM_CXXFLAGS=-I\\$\\{srcdir\\}/cityhash \ --O3 -mtune=native -Wall -Wsign-compare") - (string-append "AM_CXXFLAGS=-lcityhash" - " -O3 -Wall -Wsign-compare")) - (("^__top_builddir__bin_vsearch_SOURCES = city.h \\\\") - "__top_builddir__bin_vsearch_SOURCES = \\") - (("^city.h \\\\") "\\") - (("^citycrc.h \\\\") "\\") - (("^libcityhash_a.*") "") - (("noinst_LIBRARIES = libcpu_sse2.a libcpu_ssse3.a \ -libcityhash.a") - "noinst_LIBRARIES = libcpu_sse2.a libcpu_ssse3.a") - (("__top_builddir__bin_vsearch_LDADD = libcpu_ssse3.a \ -libcpu_sse2.a libcityhash.a") - "__top_builddir__bin_vsearch_LDADD = libcpu_ssse3.a \ -libcpu_sse2.a -lcityhash")) - (substitute* "src/vsearch.h" - (("^\\#include \"city.h\"") "#include <city.h>") - (("^\\#include \"citycrc.h\"") "#include <citycrc.h>")) + ;; Remove bundled cityhash sources. The vsearch source is adjusted + ;; for this in the patch. (delete-file "src/city.h") (delete-file "src/citycrc.h") (delete-file "src/city.cc") |