On 10 Dec 2010, at 11:57, Charles Plessy wrote:
SAMtools fails to build when passing the option --as-needed to ld.
[...]
calDepth:../libbam.a calDepth.c
- gcc -g -Wall -O2 -I.. calDepth.c -o $@ -lm -lz -L.. -lbam
+ gcc -g -Wall -O2 -I.. calDepth.c -o $@ -L.. -lbam -lm -lz
Applied, and similarly in bcftools/Makefile and the main Makefile.
(I'm a little surprised those other two built for you -- it wasn't
hard to break those in r891 by building with gcc -static.)
Makefile.mingw appears to be close to correct, but perhaps someone
should check it properly.
The behaviour of the linker is changing in Ubuntu and Fedora and
will change in
Debian, rendering this patch necessary for building SAMtools on
these platforms.
As there is no down-side, it's really simply good hygiene to put the
system libraries last in the link command. I made similar fixes in
svn r519, but problems had since sneaked back in.
Thanks,
John
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