printf ' ' | fink --no-use-binary-dist --yes --build-as-nobody rebuild rsearch 2>&1 The package 'rsearch' will be built without being installed. Reading build dependency for rsearch-1.1-10... Reading dependency for rsearch-1.1-10... Reading build conflict for rsearch-1.1-10... The following package will be rebuilt: rsearch curl --connect-timeout 30 -f -L -A 'fink/0.37.0' -O http://distfiles.master.finkmirrors.net/distfiles/rsearch-1.1.tar.gz % Total % Received % Xferd Average Speed Time Time Time Current Dload Upload Total Spent Left Speed 0 0 0 0 0 0 0 0 --:--:-- --:--:-- --:--:-- 0 0 537k 0 1206 0 0 5199 0 0:01:45 --:--:-- 0:01:45 5198 83 537k 83 450k 0 0 375k 0 0:00:01 0:00:01 --:--:-- 375k 100 537k 100 537k 0 0 408k 0 0:00:01 0:00:01 --:--:-- 407k Setting runtime build-lock... dpkg-deb -b /sw/build.build/root-fink-buildlock-rsearch-1.1-10 /sw/build.build dpkg-deb: building package `fink-buildlock-rsearch-1.1-10' in `/sw/build.build/fink-buildlock-rsearch-1.1-10_2014.07.29-19.04.15_darwin-x86_64.deb'. Installing build-lock package... /sw/bin/dpkg-lockwait -i /sw/build.build/fink-buildlock-rsearch-1.1-10_2014.07.29-19.04.15_darwin-x86_64.deb Selecting previously deselected package fink-buildlock-rsearch-1.1-10. (Reading database ... 4296 files and directories currently installed.) Unpacking fink-buildlock-rsearch-1.1-10 (from .../fink-buildlock-rsearch-1.1-10_2014.07.29-19.04.15_darwin-x86_64.deb) ... Setting up fink-buildlock-rsearch-1.1-10 (2014.07.29-19.04.15) ... sudo -u fink-bld [ENV] sh -c /tmp/fink.6G5Zg env LANG=C LC_ALL=C /sw/bin/tar --no-same-owner --no-same-permissions -xvf /sw/src/rsearch-1.1.tar.gz rsearch-1.1/ rsearch-1.1/cm.c rsearch-1.1/makernamat.c rsearch-1.1/display.c rsearch-1.1/histogram.c rsearch-1.1/histogram.h rsearch-1.1/LICENSE rsearch-1.1/squid/ rsearch-1.1/squid/LOG rsearch-1.1/squid/Man/ rsearch-1.1/squid/Man/seqstat.man rsearch-1.1/squid/Man/sreformat.man rsearch-1.1/squid/Man/shuffle.man rsearch-1.1/squid/Man/afetch.man rsearch-1.1/squid/Man/sindex.man rsearch-1.1/squid/Man/sfetch.man rsearch-1.1/squid/Man/alistat.man rsearch-1.1/squid/revcomp.c rsearch-1.1/squid/Bugs/ rsearch-1.1/squid/Bugs/BUGTRAX rsearch-1.1/squid/Docs/ rsearch-1.1/squid/Docs/intro.tex rsearch-1.1/squid/Docs/squid-format.tex rsearch-1.1/squid/Docs/selex.tex rsearch-1.1/squid/Docs/gsi-format.tex rsearch-1.1/squid/Docs/abstract.tex rsearch-1.1/squid/Docs/main.tex rsearch-1.1/squid/Docs/formats.tex rsearch-1.1/squid/Docs/ssi-format.tex rsearch-1.1/squid/rk.c rsearch-1.1/squid/rk.h rsearch-1.1/squid/shuffle_main.c rsearch-1.1/squid/00CHECKLIST rsearch-1.1/squid/sre_ctype.c rsearch-1.1/squid/dayhoff.c rsearch-1.1/squid/hsregex.c rsearch-1.1/squid/a2m.c rsearch-1.1/squid/eps.c rsearch-1.1/squid/gki.c rsearch-1.1/squid/gki.h rsearch-1.1/squid/gsi.c rsearch-1.1/squid/gsi.h rsearch-1.1/squid/msa.c rsearch-1.1/squid/msa.h rsearch-1.1/squid/msf.c rsearch-1.1/squid/sfetch_main.c rsearch-1.1/squid/ssi.c rsearch-1.1/squid/ssi.h rsearch-1.1/squid/compstruct_main.c rsearch-1.1/squid/configure rsearch-1.1/squid/selex.c rsearch-1.1/squid/stopwatch.c rsearch-1.1/squid/stopwatch.h rsearch-1.1/squid/shuffle.c rsearch-1.1/squid/sre_string.c rsearch-1.1/squid/vectorops.c rsearch-1.1/squid/vectorops.h rsearch-1.1/squid/squid.h.in rsearch-1.1/squid/install-sh rsearch-1.1/squid/sreformat_main.c rsearch-1.1/squid/config.sub rsearch-1.1/squid/stack.c rsearch-1.1/squid/phylip.c rsearch-1.1/squid/file.c rsearch-1.1/squid/getopt.c rsearch-1.1/squid/Makefile.in rsearch-1.1/squid/seqsplit_main.c rsearch-1.1/squid/Licenses/ rsearch-1.1/squid/Licenses/gnu rsearch-1.1/squid/Licenses/COPYRIGHT.gnu rsearch-1.1/squid/Licenses/LICENSE.gnu rsearch-1.1/squid/Testsuite/ rsearch-1.1/squid/Testsuite/x-base-sreformat rsearch-1.1/squid/Testsuite/x-base-afetch rsearch-1.1/squid/Testsuite/rndspeed_main.c rsearch-1.1/squid/Testsuite/x-base-sfetch rsearch-1.1/squid/Testsuite/x-base-sindex rsearch-1.1/squid/Testsuite/Makefile.in rsearch-1.1/squid/Testsuite/x-base-seqstat rsearch-1.1/squid/Testsuite/x-base-shuffle rsearch-1.1/squid/Testsuite/bug-1-sfetch-paths rsearch-1.1/squid/Testsuite/testsuite.pm rsearch-1.1/squid/Testsuite/iospeed_main.c rsearch-1.1/squid/Testsuite/sqdconfig_main.c rsearch-1.1/squid/Testsuite/x-base-alistat rsearch-1.1/squid/test_main.c rsearch-1.1/squid/sqerror.c rsearch-1.1/squid/alignio.c rsearch-1.1/squid/clustal.c rsearch-1.1/squid/cluster.c rsearch-1.1/squid/translate_main.c rsearch-1.1/squid/types.c rsearch-1.1/squid/seqstat_main.c rsearch-1.1/squid/gsi64.c rsearch-1.1/squid/gsi64.h rsearch-1.1/squid/sqio.c rsearch-1.1/squid/seqencode.c rsearch-1.1/squid/stockholm.c rsearch-1.1/squid/stockholm.h rsearch-1.1/squid/sqfuncs.h rsearch-1.1/squid/afetch_main.c rsearch-1.1/squid/weight_main.c rsearch-1.1/squid/INSTALL rsearch-1.1/squid/squidconf.h.in rsearch-1.1/squid/translate.c rsearch-1.1/squid/Formats/ rsearch-1.1/squid/Formats/a2m rsearch-1.1/squid/Formats/gcg rsearch-1.1/squid/Formats/msf rsearch-1.1/squid/Formats/pir