Mock Version: 1.2.17 ENTER ['do'](['bash', '--login', '-c', '/usr/bin/rpmbuild -bs --target armv7hl --nodeps /builddir/build/SPECS/wise2.spec'], chrootPath='/var/lib/mock/epel-1-armhfp-02c919529e8e8ecf4324614ba541cb69e777412b/root'shell=FalseprintOutput=Falseenv={'LANG': 'en_US.UTF-8', 'TERM': 'vt100', 'SHELL': '/bin/bash', 'PROMPT_COMMAND': 'printf "\x1b]0;\x07"', 'PATH': '/usr/bin:/bin:/usr/sbin:/sbin', 'HOME': '/builddir', 'HOSTNAME': 'mock'}gid=135user='mockbuild'timeout=0logger=uid=996) Executing command: ['bash', '--login', '-c', '/usr/bin/rpmbuild -bs --target armv7hl --nodeps /builddir/build/SPECS/wise2.spec'] with env {'LANG': 'en_US.UTF-8', 'TERM': 'vt100', 'SHELL': '/bin/bash', 'PROMPT_COMMAND': 'printf "\x1b]0;\x07"', 'PATH': '/usr/bin:/bin:/usr/sbin:/sbin', 'HOME': '/builddir', 'HOSTNAME': 'mock'} and shell False warning: bogus date in %changelog: Mon Apr 12 2007 Alex Lancaster 2.2.0-2 warning: bogus date in %changelog: Mon Apr 11 2007 Alex Lancaster 2.2.0-1 Building target platforms: armv7hl Building for target armv7hl Wrote: /builddir/build/SRPMS/wise2-2.2.0-14.el7.src.rpm Child return code was: 0 ENTER ['do'](['bash', '--login', '-c', u'/usr/bin/rpmbuild -bb --target armv7hl --nodeps /builddir/build/SPECS/wise2.spec'], chrootPath='/var/lib/mock/epel-1-armhfp-02c919529e8e8ecf4324614ba541cb69e777412b/root'shell=Falseuid=996env={'LANG': 'en_US.UTF-8', 'TERM': 'vt100', 'SHELL': '/bin/bash', 'PROMPT_COMMAND': 'printf "\x1b]0;\x07"', 'PATH': '/usr/bin:/bin:/usr/sbin:/sbin', 'HOME': '/builddir', 'HOSTNAME': 'mock'}gid=135user='mockbuild'timeout=0private_network=Truelogger=printOutput=False) Executing command: ['bash', '--login', '-c', u'/usr/bin/rpmbuild -bb --target armv7hl --nodeps /builddir/build/SPECS/wise2.spec'] with env {'LANG': 'en_US.UTF-8', 'TERM': 'vt100', 'SHELL': '/bin/bash', 'PROMPT_COMMAND': 'printf "\x1b]0;\x07"', 'PATH': '/usr/bin:/bin:/usr/sbin:/sbin', 'HOME': '/builddir', 'HOSTNAME': 'mock'} and shell False warning: bogus date in %changelog: Mon Apr 12 2007 Alex Lancaster 2.2.0-2 warning: bogus date in %changelog: Mon Apr 11 2007 Alex Lancaster 2.2.0-1 Building target platforms: armv7hl Building for target armv7hl Executing(%prep): /bin/sh -e /var/tmp/rpm-tmp.qcx4Vf + umask 022 + cd /builddir/build/BUILD + cd /builddir/build/BUILD + rm -rf wise2.2.0 + /usr/bin/gzip -dc /builddir/build/SOURCES/wise2.2.0.tar.gz + /usr/bin/tar -xf - + STATUS=0 + '[' 0 -ne 0 ']' + cd wise2.2.0 + /usr/bin/chmod -Rf a+rX,u+w,g-w,o-w . Patch #0 (wise2-build.patch): + echo 'Patch #0 (wise2-build.patch):' + /usr/bin/cat /builddir/build/SOURCES/wise2-build.patch + /usr/bin/patch -p0 --fuzz=0 patching file src/makefile + sed -i s#/usr/local/bin/perl#/usr/bin/perl# docs/gettex.pl + chmod -x test_data/rrm.HMM + for i in base dynlibsrc dyc + cp src/base/LICENSE LICENSE.base + for i in base dynlibsrc dyc + cp src/dynlibsrc/LICENSE LICENSE.dynlibsrc + for i in base dynlibsrc dyc + cp src/dyc/LICENSE LICENSE.dyc + cp src/models/GNULICENSE LICENSE.GPL + exit 0 Executing(%build): /bin/sh -e /var/tmp/rpm-tmp.SO1Cab + umask 022 + cd /builddir/build/BUILD + cd wise2.2.0 + cd src + make CC=gcc 'CFLAGS=-c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L' all (cd base ; make CC="gcc" CFLAGS="-c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L" libwisebase.a ) make[1]: Entering directory `/builddir/build/BUILD/wise2.2.0/src/base' gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L wiseconfig.c gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L wisestring.c wisestring.dy: In function 'Wise2_breakstring_protect': wisestring.dy:632:14: warning: variable 'c' set but not used [-Wunused-but-set-variable] auto char c; ^ wisestring.dy: In function 'Wise2_show_text': wisestring.dy:757:9: warning: 'pushpoi' may be used uninitialized in this function [-Wmaybe-uninitialized] push=(*pushpoi); ^ gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L wiseerror.c wiseerror.dy: In function 'Wise2_show_message_stack': wiseerror.dy:147:16: warning: unused variable 'count' [-Wunused-variable] register int count; ^ wiseerror.dy:146:16: warning: unused variable 'j' [-Wunused-variable] register int j; ^ gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L wisememman.c gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L wisefile.c wisefile.dy: In function 'Wise2_myfclose': wisefile.dy:70:3: warning: format '%d' expects argument of type 'int', but argument 3 has type 'struct FILE *' [-Wformat=] fprintf(stderr,"Closing %d\n",ofp); ^ wisefile.dy: In function 'Wise2_append_file_to_path': wisefile.dy:139:10: warning: variable 'runner' set but not used [-Wunused-but-set-variable] char * runner; ^ gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L wiserandom.c wiserandom.dy: In function 'Wise2_init_random': wiserandom.dy:19:3: warning: implicit declaration of function 'srand48' [-Wimplicit-function-declaration] srand48((long) time(NULL)); ^ wiserandom.dy: In function 'Wise2_random_0_to_1': wiserandom.dy:48:3: warning: implicit declaration of function 'drand48' [-Wimplicit-function-declaration] ret = drand48(); ^ gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L wisetime.c gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L wiseoverlay.c gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L commandline.c gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L linesubs.c ar ru libwisebase.a wiseconfig.o wisestring.o wiseerror.o wisememman.o wisefile.o wiserandom.o wisetime.o wiseoverlay.o commandline.o linesubs.o ar: creating libwisebase.a make[1]: Leaving directory `/builddir/build/BUILD/wise2.2.0/src/base' (cd HMMer2 ; make CC="gcc" CFLAGS="-c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L" libhmmer.a ) make[1]: Entering directory `/builddir/build/BUILD/wise2.2.0/src/HMMer2' gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -c alphabet.c alphabet.c: In function 'DigitizeAlignment': alphabet.c:236:9: warning: suggest parentheses around operand of '!' or change '&' to '&&' or '!' to '~' [-Wparentheses] if (! ainfo->sqinfo[idx].flags & SQINFO_LEN) { ^ alphabet.c: In function 'P7CountSymbol': alphabet.c:263:5: warning: array subscript has type 'char' [-Wchar-subscripts] counters[symidx] += wt; ^ gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -c core_algorithms.c core_algorithms.c: In function 'P7ViterbiTrace': core_algorithms.c:420:7: warning: 'k' may be used uninitialized in this function [-Wmaybe-uninitialized] int k; /* position in model (1..M) */ ^ core_algorithms.c: In function 'P7ParsingViterbi': core_algorithms.c:846:10: warning: 'cur' may be used uninitialized in this function [-Wmaybe-uninitialized] int cur, prv; /* indices for rolling dp matrix */ ^ core_algorithms.c: In function 'P7WeeViterbi': core_algorithms.c:1108:10: warning: 't2' may be used uninitialized in this function [-Wmaybe-uninitialized] if (t2 == STC) ^ core_algorithms.c:1081:19: warning: 'k2' may be used uninitialized in this function [-Wmaybe-uninitialized] kassign[s2] = k2; ^ core_algorithms.c:1240:3: warning: 'ret_sc' may be used uninitialized in this function [-Wmaybe-uninitialized] return ret_sc; ^ core_algorithms.c: In function 'Plan7ESTViterbi': core_algorithms.c:1312:24: warning: 'codon' may be used uninitialized in this function [-Wmaybe-uninitialized] mmx[i][k] += hmm->dnam[codon][k]; ^ gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -c debug.c gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -c emit.c gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -c emulation.c In file included from emulation.c:26:0: version.h:21:14: warning: 'copyright' defined but not used [-Wunused-variable] static char *copyright = "\ ^ gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -c histogram.c histogram.c: In function 'PrintASCIIHistogram': histogram.c:200:8: warning: 'lowbound' may be used uninitialized in this function [-Wmaybe-uninitialized] int lowbound, lowcount; /* cutoffs on the low side */ ^ histogram.c: In function 'EVDMaxLikelyFit': histogram.c:1251:17: warning: 'total' may be used uninitialized in this function [-Wmaybe-uninitialized] mu = -1. * log(esum / total) / lambda; ^ histogram.c: In function 'ExtremeValueFitHistogram': histogram.c:659:35: warning: 'z' may be used uninitialized in this function [-Wmaybe-uninitialized] (mu - (log (-1. * log((double) (n+z-1) / (double)(n+z))) / lambda)); ^ gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -c hmmio.c gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -c mathsupport.c gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -c masks.c gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -c misc.c In file included from misc.c:25:0: version.h:21:14: warning: 'copyright' defined but not used [-Wunused-variable] static char *copyright = "\ ^ gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -c modelmakers.c modelmakers.c: In function 'P7Maxmodelmaker': modelmakers.c:238:11: warning: variable 't_me' set but not used [-Wunused-but-set-variable] float t_me; /* estimate for an internal M->E transition */ ^ modelmakers.c: At top level: modelmakers.c:850:1: warning: 'print_matassign' defined but not used [-Wunused-function] print_matassign(int *matassign, int alen) ^ modelmakers.c: In function 'P7Maxmodelmaker': modelmakers.c:378:18: warning: 'first' may be used uninitialized in this function [-Wmaybe-uninitialized] matassign[i] &= ~ASSIGN_INSERT; ^ modelmakers.c:224:14: warning: 'j' may be used uninitialized in this function [-Wmaybe-uninitialized] int i, j; /* positions in alignment */ ^ gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -c plan7.c plan7.c: In function 'Plan7ESTConfig': plan7.c:793:10: warning: 'tripnull' may be used uninitialized in this function [-Wmaybe-uninitialized] float *tripnull; /* UNFINISHED!!! */ ^ gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -c plan9.c gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -c prior.c prior.c: In function 'P7ReadPrior': prior.c:102:3: warning: implicit declaration of function 'strcmp' [-Wimplicit-function-declaration] if (strcmp(sptr, "DIRICHLET") == 0) pri->strategy = PRI_DCHLET; ^ gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -c tophits.c gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -c trace.c In file included from trace.c:26:0: version.h:21:14: warning: 'copyright' defined but not used [-Wunused-variable] static char *copyright = "\ ^ gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -c aligneval.c gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -c alignio.c alignio.c: In function 'ReadAlignedFASTA': alignio.c:130:9: warning: 'aseq' may be used uninitialized in this function [-Wmaybe-uninitialized] aseq = ReallocOrDie(aseq, sizeof(char **) * (ainfo->nseq+1)); ^ gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -c cluster.c cluster.c: In function 'Cluster': cluster.c:253:21: warning: 'j' may be used uninitialized in this function [-Wmaybe-uninitialized] if (i == Np-1 || j == Np-2) ^ gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -c dayhoff.c dayhoff.c: In function 'ParsePAMFile': dayhoff.c:164:32: warning: 'scale' may be used uninitialized in this function [-Wmaybe-uninitialized] if (gotscale) *ret_scale = scale; ^ gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -c file.c file.c: In function 'EnvFileOpen': file.c:146:9: warning: 'fp' may be used uninitialized in this function [-Wmaybe-uninitialized] FILE *fp; ^ gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -c getopt.c getopt.c: In function 'Getopt': getopt.c:62:7: warning: 'opti' may be used uninitialized in this function [-Wmaybe-uninitialized] int opti; ^ gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -c gnuregex.c gnuregex.c: In function 'regex_compile': gnuregex.c:1613:18: warning: suggest explicit braces to avoid ambiguous 'else' [-Wparentheses] if (COMPILE_STACK_EMPTY) ^ gnuregex.c:1633:18: warning: suggest explicit braces to avoid ambiguous 'else' [-Wparentheses] if (COMPILE_STACK_EMPTY) ^ gnuregex.c: In function 're_match_2': gnuregex.c:2341:11: warning: unused variable 'destination' [-Wunused-variable] char *destination; \ ^ gnuregex.c:3758:19: note: in expansion of macro 'PUSH_FAILURE_POINT' PUSH_FAILURE_POINT (p1 + mcnt, d, -2); ^ gnuregex.c:2341:11: warning: unused variable 'destination' [-Wunused-variable] char *destination; \ ^ gnuregex.c:3905:11: note: in expansion of macro 'PUSH_FAILURE_POINT' PUSH_FAILURE_POINT (p + mcnt, NULL, -2); ^ gnuregex.c:2341:11: warning: unused variable 'destination' [-Wunused-variable] char *destination; \ ^ gnuregex.c:3958:11: note: in expansion of macro 'PUSH_FAILURE_POINT' PUSH_FAILURE_POINT (p + mcnt, d, -2); ^ gnuregex.c:4061:19: warning: variable 'sdummy' set but not used [-Wunused-but-set-variable] char *sdummy; ^ gnuregex.c:4060:28: warning: variable 'pdummy' set but not used [-Wunused-but-set-variable] unsigned char *pdummy; ^ gnuregex.c:2341:11: warning: unused variable 'destination' [-Wunused-variable] char *destination; \ ^ gnuregex.c:4097:11: note: in expansion of macro 'PUSH_FAILURE_POINT' PUSH_FAILURE_POINT (0, 0, -2); ^ gnuregex.c:2341:11: warning: unused variable 'destination' [-Wunused-variable] char *destination; \ ^ gnuregex.c:4110:11: note: in expansion of macro 'PUSH_FAILURE_POINT' PUSH_FAILURE_POINT (0, 0, -2); ^ gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -c interleaved.c interleaved.c: In function 'ReadInterleaved': interleaved.c:427:7: warning: 'blocks' may be used uninitialized in this function [-Wmaybe-uninitialized] free(blocks); ^ gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -c iupac.c gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -c msf.c gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -c revcomp.c gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -c selex.c selex.c: In function 'ReadSELEX': selex.c:445:7: warning: 'blocks' may be used uninitialized in this function [-Wmaybe-uninitialized] free(blocks); ^ selex.c:215:37: warning: 'num' may be used uninitialized in this function [-Wmaybe-uninitialized] aseqs = (char **) MallocOrDie (num * sizeof(char *)); ^ gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -c sqerror.c gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -c sqio.c gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -c sre_ctype.c gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -c sre_math.c gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -c sre_string.c gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -c stack.c gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -c translate.c gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -c types.c gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -c weight.c weight.c: In function 'GSCWeights': weight.c:43:17: warning: 'rwt' may be used uninitialized in this function [-Wmaybe-uninitialized] float *lwt, *rwt; /* weight on left, right of this tree node */ ^ weight.c: In function 'VoronoiWeights': weight.c:163:11: warning: 'best' may be used uninitialized in this function [-Wmaybe-uninitialized] int best; /* index of nearest real sequence */ ^ ar rcv libhmmer.a alphabet.o core_algorithms.o debug.o emit.o emulation.o histogram.o hmmio.o mathsupport.o masks.o misc.o modelmakers.o plan7.o plan9.o prior.o tophits.o trace.o aligneval.o alignio.o cluster.o dayhoff.o file.o getopt.o gnuregex.o interleaved.o iupac.o msf.o revcomp.o selex.o sqerror.o sqio.o sre_ctype.o sre_math.o sre_string.o stack.o translate.o types.o weight.o a - alphabet.o a - core_algorithms.o a - debug.o a - emit.o a - emulation.o a - histogram.o a - hmmio.o a - mathsupport.o a - masks.o a - misc.o a - modelmakers.o a - plan7.o a - plan9.o a - prior.o a - tophits.o a - trace.o a - aligneval.o a - alignio.o a - cluster.o a - dayhoff.o a - file.o a - getopt.o a - gnuregex.o a - interleaved.o a - iupac.o a - msf.o a - revcomp.o a - selex.o a - sqerror.o a - sqio.o a - sre_ctype.o a - sre_math.o a - sre_string.o a - stack.o a - translate.o a - types.o a - weight.o if test -x /bin/ranlib; then /bin/ranlib libhmmer.a; else exit 0; fi if test -x /usr/bin/ranlib; then /usr/bin/ranlib libhmmer.a; else exit 0; fi if test -x ranlib; then ranlib libhmmer.a; else exit 0; fi chmod 644 libhmmer.a make[1]: Leaving directory `/builddir/build/BUILD/wise2.2.0/src/HMMer2' (cd dynlibsrc ; make CC="gcc" CFLAGS="-c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L" libdyna.a ) make[1]: Entering directory `/builddir/build/BUILD/wise2.2.0/src/dynlibsrc' gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -I../base/ packaln.c gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -I../base/ aln.c aln.dy: In function 'Wise2_swallow_AlnColumn_multiple': aln.dy:527:16: warning: variable 'i' set but not used [-Wunused-but-set-variable] register int i; ^ aln.dy: In function 'Wise2_mapped_ascii_AlnBlock': aln.dy:814:7: warning: too many arguments for format [-Wformat-extra-args] fprintf(ofp," {%3.2f} ",(double)(*score_to_double)(cuml),cuml); ^ aln.dy: In function 'Wise2_read_dumped_ascii_AlnColumn_line': aln.dy:865:11: warning: variable 'base' set but not used [-Wunused-but-set-variable] char ** base, **bstr; ^ gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -I../base/ dnamatrix.c gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -I../base/ probability.c gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -I../base/ alnrange.c gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -I../base/ alnconvert.c gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -I../base/ basematrix.c gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -I../base/ matrixdebug.c matrixdebug.dy: In function 'Wise2_user_DebugMatrix': matrixdebug.dy:160:10: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets(buffer,MAXLINE,in); ^ gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -I../base/ dpenvelope.c gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -I../base/ dbsearchimpl.c gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -I../base/ dprunimpl.c gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -I../base/ complexsequence.c gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -I../base/ complexevalset.c gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -I../base/ complexconsensi.c gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -I../base/ sequence.c gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -I../base/ seqalign.c seqalign.dy: In function 'Wise2_read_selex_SeqAlign': seqalign.dy:216:18: warning: 'pos' may be used uninitialized in this function [-Wmaybe-uninitialized] for(seq = buffer+pos;*seq;seq++) { ^ gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -I../base/ codon.c gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -I../base/ compmat.c gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -I../base/ codonmatrix.c gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -I../base/ codonmapper.c codonmapper.dy: In function 'Wise2_new_CodonMapper': codonmapper.dy:379:10: warning: variable 'total_freq' set but not used [-Wunused-but-set-variable] double total_freq; ^ gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -I../base/ sequencedb.c gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -I../base/ hscore.c gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -I../base/ histogram.c histogram.dy: In function 'Wise2_PrintASCIIHistogram': histogram.dy:276:8: warning: 'lowbound' may be used uninitialized in this function [-Wmaybe-uninitialized] int lowbound, lowcount; /* cutoffs on the low side */ ^ histogram.dy: In function 