Code:
Using gnu compiler for Inchworm and Chrysalis cd Inchworm && (test -e configure || autoreconf) \ && ./configure --prefix=`pwd` && make install checking for a BSD-compatible install... /usr/bin/install -c checking whether build environment is sane... yes checking for gawk... gawk checking whether make sets $(MAKE)... yes checking for g++... g++ checking for C++ compiler default output file name... a.out checking whether the C++ compiler works... yes checking whether we are cross compiling... no checking for suffix of executables... checking for suffix of object files... o checking whether we are using the GNU C++ compiler... yes checking whether g++ accepts -g... yes checking for style of include used by make... GNU checking dependency style of g++... gcc3 checking for library containing cos... none required configure: creating ./config.status config.status: creating Makefile config.status: creating src/Makefile config.status: creating config.h config.status: config.h is unchanged config.status: executing depfiles commands make[1]: Entering directory `/home/rynka/trinity/Inchworm' Making install in src make[2]: Entering directory `/home/rynka/trinity/Inchworm/src' make[3]: Entering directory `/home/rynka/trinity/Inchworm/src' test -z "/home/rynka/trinity/Inchworm/bin" || mkdir -p -- "/home/rynka/trinity/Inchworm/bin" /usr/bin/install -c 'inchworm' '/home/rynka/trinity/Inchworm/bin/inchworm' /usr/bin/install -c 'cigar_tweaker' '/home/rynka/trinity/Inchworm/bin/cigar_tweaker' /usr/bin/install -c 'pull_reads_with_kmers' '/home/rynka/trinity/Inchworm/bin/pull_reads_with_kmers' /usr/bin/install -c 'FastaToDeBruijn' '/home/rynka/trinity/Inchworm/bin/FastaToDeBruijn' /usr/bin/install -c 'fastaToKmerCoverageStats' '/home/rynka/trinity/Inchworm/bin/fastaToKmerCoverageStats' make[3]: Nothing to be done for `install-data-am'. make[3]: Leaving directory `/home/rynka/trinity/Inchworm/src' make[2]: Leaving directory `/home/rynka/trinity/Inchworm/src' make[2]: Entering directory `/home/rynka/trinity/Inchworm' make[3]: Entering directory `/home/rynka/trinity/Inchworm' make[3]: Nothing to be done for `install-exec-am'. make[3]: Nothing to be done for `install-data-am'. make[3]: Leaving directory `/home/rynka/trinity/Inchworm' make[2]: Leaving directory `/home/rynka/trinity/Inchworm' make[1]: Leaving directory `/home/rynka/trinity/Inchworm' cd Chrysalis && make UNSUPPORTED=yes make[1]: Entering directory `/home/rynka/trinity/Chrysalis' make[1]: Nothing to be done for `all'. make[1]: Leaving directory `/home/rynka/trinity/Chrysalis' cd trinity-plugins/rsem && make make[1]: Entering directory `/home/rynka/trinity/trinity-plugins/rsem-1.2.3' g++ -Wall -O2 -c -I. parseIt.cpp In file included from sam/bam.h:52:0, from SamParser.h:11, from parseIt.cpp:26: sam/bgzf.h:29:18: fatal error: zlib.h: No such file or directory compilation terminated. make[1]: *** [parseIt.o] Error 1 make[1]: Leaving directory `/home/rynka/trinity/trinity-plugins/rsem-1.2.3' make: *** [all] Error 2
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