rsearch-1.1/squid/Formats/regression.dat rsearch-1.1/squid/Formats/embl rsearch-1.1/squid/Formats/clustal rsearch-1.1/squid/Formats/fasta rsearch-1.1/squid/Formats/selex.1 rsearch-1.1/squid/Formats/selex.2 rsearch-1.1/squid/Formats/gcgdata.1 rsearch-1.1/squid/Formats/gcgdata.2 rsearch-1.1/squid/Formats/genbank rsearch-1.1/squid/Formats/phylip rsearch-1.1/squid/Formats/stockholm.1 rsearch-1.1/squid/Formats/stockholm.2 rsearch-1.1/squid/Formats/swissprot rsearch-1.1/squid/Formats/formattest.pl rsearch-1.1/squid/sre_random.c rsearch-1.1/squid/sre_random.h rsearch-1.1/squid/sindex_main.c rsearch-1.1/squid/compalign_main.c rsearch-1.1/squid/aligneval.c rsearch-1.1/squid/alistat_main.c rsearch-1.1/squid/revcomp_main.c rsearch-1.1/squid/sre_math.c rsearch-1.1/squid/squidcore.c rsearch-1.1/squid/iupac.c rsearch-1.1/squid/weight.c rsearch-1.1/README rsearch-1.1/configure rsearch-1.1/rnamat.c rsearch-1.1/rnamat.h rsearch-1.1/rna_ops.c rsearch-1.1/structs.h rsearch-1.1/install-sh rsearch-1.1/stats.c rsearch-1.1/stats.h rsearch-1.1/parsetree.c rsearch-1.1/scancyk.c rsearch-1.1/cmio.c rsearch-1.1/smallcyk.c rsearch-1.1/matrices/ rsearch-1.1/matrices/RIBOSUM45-30.mat rsearch-1.1/matrices/RIBOSUM45-35.mat rsearch-1.1/matrices/RIBOSUM45-40.mat rsearch-1.1/matrices/RIBOSUM45-45.mat rsearch-1.1/matrices/RIBOSUM45-50.mat rsearch-1.1/matrices/RIBOSUM45-55.mat rsearch-1.1/matrices/RIBOSUM45-60.mat rsearch-1.1/matrices/RIBOSUM45-65.mat rsearch-1.1/matrices/RIBOSUM45-70.mat rsearch-1.1/matrices/RIBOSUM45-75.mat rsearch-1.1/matrices/RIBOSUM45-80.mat rsearch-1.1/matrices/RIBOSUM65-25.mat rsearch-1.1/matrices/RIBOSUM65-30.mat rsearch-1.1/matrices/RIBOSUM65-35.mat rsearch-1.1/matrices/RIBOSUM60-25.mat rsearch-1.1/matrices/RIBOSUM65-40.mat rsearch-1.1/matrices/RIBOSUM60-30.mat rsearch-1.1/matrices/RIBOSUM65-45.mat rsearch-1.1/matrices/RIBOSUM60-35.mat rsearch-1.1/matrices/RIBOSUM65-50.mat rsearch-1.1/matrices/RIBOSUM60-40.mat rsearch-1.1/matrices/RIBOSUM65-55.mat rsearch-1.1/matrices/RIBOSUM60-45.mat rsearch-1.1/matrices/RIBOSUM65-60.mat rsearch-1.1/matrices/RIBOSUM60-50.mat rsearch-1.1/matrices/RIBOSUM65-65.mat rsearch-1.1/matrices/RIBOSUM60-55.mat rsearch-1.1/matrices/RIBOSUM65-70.mat rsearch-1.1/matrices/RIBOSUM60-60.mat rsearch-1.1/matrices/RIBOSUM65-75.mat rsearch-1.1/matrices/RIBOSUM60-65.mat rsearch-1.1/matrices/RIBOSUM65-80.mat rsearch-1.1/matrices/RIBOSUM60-70.mat rsearch-1.1/matrices/RIBOSUM65-85.mat rsearch-1.1/matrices/RIBOSUM60-75.mat rsearch-1.1/matrices/RIBOSUM65-90.mat rsearch-1.1/matrices/RIBOSUM60-80.mat rsearch-1.1/matrices/RIBOSUM65-95.mat rsearch-1.1/matrices/RIBOSUM60-85.mat rsearch-1.1/matrices/RIBOSUM60-90.mat rsearch-1.1/matrices/RIBOSUM60-95.mat rsearch-1.1/matrices/RIBOSUM85-25.mat rsearch-1.1/matrices/RIBOSUM85-30.mat rsearch-1.1/matrices/RIBOSUM85-35.mat rsearch-1.1/matrices/RIBOSUM80-25.mat rsearch-1.1/matrices/RIBOSUM85-40.mat rsearch-1.1/matrices/RIBOSUM80-30.mat rsearch-1.1/matrices/RIBOSUM85-45.mat rsearch-1.1/matrices/RIBOSUM80-35.mat rsearch-1.1/matrices/RIBOSUM85-50.mat rsearch-1.1/matrices/RIBOSUM80-40.mat rsearch-1.1/matrices/RIBOSUM85-55.mat rsearch-1.1/matrices/RIBOSUM80-45.mat rsearch-1.1/matrices/RIBOSUM85-60.mat rsearch-1.1/matrices/RIBOSUM80-50.mat rsearch-1.1/matrices/RIBOSUM85-65.mat rsearch-1.1/matrices/RIBOSUM80-55.mat rsearch-1.1/matrices/RIBOSUM85-70.mat rsearch-1.1/matrices/RIBOSUM80-60.mat rsearch-1.1/matrices/RIBOSUM85-75.mat rsearch-1.1/matrices/RIBOSUM80-65.mat rsearch-1.1/matrices/RIBOSUM85-80.mat rsearch-1.1/matrices/RIBOSUM80-70.mat rsearch-1.1/matrices/RIBOSUM85-85.mat rsearch-1.1/matrices/RIBOSUM80-75.mat rsearch-1.1/matrices/RIBOSUM85-90.mat rsearch-1.1/matrices/RIBOSUM80-80.mat rsearch-1.1/matrices/RIBOSUM85-95.mat rsearch-1.1/matrices/RIBOSUM80-85.mat rsearch-1.1/matrices/RIBOSUM80-90.mat rsearch-1.1/matrices/RIBOSUM80-95.mat rsearch-1.1/matrices/RIBOSUM55-25.mat rsearch-1.1/matrices/RIBOSUM55-30.mat rsearch-1.1/matrices/RIBOSUM100.mat rsearch-1.1/matrices/RIBOSUM55-35.mat rsearch-1.1/matrices/RIBOSUM55-40.mat rsearch-1.1/matrices/RIBOSUM100-25.mat rsearch-1.1/matrices/RIBOSUM55-45.mat rsearch-1.1/matrices/RIBOSUM100-30.mat rsearch-1.1/matrices/RIBOSUM55-50.mat rsearch-1.1/matrices/RIBOSUM100-35.mat rsearch-1.1/matrices/RIBOSUM55-55.mat rsearch-1.1/matrices/RIBOSUM100-40.mat rsearch-1.1/matrices/RIBOSUM55-60.mat rsearch-1.1/matrices/RIBOSUM100-45.mat rsearch-1.1/matrices/RIBOSUM55-65.mat rsearch-1.1/matrices/RIBOSUM100-50.mat rsearch-1.1/matrices/RIBOSUM55-70.mat rsearch-1.1/matrices/RIBOSUM100-55.mat rsearch-1.1/matrices/RIBOSUM55-75.mat rsearch-1.1/matrices/RIBOSUM100-60.mat rsearch-1.1/matrices/RIBOSUM55-80.mat rsearch-1.1/matrices/RIBOSUM100-65.mat rsearch-1.1/matrices/RIBOSUM55-85.mat rsearch-1.1/matrices/RIBOSUM100-70.mat rsearch-1.1/matrices/RIBOSUM55-90.mat rsearch-1.1/matrices/RIBOSUM100-75.mat rsearch-1.1/matrices/RIBOSUM55-95.mat rsearch-1.1/matrices/RIBOSUM100-80.mat rsearch-1.1/matrices/RIBOSUM100-85.mat rsearch-1.1/matrices/RIBOSUM100-90.mat