'Wise2_EVDMaxLikelyFit': histogram.dy:1325:17: warning: 'total' may be used uninitialized in this function [-Wmaybe-uninitialized] mu = -1. * log(esum / total) / lambda; ^ histogram.dy: In function 'Wise2_ExtremeValueFitHistogram': histogram.dy:647:35: warning: 'z' may be used uninitialized in this function [-Wmaybe-uninitialized] (mu - (log (-1. * log((double) (n+z-1) / (double)(n+z))) / lambda)); ^ gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -I../base/ proteindb.c gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -I../base/ protein.c gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -I../base/ genomicdb.c gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -I../base/ randommodel.c gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -I../base/ randomdb.c gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -I../base/ genomic.c gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -I../base/ cdna.c gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -I../base/ cdnadb.c gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -I../base/ dna.c gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -I../base/ embl.c gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -I../base/ genomicregion.c genomicregion.dy: In function 'Wise2_read_EMBL_FT_into_GenomicRegion': genomicregion.dy:565:8: warning: ignoring return value of 'fgets', declared with attribute warn_unused_result [-Wunused-result] fgets(buffer,maxlen,ifp); ^ gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -I../base/ gene.c gene.dy: In function 'Wise2_write_Embl_FT_Gene': gene.dy:364:16: warning: 'tr' may be used uninitialized in this function [-Wmaybe-uninitialized] Transcript * tr; ^ gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -I../base/ transcript.c transcript.dy: In function 'Wise2_show_Transcript': transcript.dy:170:23: warning: unused variable 'sf' [-Wunused-variable] SupportingFeature * sf; ^ transcript.dy:169:7: warning: unused variable 'k' [-Wunused-variable] int k; ^ gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -I../base/ translation.c gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -I../base/ btcanvas.c gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -I../base/ asciibtcanvas.c asciibtcanvas.dy: In function 'Wise2_ascii_btCanvas_from_commandline': asciibtcanvas.dy:54:7: warning: 'main' is usually a function [-Wmain] int main = default_main; ^ gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -I../base/ dynlibcross.c ar ru libdyna.a packaln.o aln.o dnamatrix.o probability.o alnrange.o alnconvert.o basematrix.o matrixdebug.o dpenvelope.o dbsearchimpl.o dprunimpl.o complexsequence.o complexevalset.o complexconsensi.o sequence.o seqalign.o codon.o compmat.o codonmatrix.o codonmapper.o sequencedb.o hscore.o histogram.o proteindb.o protein.o genomicdb.o randommodel.o randomdb.o genomic.o cdna.o cdnadb.o dna.o embl.o genomicregion.o gene.o transcript.o translation.o btcanvas.o asciibtcanvas.o dynlibcross.o ar: creating libdyna.a make[1]: Leaving directory `/builddir/build/BUILD/wise2.2.0/src/dynlibsrc' (cd models ; make CC="gcc" CFLAGS="-c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L" EXTRALIBS="" HMMER_DEFINE="HMMER_INTERNAL" HMMER_INCLUDE="../HMMer2/" HMMER_LIBS="../HMMer2/" all ) make[1]: Entering directory `/builddir/build/BUILD/wise2.2.0/src/models' gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ dnal.c dnal.c: In function 'main': dnal.c:76:1: warning: control reaches end of non-void function [-Wreturn-type] } ^ gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ dnaalign.c dnaalign.c: In function 'Wise2_serial_search_DnaAlign': dnaalign.c:305:9: warning: unused variable 'db_status' [-Wunused-variable] * ^ dnaalign.c: In function 'Wise2_PackAln_bestmemory_DnaAlign': dnaalign.c:584:19: warning: unused variable 'de' [-Wunused-variable] */ ^ dnaalign.c: In function 'Wise2_max_special_strip_DnaAlign': dnaalign.c:1448:9: warning: variable 'cscore' set but not used [-Wunused-but-set-variable] * Return [UNKN ] Undocumented return value [int] ^ dnaalign.c:1447:9: warning: unused variable 'temp' [-Wunused-variable] * ^ gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ seqaligndisplay.c gcc -o dnal dnal.o dnaalign.o seqaligndisplay.o -g -L../base/ -L../dynlibsrc/ -L../HMMer2/ -ldyna -lwisebase -lm gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ psw.c gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ proteinsw.c proteinsw.c: In function 'Wise2_PackAln_bestmemory_ProteinSW': proteinsw.c:586:19: warning: unused variable 'de' [-Wunused-variable] ProteinSW * mat; ^ proteinsw.c: In function 'Wise2_max_special_strip_ProteinSW': proteinsw.c:1405:9: warning: variable 'cscore' set but not used [-Wunused-but-set-variable] { ^ proteinsw.c:1404:9: warning: unused variable 'temp' [-Wunused-variable] int max_special_strip_ProteinSW(ProteinSW * mat,int i,int j,int state,boolean