34 lines
1.0 KiB
Diff
34 lines
1.0 KiB
Diff
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)
|