rsearch-1.1/matrices/RIBOSUM100-95.mat rsearch-1.1/matrices/RIBOSUM75-25.mat rsearch-1.1/matrices/RIBOSUM75-30.mat rsearch-1.1/matrices/RIBOSUM75-35.mat rsearch-1.1/matrices/RIBOSUM70-25.mat rsearch-1.1/matrices/RIBOSUM75-40.mat rsearch-1.1/matrices/RIBOSUM70-30.mat rsearch-1.1/matrices/RIBOSUM75-45.mat rsearch-1.1/matrices/RIBOSUM70-35.mat rsearch-1.1/matrices/RIBOSUM75-50.mat rsearch-1.1/matrices/RIBOSUM70-40.mat rsearch-1.1/matrices/RIBOSUM75-55.mat rsearch-1.1/matrices/RIBOSUM70-45.mat rsearch-1.1/matrices/RIBOSUM75-60.mat rsearch-1.1/matrices/RIBOSUM70-50.mat rsearch-1.1/matrices/RIBOSUM75-65.mat rsearch-1.1/matrices/RIBOSUM70-55.mat rsearch-1.1/matrices/RIBOSUM75-70.mat rsearch-1.1/matrices/RIBOSUM70-60.mat rsearch-1.1/matrices/RIBOSUM75-75.mat rsearch-1.1/matrices/RIBOSUM70-65.mat rsearch-1.1/matrices/RIBOSUM75-80.mat rsearch-1.1/matrices/RIBOSUM70-70.mat rsearch-1.1/matrices/RIBOSUM75-85.mat rsearch-1.1/matrices/RIBOSUM70-75.mat rsearch-1.1/matrices/RIBOSUM75-90.mat rsearch-1.1/matrices/RIBOSUM70-80.mat rsearch-1.1/matrices/RIBOSUM75-95.mat rsearch-1.1/matrices/RIBOSUM70-85.mat rsearch-1.1/matrices/RIBOSUM70-90.mat rsearch-1.1/matrices/RIBOSUM70-95.mat rsearch-1.1/matrices/RIBOSUM95-30.mat rsearch-1.1/matrices/RIBOSUM95-35.mat rsearch-1.1/matrices/RIBOSUM95-40.mat rsearch-1.1/matrices/RIBOSUM90-30.mat rsearch-1.1/matrices/RIBOSUM95-45.mat rsearch-1.1/matrices/RIBOSUM90-35.mat rsearch-1.1/matrices/RIBOSUM95-50.mat rsearch-1.1/matrices/RIBOSUM90-40.mat rsearch-1.1/matrices/RIBOSUM95-55.mat rsearch-1.1/matrices/RIBOSUM90-45.mat rsearch-1.1/matrices/RIBOSUM95-60.mat rsearch-1.1/matrices/RIBOSUM90-50.mat rsearch-1.1/matrices/RIBOSUM95-65.mat rsearch-1.1/matrices/RIBOSUM90-55.mat rsearch-1.1/matrices/RIBOSUM95-70.mat rsearch-1.1/matrices/RIBOSUM90-60.mat rsearch-1.1/matrices/RIBOSUM95-75.mat rsearch-1.1/matrices/RIBOSUM90-65.mat rsearch-1.1/matrices/RIBOSUM45.mat rsearch-1.1/matrices/RIBOSUM95-80.mat rsearch-1.1/matrices/RIBOSUM90-70.mat rsearch-1.1/matrices/RIBOSUM95-85.mat rsearch-1.1/matrices/RIBOSUM90-75.mat rsearch-1.1/matrices/RIBOSUM55.mat rsearch-1.1/matrices/RIBOSUM95-90.mat rsearch-1.1/matrices/RIBOSUM90-80.mat rsearch-1.1/matrices/RIBOSUM60.mat rsearch-1.1/matrices/RIBOSUM95-95.mat rsearch-1.1/matrices/RIBOSUM90-85.mat rsearch-1.1/matrices/RIBOSUM65.mat rsearch-1.1/matrices/RIBOSUM90-90.mat rsearch-1.1/matrices/RIBOSUM70.mat rsearch-1.1/matrices/RIBOSUM90-95.mat rsearch-1.1/matrices/RIBOSUM75.mat rsearch-1.1/matrices/RIBOSUM80.mat rsearch-1.1/matrices/RIBOSUM85.mat rsearch-1.1/matrices/RIBOSUM90.mat rsearch-1.1/matrices/RIBOSUM95.mat rsearch-1.1/Makefile.in rsearch-1.1/funcs.h rsearch-1.1/buildcm.c rsearch-1.1/alphabet.c rsearch-1.1/nstack.c rsearch-1.1/nstack.h rsearch-1.1/modelconfig.c rsearch-1.1/mpifuncs.c rsearch-1.1/mpifuncs.h rsearch-1.1/INSTALL rsearch-1.1/modelmaker.c rsearch-1.1/globals.c rsearch-1.1/CHANGES rsearch-1.1/examples/ rsearch-1.1/examples/pf-rnasep.stk rsearch-1.1/examples/ec-rnasep.stk rsearch-1.1/examples/hs-rnasep.stk rsearch-1.1/examples/af-Asn-tRNA.stk rsearch-1.1/examples/sc-Ala-tRNA.stk rsearch-1.1/examples/bs-srp.stk rsearch-1.1/examples/sc-rnasep.stk rsearch-1.1/examples/bs-rnasep.stk rsearch-1.1/examples/hs-srp.stk rsearch-1.1/examples/mj-rnasep.stk rsearch-1.1/examples/mir-40.stk rsearch-1.1/rsearch.c sudo -u fink-bld [ENV] sh -c /tmp/fink.Hc_fE ./configure --prefix=/sw Welcome to RSEARCH... configuring for your system. checking for icc... no checking for gcc... gcc checking for C compiler default output... 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 gcc accepts -g... yes checking for gcc option to accept ANSI C... none needed checking default CFLAGS... yes checking Intel compiler... no checking log, exp, and floor available without linking... yes checking for a BSD-compatible install... /usr/bin/install -c checking whether your make is GNU make... yes, it is. Configuration complete. Writing Makefiles and such... configure: creating ./config.status config.status: creating Makefile config.status: creating squid/Makefile configure: configuring in squid configure: running /bin/sh './configure' --prefix=/sw '--prefix=/sw' 'CPPFLAGS=-I/sw/include' 'LDFLAGS=-L/sw/lib' --cache-file=/dev/null --srcdir=. Welcome to SQUID... configuring for your system. checking for gcc... gcc checking for C compiler default output... a.out checking whether the C compiler works... yes checking whether we are cross compiling... no checking for executable suffix... checking for object suffix... o checking whether we are using the GNU C compiler... yes checking whether gcc accepts -g... yes checking whether ln -s works... yes checking for ranlib... ranlib checking whether your make is GNU make... yes, it is. checking whether byte ordering is bigendian... no checking for ntohs... yes checking for ntohl... yes checking for htons... yes checking for htonl... yes checking how to run the C preprocessor... gcc -E checking for ANSI C header files... rm: conftest.dSYM: is a directory rm: conftest.dSYM: is a directory yes checking for sys/types.h... yes checking for sys/stat.h... yes checking for stdlib.h... yes checking for string.h... yes checking for memory.h... yes checking for strings.h... yes checking for inttypes.h... yes checking for stdint.h... yes checking for unistd.h... yes checking for unsigned short... yes checking size of unsigned short... 