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Pysam wants several functions not included in the library
[samtools.git]
/
debian
/
patches
/
build-so
diff --git
a/debian/patches/build-so
b/debian/patches/build-so
index ffe66d297fe16b5de716ee2967ec7ca5edce828e..8d25673bb94893f30f2471e3c8e2e2c57f88184d 100644
(file)
--- a/
debian/patches/build-so
+++ b/
debian/patches/build-so
@@
-1,15
+1,15
@@
-
diff --git a/Makefile b
/Makefile
-index db18333..926059b 100644
----
a/Makefile
-+++
b/Makefile
+
Index: samtools.debian
/Makefile
+===================================================================
+---
samtools.debian.orig/Makefile 2012-12-19 14:23:16.799622129 -0800
++++
samtools.debian/Makefile 2012-12-19 14:23:21.839621951 -0800
@@ -1,5 +1,5 @@
CC= gcc
-CFLAGS= -g -Wall -O2 #-m64 #-arch ppc
+CFLAGS= -g -Wall -O2 -fPIC #-m64 #-arch ppc
DFLAGS= -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1
KNETFILE_O= knetfile.o
@@ -1,5 +1,5 @@
CC= gcc
-CFLAGS= -g -Wall -O2 #-m64 #-arch ppc
+CFLAGS= -g -Wall -O2 -fPIC #-m64 #-arch ppc
DFLAGS= -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1
KNETFILE_O= knetfile.o
- LOBJS= bgzf.o kstring.o bam_aux.o bam.o bam_import.o sam.o bam_index.o \
-@@ -3
5,13 +35,13 @@ all:$(PROG)
+ LOBJS= bgzf.o kstring.o bam_aux.o bam.o bam_import.o sam
_view.o sam
.o bam_index.o \
+@@ -3
6,13 +36,13 @@
.PHONY:all lib clean cleanlocal
.PHONY:all-recur lib-recur clean-recur cleanlocal-recur install-recur
.PHONY:all lib clean cleanlocal
.PHONY:all-recur lib-recur clean-recur cleanlocal-recur install-recur
@@
-25,7
+25,7
@@
index db18333..926059b 100644
razip:razip.o razf.o $(KNETFILE_O)
$(CC) $(CFLAGS) -o $@ razf.o razip.o $(KNETFILE_O) -lz
razip:razip.o razf.o $(KNETFILE_O)
$(CC) $(CFLAGS) -o $@ razf.o razip.o $(KNETFILE_O) -lz
-@@ -7
5,8 +75,9 @@ faidx_main.o:faidx.h razf.h
+@@ -7
6,8 +76,9 @@
libbam.1.dylib-local:$(LOBJS)
libtool -dynamic $(LOBJS) -o libbam.1.dylib -lc -lz
libbam.1.dylib-local:$(LOBJS)
libtool -dynamic $(LOBJS) -o libbam.1.dylib -lc -lz