The ebuild has a CDEPEND on sci-libs/htslib but DEPEND does not include CDEPEND. Appending /newaches/gentoo/cvs/gentoo-x86 to PORTDIR_OVERLAY... * samtools-1.0.tar.bz2 SHA256 SHA512 WHIRLPOOL size ;-) ... [ ok ] * checking ebuild checksums ;-) ... [ ok ] * checking auxfile checksums ;-) ... [ ok ] * checking miscfile checksums ;-) ... [ ok ] >>> Unpacking source... >>> Unpacking samtools-1.0.tar.bz2 to /home/jer/portage/sci-biology/samtools-1.0/work >>> Source unpacked in /home/jer/portage/sci-biology/samtools-1.0/work >>> Preparing source in /home/jer/portage/sci-biology/samtools-1.0/work/samtools-1.0 ... >>> Source prepared. >>> Configuring source in /home/jer/portage/sci-biology/samtools-1.0/work/samtools-1.0 ... >>> Source configured. >>> Compiling source in /home/jer/portage/sci-biology/samtools-1.0/work/samtools-1.0 ... Package htslib was not found in the pkg-config search path. Perhaps you should add the directory containing `htslib.pc' to the PKG_CONFIG_PATH environment variable No package 'htslib' found make -j10 'LIBCURSES=-lncurses -ltinfo ' CC=x86_64-pc-linux-gnu-gcc 'LDFLAGS=-Wl,-O1 -Wl,--hash-style=gnu -Wl,--as-needed' 'CFLAGS=-frecord-gcc-switches -march=core2 -g -pipe -O2 -Wall -mcx16 -msahf -mno-movbe -mno-aes -mno-pclmul -mno-popcnt -mno-abm -mno-lwp -mno-fma -mno-fma4 -mno-xop -mno-bmi -mno-tbm -mno-avx -mno-sse4.2 -mno-sse4.1 --param l1-cache-size=32 --param l1-cache-line-size=64 --param l2-cache-size=2048 -mtune=core2 -fstack-protector -Wno-comment' HTSDIR=/usr/include HTSLIB= make: *** No rule to make target `/usr/include/htslib/khash.h', needed by `bam_index.o'. Stop. * ERROR: sci-biology/samtools-1.0::gentoo failed (compile phase): * emake failed * * If you need support, post the output of `emerge --info '=sci-biology/samtools-1.0::gentoo'`, * the complete build log and the output of `emerge -pqv '=sci-biology/samtools-1.0::gentoo'`. * The complete build log is located at '/keeps/gentoo/emergelogs/wim/sci-biology:samtools-1.0:20140924-065425.log'. * For convenience, a symlink to the build log is located at '/home/jer/portage/sci-biology/samtools-1.0/temp/build.log'. * The ebuild environment file is located at '/home/jer/portage/sci-biology/samtools-1.0/temp/environment'. * Working directory: '/home/jer/portage/sci-biology/samtools-1.0/work/samtools-1.0' * S: '/home/jer/portage/sci-biology/samtools-1.0/work/samtools-1.0'
Is sci-lisb/htslib installed?
(In reply to Justin Lecher from comment #1) > Is sci-lisb/htslib installed? Of course it isn't. It's not listed in DEPEND.
(In reply to Jeroen Roovers from comment #0) > The ebuild has a CDEPEND on sci-libs/htslib but DEPEND does not include > CDEPEND. See? ^^
+ 24 Sep 2014; Justin Lecher <jlec@gentoo.org> samtools-1.0.ebuild: + Add missing build dep, #523586 +