2 checking for unsigned int... yes checking size of unsigned int... 4 checking for unsigned long... yes checking size of unsigned long... 8 checking for unsigned long long... yes checking size of unsigned long long... 8 checking for strtoul... yes checking for strtoull... yes checking whether fpos_t is an arithmetic datatype... no. checking for strtoull... (cached) yes checking for ftello... yes checking for fseeko... yes checking for ftello64... no checking for fseeko64... no checking for ftell64... no checking for fseek64... no checking for stat64... yes checking for struct stat64... no! checking for off_t... yes checking size of off_t... 8 checking for off64_t... no checking size of off64_t... 0 checking for fpos_t... yes checking size of fpos_t... 8 Configuration complete. Writing Makefiles and such... configure: creating ./config.status config.status: creating Makefile config.status: creating Testsuite/Makefile config.status: creating squid.h config.status: creating squidconf.h make (cd squid; make CC="gcc" CFLAGS="-O3"; make module) gcc -O3 -DHAVE_CONFIG_H -c afetch_main.c gcc -O3 -DHAVE_CONFIG_H -c a2m.c gcc -O3 -DHAVE_CONFIG_H -c aligneval.c gcc -O3 -DHAVE_CONFIG_H -c alignio.c gcc -O3 -DHAVE_CONFIG_H -c clustal.c Creating version.h... gcc -O3 -DHAVE_CONFIG_H -c cluster.c gcc -O3 -DHAVE_CONFIG_H -c dayhoff.c gcc -O3 -DHAVE_CONFIG_H -c eps.c gcc -O3 -DHAVE_CONFIG_H -c file.c gcc -O3 -DHAVE_CONFIG_H -c getopt.c gcc -O3 -DHAVE_CONFIG_H -c gki.c gcc -O3 -DHAVE_CONFIG_H -c gsi.c gcc -O3 -DHAVE_CONFIG_H -c hsregex.c gcc -O3 -DHAVE_CONFIG_H -c iupac.c gcc -O3 -DHAVE_CONFIG_H -c msa.c gcc -O3 -DHAVE_CONFIG_H -c msf.c gcc -O3 -DHAVE_CONFIG_H -c phylip.c gcc -O3 -DHAVE_CONFIG_H -c revcomp.c gcc -O3 -DHAVE_CONFIG_H -c rk.c gcc -O3 -DHAVE_CONFIG_H -c selex.c gcc -O3 -DHAVE_CONFIG_H -c seqencode.c gcc -O3 -DHAVE_CONFIG_H -c shuffle.c gcc -O3 -DHAVE_CONFIG_H -c sqerror.c gcc -O3 -DHAVE_CONFIG_H -c sqio.c gcc -O3 -DHAVE_CONFIG_H -c squidcore.c gcc -O3 -DHAVE_CONFIG_H -c sre_ctype.c gcc -O3 -DHAVE_CONFIG_H -c sre_math.c gcc -O3 -DHAVE_CONFIG_H -c sre_random.c gcc -O3 -DHAVE_CONFIG_H -c sre_string.c gcc -O3 -DHAVE_CONFIG_H -c ssi.c gcc -O3 -DHAVE_CONFIG_H -c stack.c gcc -O3 -DHAVE_CONFIG_H -c stockholm.c gcc -O3 -DHAVE_CONFIG_H -c stopwatch.c gcc -O3 -DHAVE_CONFIG_H -c translate.c gcc -O3 -DHAVE_CONFIG_H -c types.c ssi.c:748:35: warning: comparison between pointer and integer ('unsigned long long' and 'void *') (unsigned long long) d_off == NULL? 0 : d_off->off.i64, ~~~~~~~~~~~~~~~~~~~~~~~~~~ ^ ~~~~ ssi.c:748:8: warning: format specifies type 'unsigned long long' but the argument has type 'unsigned long' [-Wformat] (unsigned long long) d_off == NULL? 0 : d_off->off.i64, ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gcc -O3 -DHAVE_CONFIG_H -c vectorops.c gcc -O3 -DHAVE_CONFIG_H -c weight.c gcc -O3 -DHAVE_CONFIG_H -c alistat_main.c gcc -O3 -DHAVE_CONFIG_H -c compalign_main.c gcc -O3 -DHAVE_CONFIG_H -c compstruct_main.c gcc -O3 -DHAVE_CONFIG_H -c revcomp_main.c gcc -O3 -DHAVE_CONFIG_H -c seqsplit_main.c gcc -O3 -DHAVE_CONFIG_H -c seqstat_main.c gcc -O3 -DHAVE_CONFIG_H -c sfetch_main.c 2 warnings generated. gcc -O3 -DHAVE_CONFIG_H -c shuffle_main.c gcc -O3 -DHAVE_CONFIG_H -c sindex_main.c gcc -O3 -DHAVE_CONFIG_H -c sreformat_main.c gcc -O3 -DHAVE_CONFIG_H -c translate_main.c gcc -O3 -DHAVE_CONFIG_H -c weight_main.c gcc -O3 -DHAVE_CONFIG_H -o afetch afetch_main.o a2m.o aligneval.o alignio.o clustal.o cluster.o dayhoff.o eps.o file.o getopt.o gki.o gsi.o hsregex.o iupac.o msa.o msf.o phylip.o revcomp.o rk.o selex.o seqencode.o shuffle.o sqerror.o sqio.o squidcore.o sre_ctype.o sre_math.o sre_random.o sre_string.o ssi.o stack.o stockholm.o stopwatch.o translate.o types.o vectorops.o weight.o -lm gcc -O3 -DHAVE_CONFIG_H -o alistat alistat_main.o a2m.o aligneval.o alignio.o clustal.o cluster.o dayhoff.o eps.o file.o getopt.o gki.o gsi.o hsregex.o iupac.o msa.o msf.o phylip.o revcomp.o rk.o selex.o seqencode.o shuffle.o sqerror.o sqio.o squidcore.o sre_ctype.o sre_math.o sre_random.o sre_string.o ssi.o stack.o stockholm.o stopwatch.o translate.o types.o vectorops.o weight.o -lm gcc -O3 -DHAVE_CONFIG_H -o compalign compalign_main.o a2m.o aligneval.o alignio.o clustal.o cluster.o dayhoff.o eps.o file.o getopt.o gki.o gsi.o hsregex.o iupac.o msa.o msf.o phylip.o revcomp.o rk.o selex.o seqencode.o shuffle.o sqerror.o sqio.o squidcore.o sre_ctype.o sre_math.o sre_random.o sre_string.o ssi.o stack.o stockholm.o stopwatch.o translate.o types.o vectorops.o weight.o -lm gcc -O3 -DHAVE_CONFIG_H -o compstruct