Dear Samtools developers, SAMtools fails to build when passing the option --as-needed to ld. You can find an example of build log at the following URL:
http://people.ubuntuwire.org/~lucas/ubuntu-nbs/64/samtools_0.1.10-1_lubuntu64.buildlog Luckily, this is easily solved by re-ordering the build options: --- samtools-0.1.12a.orig/examples/Makefile +++ samtools-0.1.12a/examples/Makefile @@ -40,11 +40,11 @@ ex1.bcf:ex1.bam ex1.fa.fai (cd ..; make libbam.a) 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 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. You can find more information about linker changes at the following URL. http://wiki.debian.org/ToolChain/DSOLinking By the way, thank you for writing SAMtools. It is a great program. Have a nice week-end, -- Charles Plessy Debian Med packaging team, http://www.debian.org/devel/debian-med Tsurumi, Kanagawa, Japan -- To UNSUBSCRIBE, email to [email protected] with a subject of "unsubscribe". Trouble? Contact [email protected]