isspecial,int * reti,int * retj,int * retstate,boolean * retspecial,int * cellscore) ^ gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ sw_wrap.c sw_wrap.dy: In function 'Wise2_Hscore_from_ProteinSW': sw_wrap.dy:355:23: warning: variable 'ret' set but not used [-Wunused-but-set-variable] Search_Return_Type ret; ^ sw_wrap.dy: In function 'Wise2_Hscore_from_ProteinABC': sw_wrap.dy:407:23: warning: variable 'ret' set but not used [-Wunused-but-set-variable] Search_Return_Type ret; ^ sw_wrap.dy: In function 'Wise2_Hscore_from_ProteinBA': sw_wrap.dy:460:23: warning: variable 'ret' set but not used [-Wunused-but-set-variable] Search_Return_Type ret; ^ gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ abc.c abc.c: In function 'Wise2_PackAln_bestmemory_abc': abc.c:587:19: warning: unused variable 'de' [-Wunused-variable] abc * mat; ^ abc.c: In function 'Wise2_max_special_strip_abc': abc.c:1417:9: warning: variable 'cscore' set but not used [-Wunused-but-set-variable] { ^ abc.c:1416:9: warning: unused variable 'temp' [-Wunused-variable] int max_special_strip_abc(abc * mat,int i,int j,int state,boolean isspecial,int * reti,int * retj,int * retstate,boolean * retspecial,int * cellscore) ^ gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ pba.c pba.c: In function 'Wise2_PackAln_bestmemory_ProteinBlockAligner': pba.c:647:19: warning: unused variable 'de' [-Wunused-variable] ProteinBlockAligner * mat; ^ pba.c: In function 'Wise2_max_special_strip_ProteinBlockAligner': pba.c:1567:9: warning: variable 'cscore' set but not used [-Wunused-but-set-variable] { ^ pba.c:1566:9: warning: unused variable 'temp' [-Wunused-variable] int max_special_strip_ProteinBlockAligner(ProteinBlockAligner * mat,int i,int j,int state,boolean isspecial,int * reti,int * retj,int * retstate,boolean * retspecial,int * cellscore) ^ gcc -o psw psw.o sw_wrap.o seqaligndisplay.o proteinsw.o abc.o pba.o -g -L../base/ -L../dynlibsrc/ -L../HMMer2/ -ldyna -lwisebase -lm gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ pswdb.c gcc -o pswdb pswdb.o sw_wrap.o seqaligndisplay.o proteinsw.o abc.o pba.o -g -L../base/ -L../dynlibsrc/ -L../HMMer2/ -ldyna -lwisebase -lm gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ dbac.c dbac.c: In function 'main': dbac.c:412:7: warning: unused variable 'score' [-Wunused-variable] int score; ^ dbac.c:409:19: warning: unused variable 'dmat' [-Wunused-variable] DnaMatchBlock * dmat; ^ dbac.c: In function 'alnBlockSummary': dbac.c:97:6: warning: 'nGap' may be used uninitialized in this function [-Wmaybe-uninitialized] ++nGap ; ^ dbac.c:101:6: warning: 'nMismatch' may be used uninitialized in this function [-Wmaybe-uninitialized] ++nMismatch ; ^ dbac.c:99:6: warning: 'nMatch' may be used uninitialized in this function [-Wmaybe-uninitialized] ++nMatch ; ^ dbac.c: In function 'showPFF': dbac.c:276:38: warning: 'currMatch' may be used uninitialized in this function [-Wmaybe-uninitialized] *( ((1-currMatch)/3)/0.25 )))/log(2); ^ gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ dba.c dba.c: In function 'Wise2_serial_search_DnaMatchBlock': dba.c:120:9: warning: unused variable 'db_status' [-Wunused-variable] Search_Return_Type serial_search_DnaMatchBlock(Hscore * out,ComplexSequence* query,ComplexSequence* target ,DnaMatrix* comp65,DnaMatrix* comp75,DnaMatrix* comp85,DnaMatrix* comp95,Score g,Score u,Score v,Score s,Score b) ^ dba.c: In function 'Wise2_PackAln_bestmemory_DnaMatchBlock': dba.c:454:19: warning: unused variable 'de' [-Wunused-variable] DnaMatchBlock * mat; ^ dba.c: In function 'Wise2_max_special_strip_DnaMatchBlock': dba.c:1561:9: warning: variable 'cscore' set but not used [-Wunused-but-set-variable] { ^ dba.c:1560:9: warning: unused variable 'temp' [-Wunused-variable] int max_special_strip_DnaMatchBlock(DnaMatchBlock * mat,int i,int j,int state,boolean isspecial,int * reti,int * retj,int * retstate,boolean * retspecial,int * cellscore) ^ gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ dbadisplay.c gcc -o dba dbac.o dba.o dbadisplay.o -g -L../base/ -L../dynlibsrc/ -L../HMMer2/ -ldyna -lwisebase -lm gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L estwise.c -I../base/ -I../dynlibsrc/ -I../HMMer2/ -I. gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ geneparser21.c gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ geneparameter.c geneparameter.dy: In function 'Wise2_GeneParameter21_from_GeneModel': geneparameter.dy:132:25: warning: unused variable 'cse' [-Wunused-variable] ComplexSequenceEval * cse; ^ geneparameter.dy:131:25: warning: unused variable 'rmds' [-Wunused-variable] RandomModelDNAScore * rmds; ^ gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ genestats.c genestats.dy: In function 'Wise2_get_genestat_emission': genestats.dy:511:10: warning: unused variable 'd' [-Wunused-variable] double d; ^ gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ geneutil.c gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ threestatemodel.c gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ genefrequency.c gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ splicesitemodeler.c gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ genewise4.c genewise4.c: In function 'Wise2_PackAln_bestmemory_GeneWise4': genewise4.c:692:19: warning: unused variable 'de' [-Wunused-variable] GeneWise4 * mat; ^ genewise4.c: In function 'Wise2_max_special_strip_GeneWise4': genewise4.c:1806:9: warning: variable 'cscore' set but not used [-Wunused-but-set-variable] { ^ genewise4.c:1805:9: warning: unused variable 'temp' [-Wunused-variable] int max_special_strip_GeneWise4(GeneWise4 * mat,int i,int j,int state,boolean isspecial,int * reti,int * retj,int * retstate,boolean * retspecial,int * cellscore) ^ gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ genewise6.c genewise6.c: In function 'Wise2_PackAln_bestmemory_GeneWise6': genewise6.c:748:19: warning: unused variable 'de' [-Wunused-variable] GeneWise6 * mat; ^ genewise6.c: In function 'Wise2_max_special_strip_GeneWise6': genewise6.c:1950:9: warning: variable 'cscore' set but not used [-Wunused-but-set-variable] { ^ genewise6.c:1949:9: warning: unused variable 'temp' [-Wunused-variable] int max_special_strip_GeneWise6(GeneWise6 * mat,int i,int j,int state,boolean isspecial,int * reti,int * retj,int * retstate,boolean * retspecial,int * cellscore) ^ gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ genewise21.c genewise21.c: In function 'Wise2_PackAln_bestmemory_GeneWise21': genewise21.c:1488:19: warning: unused variable 'de' [-Wunused-variable] GeneWise21 * mat; ^ genewise21.c: In function 'Wise2_PackAln_calculate_Small_GeneWise21': genewise21.c:2354:19: warning: unused variable 'pau' [-Wunused-variable] int score; ^ gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ geneloop21.c geneloop21.c: In function 'Wise2_PackAln_bestmemory_GeneLoop21': geneloop21.c:1125:19: warning: unused variable 'de' [-Wunused-variable] GeneLoop21 * mat; ^ geneloop21.c: In function 'Wise2_PackAln_calculate_Small_GeneLoop21': geneloop21.c:1903:19: warning: unused variable 'pau' [-Wunused-variable] int score; ^ gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ geneloop6.c geneloop6.c: In function 'Wise2_PackAln_bestmemory_GeneLoop6': geneloop6.c:599:19: warning: unused variable 'de' [-Wunused-variable] GeneLoop6 * mat; ^ geneloop6.c: In function 'Wise2_PackAln_calculate_Small_GeneLoop6': geneloop6.c:1038:19: warning: unused variable 'pau' [-Wunused-variable] int score; ^ gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ gwlite.c gwlite.c: In function 'Wise2_PackAln_bestmemory_GeneLiteModel': gwlite.c:725:19: warning: unused variable 'de' [-Wunused-variable] GeneLiteModel * mat; ^ gwlite.c: In function 'Wise2_max_special_strip_GeneLiteModel': gwlite.c:1867:9: warning: variable 'cscore' set but not used [-Wunused-but-set-variable] { ^ gwlite.c:1866:9: warning: unused variable 'temp' [-Wunused-variable] int max_special_strip_GeneLiteModel(GeneLiteModel * mat,int i,int j,int state,boolean isspecial,int * reti,int * retj,int * retstate,boolean * retspecial,int * cellscore) ^ gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ gwlitemodel.c gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ gwrap.c gwrap.dy: In function 'Wise2_Hscore_from_TSM_genewise': gwrap.dy:1268:25: warning: unused variable 'tempcse' [-Wunused-variable] ComplexSequenceEval * tempcse; ^ gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ matchsum.c gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ estwrap.c estwrap.dy: In function 'Wise2_Hscore_from_TSM_estwise': estwrap.dy:269:22: warning: variable 'ret' set but not used [-Wunused-but-set-variable] Search_Return_Type ret; ^ estwrap.dy: In function 'Wise2_AlnBlock_from_TSM_estwise_wrap': estwrap.dy:138:14: warning: 'out' may be used uninitialized in this function [-Wmaybe-uninitialized] AlnBlock * out; ^ gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ genewisemodel.c gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ cdparser.c gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ genedisplay.c gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ estwise3.c estwise3.c: In function 'Wise2_PackAln_bestmemory_EstWise3': estwise3.c:733:19: warning: unused variable 'de' [-Wunused-variable] EstWise3 * mat; ^ estwise3.c: In function 'Wise2_max_special_strip_EstWise3': estwise3.c:1956:9: warning: variable 'cscore' set but not used [-Wunused-but-set-variable] { ^ estwise3.c:1955:9: warning: unused variable 'temp' [-Wunused-variable] int max_special_strip_EstWise3(EstWise3 * mat,int i,int j,int state,boolean isspecial,int * reti,int * retj,int * retstate,boolean * retspecial,int * cellscore) ^ gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ estslim3.c estslim3.c: In function 