compstruct_main.o a2m.o aligneval.o alignio.o clustal.o cluster.o dayhoff.o eps.o file.o getopt.o gki.o gsi.o hsregex.o iupac.o msa.o msf.o phylip.o revcomp.o rk.o selex.o seqencode.o shuffle.o sqerror.o sqio.o squidcore.o sre_ctype.o sre_math.o sre_random.o sre_string.o ssi.o stack.o stockholm.o stopwatch.o translate.o types.o vectorops.o weight.o -lm gcc -O3 -DHAVE_CONFIG_H -o revcomp revcomp_main.o a2m.o aligneval.o alignio.o clustal.o cluster.o dayhoff.o eps.o file.o getopt.o gki.o gsi.o hsregex.o iupac.o msa.o msf.o phylip.o revcomp.o rk.o selex.o seqencode.o shuffle.o sqerror.o sqio.o squidcore.o sre_ctype.o sre_math.o sre_random.o sre_string.o ssi.o stack.o stockholm.o stopwatch.o translate.o types.o vectorops.o weight.o -lm gcc -O3 -DHAVE_CONFIG_H -o seqsplit seqsplit_main.o a2m.o aligneval.o alignio.o clustal.o cluster.o dayhoff.o eps.o file.o getopt.o gki.o gsi.o hsregex.o iupac.o msa.o msf.o phylip.o revcomp.o rk.o selex.o seqencode.o shuffle.o sqerror.o sqio.o squidcore.o sre_ctype.o sre_math.o sre_random.o sre_string.o ssi.o stack.o stockholm.o stopwatch.o translate.o types.o vectorops.o weight.o -lm gcc -O3 -DHAVE_CONFIG_H -o seqstat seqstat_main.o a2m.o aligneval.o alignio.o clustal.o cluster.o dayhoff.o eps.o file.o getopt.o gki.o gsi.o hsregex.o iupac.o msa.o msf.o phylip.o revcomp.o rk.o selex.o seqencode.o shuffle.o sqerror.o sqio.o squidcore.o sre_ctype.o sre_math.o sre_random.o sre_string.o ssi.o stack.o stockholm.o stopwatch.o translate.o types.o vectorops.o weight.o -lm gcc -O3 -DHAVE_CONFIG_H -o sfetch sfetch_main.o a2m.o aligneval.o alignio.o clustal.o cluster.o dayhoff.o eps.o file.o getopt.o gki.o gsi.o hsregex.o iupac.o msa.o msf.o phylip.o revcomp.o rk.o selex.o seqencode.o shuffle.o sqerror.o sqio.o squidcore.o sre_ctype.o sre_math.o sre_random.o sre_string.o ssi.o stack.o stockholm.o stopwatch.o translate.o types.o vectorops.o weight.o -lm gcc -O3 -DHAVE_CONFIG_H -o shuffle shuffle_main.o a2m.o aligneval.o alignio.o clustal.o cluster.o dayhoff.o eps.o file.o getopt.o gki.o gsi.o hsregex.o iupac.o msa.o msf.o phylip.o revcomp.o rk.o selex.o seqencode.o shuffle.o sqerror.o sqio.o squidcore.o sre_ctype.o sre_math.o sre_random.o sre_string.o ssi.o stack.o stockholm.o stopwatch.o translate.o types.o vectorops.o weight.o -lm gcc -O3 -DHAVE_CONFIG_H -o sindex sindex_main.o a2m.o aligneval.o alignio.o clustal.o cluster.o dayhoff.o eps.o file.o getopt.o gki.o gsi.o hsregex.o iupac.o msa.o msf.o phylip.o revcomp.o rk.o selex.o seqencode.o shuffle.o sqerror.o sqio.o squidcore.o sre_ctype.o sre_math.o sre_random.o sre_string.o ssi.o stack.o stockholm.o stopwatch.o translate.o types.o vectorops.o weight.o -lm gcc -O3 -DHAVE_CONFIG_H -o sreformat sreformat_main.o a2m.o aligneval.o alignio.o clustal.o cluster.o dayhoff.o eps.o file.o getopt.o gki.o gsi.o hsregex.o iupac.o msa.o msf.o phylip.o revcomp.o rk.o selex.o seqencode.o shuffle.o sqerror.o sqio.o squidcore.o sre_ctype.o sre_math.o sre_random.o sre_string.o ssi.o stack.o stockholm.o stopwatch.o translate.o types.o vectorops.o weight.o -lm gcc -O3 -DHAVE_CONFIG_H -o translate translate_main.o a2m.o aligneval.o alignio.o clustal.o cluster.o dayhoff.o eps.o file.o getopt.o gki.o gsi.o hsregex.o iupac.o msa.o msf.o phylip.o revcomp.o rk.o selex.o seqencode.o shuffle.o sqerror.o sqio.o squidcore.o sre_ctype.o sre_math.o sre_random.o sre_string.o ssi.o stack.o stockholm.o stopwatch.o translate.o types.o vectorops.o weight.o -lm gcc -O3 -DHAVE_CONFIG_H -o weight weight_main.o a2m.o aligneval.o alignio.o clustal.o cluster.o dayhoff.o eps.o file.o getopt.o gki.o gsi.o hsregex.o iupac.o msa.o msf.o phylip.o revcomp.o rk.o selex.o seqencode.o shuffle.o sqerror.o sqio.o squidcore.o sre_ctype.o sre_math.o sre_random.o sre_string.o ssi.o stack.o stockholm.o stopwatch.o translate.o types.o vectorops.o weight.o -lm ar rcv libsquid.a a2m.o aligneval.o alignio.o clustal.o cluster.o dayhoff.o eps.o file.o getopt.o gki.o gsi.o hsregex.o iupac.o msa.o msf.o phylip.o revcomp.o rk.o selex.o seqencode.o shuffle.o sqerror.o sqio.o squidcore.o sre_ctype.o sre_math.o sre_random.o sre_string.o ssi.o stack.o stockholm.o stopwatch.o translate.o types.o vectorops.o weight.o a - a2m.o a - aligneval.o a - alignio.o a - clustal.o a - cluster.o a - dayhoff.o a - eps.o a - file.o a - getopt.o a - gki.o a - gsi.o a - hsregex.o a - iupac.o a - msa.o a - msf.o a - phylip.o a - revcomp.o a - rk.o a - selex.o a - seqencode.o a - shuffle.o a - sqerror.o a - sqio.o a - squidcore.o a - sre_ctype.o a - sre_math.o a - sre_random.o a - sre_string.o a - ssi.o a - stack.o a - stockholm.o a - stopwatch.o a - translate.o a - types.o a - vectorops.o a - weight.o ranlib libsquid.a chmod 644 libsquid.a make[1]: Nothing to be done for `module'. make progs gcc -O3 -DPACKAGE_NAME=\"RSEARCH\" -DPACKAGE_TARNAME=\"rsearch\" -DPACKAGE_VERSION=\"1.1\" -DPACKAGE_STRING=\"RSEARCH\ 1.1\" -DPACKAGE_BUGREPORT=\"rjklein@genetics.wustl.edu\" -DVERSION=\"1.1\" -DCOPYRIGHT=\"Copyright\ \(C\)\ 1992-1999\ Washington\ University\ School\ of\ Medicine\\nCopyright\ \(C\)\ 2002,2003\ Washington\ University\ School\ of\ Medicine/HHMI\" -DLICENSE=\"Licensed\ under\ the\ terms\ of\ the\ GNU\ General\ Public\ License\ \(GPL\).