diff options
Diffstat (limited to 'gnu/packages/patches/preseq-1.0.2-link-with-libbam.patch')
| -rw-r--r-- | gnu/packages/patches/preseq-1.0.2-link-with-libbam.patch | 33 |
1 files changed, 0 insertions, 33 deletions
diff --git a/gnu/packages/patches/preseq-1.0.2-link-with-libbam.patch b/gnu/packages/patches/preseq-1.0.2-link-with-libbam.patch deleted file mode 100644 index 035a3b1fe4..0000000000 --- a/gnu/packages/patches/preseq-1.0.2-link-with-libbam.patch +++ /dev/null @@ -1,33 +0,0 @@ -This patch has been submitted upstream: https://github.com/smithlabcode/preseq/pull/15 - -From a937a54d56e8a6ff06237471e568154d1fa5f267 Mon Sep 17 00:00:00 2001 -From: Ricardo Wurmus <ricardo.wurmus@mdc-berlin.de> -Date: Thu, 25 Jun 2015 15:02:35 +0200 -Subject: [PATCH] Link with libbam.a if provided via LIBBAM - ---- - Makefile | 7 +++++++ - 1 file changed, 7 insertions(+) - -diff --git a/Makefile b/Makefile -index e334f2f..de310e4 100644 ---- a/preseq-master/Makefile -+++ b/preseq-master/Makefile -@@ -83,10 +83,17 @@ $(PROGS): $(addprefix $(SMITHLAB_CPP)/, \ - preseq: continued_fraction.o load_data_for_complexity.o moment_sequence.o - - ifdef SAMTOOLS_DIR -+ifdef LIBBAM -+LIBS += -pthread -+bam2mr preseq: $(addprefix $(SMITHLAB_CPP)/, SAM.o) \ -+ $(LIBBAM) -+else - bam2mr preseq: $(addprefix $(SMITHLAB_CPP)/, SAM.o) \ - $(addprefix $(SAMTOOLS_DIR)/, sam.o bam.o bam_import.o bam_pileup.o \ - faidx.o bam_aux.o kstring.o knetfile.o sam_header.o razf.o bgzf.o) - endif -+endif # SAMTOOLS_DIR -+ - - %.o: %.cpp %.hpp - $(CXX) $(CXXFLAGS) -c -o $@ $< $(INCLUDEARGS) |