\ \ See\ file\\nLICENSE\ for\ more\ information.\\n\" -DMATRIX_DIR=\"/sw/share/rsearch/matrices\" -Isquid -c rsearch.c gcc -O3 -DPACKAGE_NAME=\"RSEARCH\" -DPACKAGE_TARNAME=\"rsearch\" -DPACKAGE_VERSION=\"1.1\" -DPACKAGE_STRING=\"RSEARCH\ 1.1\" -DPACKAGE_BUGREPORT=\"rjklein@genetics.wustl.edu\" -DVERSION=\"1.1\" -DCOPYRIGHT=\"Copyright\ \(C\)\ 1992-1999\ Washington\ University\ School\ of\ Medicine\\nCopyright\ \(C\)\ 2002,2003\ Washington\ University\ School\ of\ Medicine/HHMI\" -DLICENSE=\"Licensed\ under\ the\ terms\ of\ the\ GNU\ General\ Public\ License\ \(GPL\).\ \ See\ file\\nLICENSE\ for\ more\ information.\\n\" -DMATRIX_DIR=\"/sw/share/rsearch/matrices\" -Isquid -c alphabet.c gcc -O3 -DPACKAGE_NAME=\"RSEARCH\" -DPACKAGE_TARNAME=\"rsearch\" -DPACKAGE_VERSION=\"1.1\" -DPACKAGE_STRING=\"RSEARCH\ 1.1\" -DPACKAGE_BUGREPORT=\"rjklein@genetics.wustl.edu\" -DVERSION=\"1.1\" -DCOPYRIGHT=\"Copyright\ \(C\)\ 1992-1999\ Washington\ University\ School\ of\ Medicine\\nCopyright\ \(C\)\ 2002,2003\ Washington\ University\ School\ of\ Medicine/HHMI\" -DLICENSE=\"Licensed\ under\ the\ terms\ of\ the\ GNU\ General\ Public\ License\ \(GPL\).\ \ See\ file\\nLICENSE\ for\ more\ information.\\n\" -DMATRIX_DIR=\"/sw/share/rsearch/matrices\" -Isquid -c cm.c gcc -O3 -DPACKAGE_NAME=\"RSEARCH\" -DPACKAGE_TARNAME=\"rsearch\" -DPACKAGE_VERSION=\"1.1\" -DPACKAGE_STRING=\"RSEARCH\ 1.1\" -DPACKAGE_BUGREPORT=\"rjklein@genetics.wustl.edu\" -DVERSION=\"1.1\" -DCOPYRIGHT=\"Copyright\ \(C\)\ 1992-1999\ Washington\ University\ School\ of\ Medicine\\nCopyright\ \(C\)\ 2002,2003\ Washington\ University\ School\ of\ Medicine/HHMI\" -DLICENSE=\"Licensed\ under\ the\ terms\ of\ the\ GNU\ General\ Public\ License\ \(GPL\).\ \ See\ file\\nLICENSE\ for\ more\ information.\\n\" -DMATRIX_DIR=\"/sw/share/rsearch/matrices\" -Isquid -c cmio.c gcc -O3 -DPACKAGE_NAME=\"RSEARCH\" -DPACKAGE_TARNAME=\"rsearch\" -DPACKAGE_VERSION=\"1.1\" -DPACKAGE_STRING=\"RSEARCH\ 1.1\" -DPACKAGE_BUGREPORT=\"rjklein@genetics.wustl.edu\" -DVERSION=\"1.1\" -DCOPYRIGHT=\"Copyright\ \(C\)\ 1992-1999\ Washington\ University\ School\ of\ Medicine\\nCopyright\ \(C\)\ 2002,2003\ Washington\ University\ School\ of\ Medicine/HHMI\" -DLICENSE=\"Licensed\ under\ the\ terms\ of\ the\ GNU\ General\ Public\ License\ \(GPL\).\ \ See\ file\\nLICENSE\ for\ more\ information.\\n\" -DMATRIX_DIR=\"/sw/share/rsearch/matrices\" -Isquid -c globals.c gcc -O3 -DPACKAGE_NAME=\"RSEARCH\" -DPACKAGE_TARNAME=\"rsearch\" -DPACKAGE_VERSION=\"1.1\" -DPACKAGE_STRING=\"RSEARCH\ 1.1\" -DPACKAGE_BUGREPORT=\"rjklein@genetics.wustl.edu\" -DVERSION=\"1.1\" -DCOPYRIGHT=\"Copyright\ \(C\)\ 1992-1999\ Washington\ University\ School\ of\ Medicine\\nCopyright\ \(C\)\ 2002,2003\ Washington\ University\ School\ of\ Medicine/HHMI\" -DLICENSE=\"Licensed\ under\ the\ terms\ of\ the\ GNU\ General\ Public\ License\ \(GPL\).\ \ See\ file\\nLICENSE\ for\ more\ information.\\n\" -DMATRIX_DIR=\"/sw/share/rsearch/matrices\" -Isquid -c modelmaker.c gcc -O3 -DPACKAGE_NAME=\"RSEARCH\" -DPACKAGE_TARNAME=\"rsearch\" -DPACKAGE_VERSION=\"1.1\" -DPACKAGE_STRING=\"RSEARCH\ 1.1\" -DPACKAGE_BUGREPORT=\"rjklein@genetics.wustl.edu\" -DVERSION=\"1.1\" -DCOPYRIGHT=\"Copyright\ \(C\)\ 1992-1999\ Washington\ University\ School\ of\ Medicine\\nCopyright\ \(C\)\ 2002,2003\ Washington\ University\ School\ of\ Medicine/HHMI\" -DLICENSE=\"Licensed\ under\ the\ terms\ of\ the\ GNU\ General\ Public\ License\ \(GPL\).\ \ See\ file\\nLICENSE\ for\ more\ information.\\n\" -DMATRIX_DIR=\"/sw/share/rsearch/matrices\" -Isquid -c nstack.c gcc -O3 -DPACKAGE_NAME=\"RSEARCH\" -DPACKAGE_TARNAME=\"rsearch\" -DPACKAGE_VERSION=\"1.1\" -DPACKAGE_STRING=\"RSEARCH\ 1.1\" -DPACKAGE_BUGREPORT=\"rjklein@genetics.wustl.edu\" -DVERSION=\"1.1\" -DCOPYRIGHT=\"Copyright\ \(C\)\ 1992-1999\ Washington\ University\ School\ of\ Medicine\\nCopyright\ \(C\)\ 2002,2003\ Washington\ University\ School\ of\ Medicine/HHMI\" -DLICENSE=\"Licensed\ under\ the\ terms\ of\ the\ GNU\ General\ Public\ License\ \(GPL\).\ \ See\ file\\nLICENSE\ for\ more\ information.\\n\" -DMATRIX_DIR=\"/sw/share/rsearch/matrices\" -Isquid -c parsetree.c gcc -O3 -DPACKAGE_NAME=\"RSEARCH\" -DPACKAGE_TARNAME=\"rsearch\" -DPACKAGE_VERSION=\"1.1\" -DPACKAGE_STRING=\"RSEARCH\ 1.1\" -DPACKAGE_BUGREPORT=\"rjklein@genetics.wustl.edu\" -DVERSION=\"1.1\" -DCOPYRIGHT=\"Copyright\ \(C\)\ 1992-1999\ Washington\ University\ School\ of\ Medicine\\nCopyright\ \(C\)\ 2002,2003\ Washington\ University\ School\ of\ Medicine/HHMI\" -DLICENSE=\"Licensed\ under\ the\ terms\ of\ the\ GNU\ General\ Public\ License\ \(GPL\).\ \ See\ file\\nLICENSE\ for\ more\ information.\\n\" -DMATRIX_DIR=\"/sw/share/rsearch/matrices\" -Isquid -c rna_ops.c gcc -O3 -DPACKAGE_NAME=\"RSEARCH\" -DPACKAGE_TARNAME=\"rsearch\" -DPACKAGE_VERSION=\"1.1\" -DPACKAGE_STRING=\"RSEARCH\ 1.1\" -DPACKAGE_BUGREPORT=\"rjklein@genetics.wustl.edu\" -DVERSION=\"1.1\" -DCOPYRIGHT=\"Copyright\ \(C\)\ 1992-1999\ Washington\ University\ School\ of\ Medicine\\nCopyright\ \(C\)\ 2002,2003\ Washington\ University\ School\ of\ Medicine/HHMI\" -DLICENSE=\"Licensed\ under\ the\ terms\ of\ the\ GNU\ General\ Public\ License\ \(GPL\).\ \ See\ file\\nLICENSE\ for\ more\ information.\\n\" -DMATRIX_DIR=\"/sw/share/rsearch/matrices\" -Isquid -c smallcyk.c In file included from cmio.c:24: squid/version.h:5:9: warning: 'COPYRIGHT' macro redefined #define COPYRIGHT "Copyright (C) 1992-2002 HHMI/Washington University School of Medicine" ^ :7:9: note: previous definition is here #define COPYRIGHT "Copyright (C) 1992-1999 Washington University School of Medicine\nCopyright (C) 2002,2003 Washington University School of Medicine/HHMI" ^ In file included from cmio.c:24: squid/version.h:6:9: warning: 'LICENSE' macro redefined #define LICENSE "Freely distributed under the GNU General Public License (GPL)" ^ :8:9: note: previous definition is here #define LICENSE "Licensed under the terms of the GNU General Public License (GPL). See file\nLICENSE for more information.\n" ^ modelmaker.c:969:1: warning: control may reach end of non-void function [-Wreturn-type] } ^ gcc -O3 -DPACKAGE_NAME=\"RSEARCH\" -DPACKAGE_TARNAME=\"rsearch\" -DPACKAGE_VERSION=\"1.1\" -DPACKAGE_STRING=\"RSEARCH\ 1.1\" -DPACKAGE_BUGREPORT=\"rjklein@genetics.wustl.edu\" -DVERSION=\"1.1\" -DCOPYRIGHT=\"Copyright\ \(C\)\ 1992-1999\ Washington\ University\ School\ of\ Medicine\\nCopyright\ \(C\)\ 2002,2003\ Washington\ University\ School\ of\ Medicine/HHMI\" -DLICENSE=\"Licensed\ under\ the\ terms\ of\ the\ GNU\ General\ Public\ License\ \(GPL\).\ \ See\ file\\nLICENSE\ for\ more\ information.\\n\" -DMATRIX_DIR=\"/sw/share/rsearch/matrices\" -Isquid -c rnamat.c gcc -O3 -DPACKAGE_NAME=\"RSEARCH\" -DPACKAGE_TARNAME=\"rsearch\" -DPACKAGE_VERSION=\"1.1\" -DPACKAGE_STRING=\"RSEARCH\ 1.1\" -DPACKAGE_BUGREPORT=\"rjklein@genetics.wustl.edu\" -DVERSION=\"1.1\" -DCOPYRIGHT=\"Copyright\ \(C\)\ 1992-1999\ Washington\ University\ School\ of\ Medicine\\nCopyright\ \(C\)\ 2002,2003\ Washington\ University\ School\ of\ Medicine/HHMI\" -DLICENSE=\"Licensed\ under\ the\ terms\ of\ the\ GNU\ General\ Public\ License\ \(GPL\).\ \ See\ file\\nLICENSE\ for\ more\ information.\\n\" -DMATRIX_DIR=\"/sw/share/rsearch/matrices\" -Isquid -c buildcm.c gcc -O3 -DPACKAGE_NAME=\"RSEARCH\" -DPACKAGE_TARNAME=\"rsearch\" -DPACKAGE_VERSION=\"1.1\" -DPACKAGE_STRING=\"RSEARCH\ 1.1\" -DPACKAGE_BUGREPORT=\"rjklein@genetics.wustl.edu\" -DVERSION=\"1.1\" -DCOPYRIGHT=\"Copyright\ \(C\)\ 1992-1999\ Washington\ University\ School\ of\ Medicine\\nCopyright\ \(C\)\ 2002,2003\ Washington\ University\ School\ of\ Medicine/HHMI\" -DLICENSE=\"Licensed\ under\ the\ terms\ of\ the\ GNU\ General\ Public\ License\ \(GPL\).\ \ See\ file\\nLICENSE\ for\ more\ information.\\n\" -DMATRIX_DIR=\"/sw/share/rsearch/matrices\" -Isquid -c histogram.c gcc -O3 -DPACKAGE_NAME=\"RSEARCH\" -DPACKAGE_TARNAME=\"rsearch\" -DPACKAGE_VERSION=\"1.1\" -DPACKAGE_STRING=\"RSEARCH\ 1.1\" -DPACKAGE_BUGREPORT=\"rjklein@genetics.wustl.edu\" -DVERSION=\"1.1\" -DCOPYRIGHT=\"Copyright\ \(C\)\ 1992-1999\ Washington\ University\ School\ of\ Medicine\\nCopyright\ \(C\)\ 2002,2003\ Washington\ University\ School\ of\ Medicine/HHMI\" -DLICENSE=\"Licensed\ under\ the\ terms\ of\ the\ GNU\ General\ Public\ License\ \(GPL\).\ \ See\ file\\nLICENSE\ for\ more\ information.\\n\" -DMATRIX_DIR=\"/sw/share/rsearch/matrices\" -Isquid -c scancyk.c 1 warning generated. gcc -O3 -DPACKAGE_NAME=\"RSEARCH\" -DPACKAGE_TARNAME=\"rsearch\" -DPACKAGE_VERSION=\"1.1\" -DPACKAGE_STRING=\"RSEARCH\ 1.1\" -DPACKAGE_BUGREPORT=\"rjklein@genetics.wustl.edu\" -DVERSION=\"1.1\" -DCOPYRIGHT=\"Copyright\ \(C\)\ 1992-1999\ Washington\ University\ School\ of\ Medicine\\nCopyright\ \(C\)\ 2002,2003\ Washington\ University\ School\ of\ Medicine/HHMI\" -DLICENSE=\"Licensed\ under\ the\ terms\ of\ the\ GNU\ General\ Public\ License\ \(GPL\).\ \ See\ file\\nLICENSE\ for\ more\ information.\\n\" -DMATRIX_DIR=\"/sw/share/rsearch/matrices\" -Isquid -c stats.c gcc -O3 -DPACKAGE_NAME=\"RSEARCH\" -DPACKAGE_TARNAME=\"rsearch\" -DPACKAGE_VERSION=\"1.1\" -DPACKAGE_STRING=\"RSEARCH\ 1.1\" -DPACKAGE_BUGREPORT=\"rjklein@genetics.wustl.edu\" -DVERSION=\"1.1\" -DCOPYRIGHT=\"Copyright\ \(C\)\ 1992-1999\ Washington\ University\ School\ of\ Medicine\\nCopyright\ \(C\)\ 2002,2003\ Washington\ University\ School\ of\ Medicine/HHMI\" -DLICENSE=\"Licensed\ under\ the\ terms\ of\ the\ GNU\ General\ Public\ License\ \(GPL\).\ \ See\ file\\nLICENSE\ for\ more\ information.\\n\" -DMATRIX_DIR=\"/sw/share/rsearch/matrices\" -Isquid -c mpifuncs.c gcc -O3 -DPACKAGE_NAME=\"RSEARCH\" -DPACKAGE_TARNAME=\"rsearch\" -DPACKAGE_VERSION=\"1.1\" -DPACKAGE_STRING=\"RSEARCH\ 1.1\" -DPACKAGE_BUGREPORT=\"rjklein@genetics.wustl.edu\" -DVERSION=\"1.1\" -DCOPYRIGHT=\"Copyright\ \(C\)\ 1992-1999\ Washington\ University\ School\ of\ Medicine\\nCopyright\ \(C\)\ 2002,2003\ Washington\ University\ School\ of\ Medicine/HHMI\" -DLICENSE=\"Licensed\ under\ the\ terms\ of\ the\ GNU\ General\ Public\ License\ \(GPL\).\ \ See\ file\\nLICENSE\ for\ more\ information.\\n\" -DMATRIX_DIR=\"/sw/share/rsearch/matrices\" -Isquid -c modelconfig.c gcc -O3 -DPACKAGE_NAME=\"RSEARCH\" -DPACKAGE_TARNAME=\"rsearch\" -DPACKAGE_VERSION=\"1.1\" -DPACKAGE_STRING=\"RSEARCH\ 1.1\" -DPACKAGE_BUGREPORT=\"rjklein@genetics.wustl.edu\" -DVERSION=\"1.1\" -DCOPYRIGHT=\"Copyright\ \(C\)\ 1992-1999\ Washington\ University\ School\ of\ Medicine\\nCopyright\ \(C\)\ 2002,2003\ Washington\ University\ School\ of\ Medicine/HHMI\" -DLICENSE=\"Licensed\ under\ the\ terms\ of\ the\ GNU\ General\ Public\ License\ \(GPL\).\ \ See\ file\\nLICENSE\ for\ more\ information.\\n\" -DMATRIX_DIR=\"/sw/share/rsearch/matrices\" -Isquid -c display.c 2 warnings generated. gcc -O3 -DPACKAGE_NAME=\"RSEARCH\" -DPACKAGE_TARNAME=\"rsearch\" -DPACKAGE_VERSION=\"1.1\" -DPACKAGE_STRING=\"RSEARCH\ 1.1\" -DPACKAGE_BUGREPORT=\"rjklein@genetics.wustl.edu\" -DVERSION=\"1.1\" -DCOPYRIGHT=\"Copyright\ \(C\)\ 1992-1999\ Washington\ University\ School\ of\ Medicine\\nCopyright\ \(C\)\ 2002,2003\ Washington\ University\ School\ of\ Medicine/HHMI\" -DLICENSE=\"Licensed\ under\ the\ terms\ of\ the\ GNU\ General\ Public\ License\ \(GPL\).\ \ See\ file\\nLICENSE\ for\ more\ information.\\n\" -DMATRIX_DIR=\"/sw/share/rsearch/matrices\" -Isquid -c makernamat.c gcc -O3 -DPACKAGE_NAME=\"RSEARCH\" -DPACKAGE_TARNAME=\"rsearch\" -DPACKAGE_VERSION=\"1.1\" -DPACKAGE_STRING=\"RSEARCH\ 1.1\" -DPACKAGE_BUGREPORT=\"rjklein@genetics.wustl.edu\" -DVERSION=\"1.1\" -DCOPYRIGHT=\"Copyright\ \(C\)\ 1992-1999\ Washington\ University\ School\ of\ Medicine\\nCopyright\ \(C\)\ 2002,2003\ Washington\ University\ School\ of\ Medicine/HHMI\" -DLICENSE=\"Licensed\ under\ the\ terms\ of\ the\ GNU\ General\ Public\ License\ \(GPL\).\ \ See\ file\\nLICENSE\ for\ more\ information.\\n\" -DMATRIX_DIR=\"/sw/share/rsearch/matrices\" -Lsquid -o rsearch rsearch.o alphabet.o cm.o cmio.o globals.o modelmaker.o nstack.o parsetree.o rna_ops.o smallcyk.o rnamat.o buildcm.o histogram.o scancyk.o stats.o mpifuncs.o modelconfig.o display.o -lsquid gcc -O3 -DPACKAGE_NAME=\"RSEARCH\" -DPACKAGE_TARNAME=\"rsearch\" -DPACKAGE_VERSION=\"1.1\" -DPACKAGE_STRING=\"RSEARCH\ 1.1\" -DPACKAGE_BUGREPORT=\"rjklein@genetics.wustl.edu\" -DVERSION=\"1.1\" -DCOPYRIGHT=\"Copyright\ \(C\)\ 1992-1999\ Washington\ University\ School\ of\ Medicine\\nCopyright\ \(C\)\ 2002,2003\ Washington\ University\ School\ of\ Medicine/HHMI\" -DLICENSE=\"Licensed\ under\ the\ terms\ of\ the\ GNU\ General\ Public\ License\ \(GPL\).\ \ See\ file\\nLICENSE\ for\ more\ information.\\n\" -DMATRIX_DIR=\"/sw/share/rsearch/matrices\" -Lsquid -o makernamat makernamat.o alphabet.o cm.o cmio.o globals.o modelmaker.o nstack.o parsetree.o rna_ops.o smallcyk.o rnamat.o buildcm.o histogram.o scancyk.o stats.o mpifuncs.o modelconfig.o display.o -lsquid /bin/rm -rf /sw/build.build/root-rsearch-1.1-10 /bin/mkdir -p /sw/build.build/root-rsearch-1.1-10/sw /bin/mkdir -p /sw/build.build/root-rsearch-1.1-10/DEBIAN /usr/sbin/chown -R fink-bld:fink-bld /sw/build.build/root-rsearch-1.1-10 sudo -u fink-bld [ENV] sh -c /tmp/fink.oROWy mkdir -p /sw/build.build/root-rsearch-1.1-10/sw/bin mkdir -p /sw/build.build/root-rsearch-1.1-10/sw/share/rsearch cp rsearch rnasearch cp rnasearch /sw/build.build/root-rsearch-1.1-10/sw/bin/. cp -R examples /sw/build.build/root-rsearch-1.1-10/sw/share/rsearch/. cp -R squid /sw/build.build/root-rsearch-1.1-10/sw/share/rsearch/. cp -R matrices /sw/build.build/root-rsearch-1.1-10/sw/share/rsearch/. sudo -u fink-bld [ENV] sh -c /tmp/fink.eCSxA /usr/bin/install -d -m 700 /sw/build.build/root-rsearch-1.1-10/sw/share/doc/rsearch /bin/cp -r CHANGES /sw/build.build/root-rsearch-1.1-10/sw/share/doc/rsearch/ /bin/cp -r README /sw/build.build/root-rsearch-1.1-10/sw/share/doc/rsearch/ /bin/cp -r LICENSE /sw/build.build/root-rsearch-1.1-10/sw/share/doc/rsearch/ /bin/chmod -R go=u-w /sw/build.build/root-rsearch-1.1-10/sw/share/doc/rsearch /bin/rm -f /sw/build.build/root-rsearch-1.1-10/sw/info/dir /sw/build.build/root-rsearch-1.1-10/sw/info/dir.old /sw/build.build/root-rsearch-1.1-10/sw/share/info/dir /sw/build.build/root-rsearch-1.1-10/sw/share/info/dir.old Reverting ownership of install dir to root Writing control file... Writing md5sums file... env LANG=C LC_ALL=C dpkg-deb -b root-rsearch-1.1-10 /sw/fink/10.9/stable/main/binary-darwin-x86_64/sci dpkg-deb: building package `rsearch' in `/sw/fink/10.9/stable/main/binary-darwin-x86_64/sci/rsearch_1.1-10_darwin-x86_64.deb'. Removing runtime build-lock... Removing build-lock package... /sw/bin/dpkg-lockwait -r fink-buildlock-rsearch-1.1-10 (Reading database ... 4297 files and directories currently installed.) Removing fink-buildlock-rsearch-1.1-10 ...