'Wise2_PackAln_bestmemory_EstSlim3': estslim3.c:633:19: warning: unused variable 'de' [-Wunused-variable] EstSlim3 * mat; ^ estslim3.c: In function 'Wise2_max_special_strip_EstSlim3': estslim3.c:1556:9: warning: variable 'cscore' set but not used [-Wunused-but-set-variable] { ^ estslim3.c:1555:9: warning: unused variable 'temp' [-Wunused-variable] int max_special_strip_EstSlim3(EstSlim3 * mat,int i,int j,int state,boolean isspecial,int * reti,int * retj,int * retstate,boolean * retspecial,int * cellscore) ^ gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ estloop3.c estloop3.c: In function 'Wise2_PackAln_bestmemory_EstLoop3': estloop3.c:624:19: warning: unused variable 'de' [-Wunused-variable] EstLoop3 * mat; ^ estloop3.c: In function 'Wise2_PackAln_calculate_Small_EstLoop3': estloop3.c:1086:19: warning: unused variable 'pau' [-Wunused-variable] int score; ^ gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ estfrag3.c estfrag3.c: In function 'Wise2_PackAln_bestmemory_EstFrag3': estfrag3.c:534:19: warning: unused variable 'de' [-Wunused-variable] EstFrag3 * mat; ^ estfrag3.c: In function 'Wise2_max_special_strip_EstFrag3': estfrag3.c:1776:9: warning: variable 'cscore' set but not used [-Wunused-but-set-variable] { ^ estfrag3.c:1775:9: warning: unused variable 'temp' [-Wunused-variable] int max_special_strip_EstFrag3(EstFrag3 * mat,int i,int j,int state,boolean isspecial,int * reti,int * retj,int * retstate,boolean * retspecial,int * cellscore) ^ gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ estslimloop.c estslimloop.c: In function 'Wise2_PackAln_bestmemory_EstSlimLoop3': estslimloop.c:723:19: warning: unused variable 'de' [-Wunused-variable] EstSlimLoop3 * mat; ^ estslimloop.c: In function 'Wise2_PackAln_calculate_Small_EstSlimLoop3': estslimloop.c:1109:19: warning: unused variable 'pau' [-Wunused-variable] int score; ^ gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ gwquickdb.c gwquickdb.dy: In function 'Wise2_init_GeneWiseQuickDB': gwquickdb.dy:46:1: warning: control reaches end of non-void function [-Wreturn-type] } ^ gwquickdb.dy: In function 'Wise2_reload_GeneWiseQuickDB': gwquickdb.dy:65:1: warning: control reaches end of non-void function [-Wreturn-type] } ^ gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ threestatedb.c gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ pfamhmmer1db.c gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ pwmdna.c pwmdna.dy: In function 'Wise2_score_pwmDNAScore_Sequence': pwmdna.dy:71:3: warning: format '%d' expects a matching 'int' argument [-Wformat=] fprintf(stderr,"Making score %d for %d\n",pos); ^ gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -I../HMMer2/ -DHMMER_INTERNAL -I../base/ -I../dynlibsrc/ wise2xhmmer2.c gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ genewisemodeldb.c gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ seqhit.c gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ geneparser4.c gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ estquick3.c estquick3.c: In function 'Wise2_PackAln_bestmemory_EstQuick3': estquick3.c:595:19: warning: unused variable 'de' [-Wunused-variable] EstQuick3 * mat; ^ estquick3.c: In function 'Wise2_max_special_strip_EstQuick3': estquick3.c:1466:9: warning: variable 'cscore' set but not used [-Wunused-but-set-variable] { ^ estquick3.c:1465:9: warning: unused variable 'temp' [-Wunused-variable] int max_special_strip_EstQuick3(EstQuick3 * mat,int i,int j,int state,boolean isspecial,int * reti,int * retj,int * retstate,boolean * retspecial,int * cellscore) ^ gcc -g -o estwise estwise.o geneparser21.o geneparameter.o genestats.o geneutil.o threestatemodel.o genefrequency.o splicesitemodeler.o genewise4.o genewise6.o genewise21.o geneloop21.o geneloop6.o gwlite.o gwlitemodel.o gwrap.o matchsum.o estwrap.o genewisemodel.o cdparser.o genedisplay.o estwise3.o estslim3.o estloop3.o estfrag3.o estslimloop.o gwquickdb.o threestatedb.o pfamhmmer1db.o pwmdna.o wise2xhmmer2.o genewisemodeldb.o seqhit.o geneparser4.o sw_wrap.o abc.o pba.o seqaligndisplay.o dbadisplay.o proteinsw.o estquick3.o -g -L../base/ -L../dynlibsrc/ -L../HMMer2/ -lhmmer -ldyna -lwisebase -lm gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L genewise.c -I../base/ -I../dynlibsrc/ -I../HMMer2/ -I. genewise.c: In function 'build_objects': genewise.c:438:10: warning: unused variable 'ifp' [-Wunused-variable] FILE * ifp; ^ gcc -g -o genewise genewise.o geneparser21.o geneparameter.o genestats.o geneutil.o threestatemodel.o genefrequency.o splicesitemodeler.o genewise4.o genewise6.o genewise21.o geneloop21.o geneloop6.o gwlite.o gwlitemodel.o gwrap.o matchsum.o estwrap.o genewisemodel.o cdparser.o genedisplay.o estwise3.o estslim3.o estloop3.o estfrag3.o estslimloop.o gwquickdb.o threestatedb.o pfamhmmer1db.o pwmdna.o wise2xhmmer2.o genewisemodeldb.o seqhit.o geneparser4.o sw_wrap.o abc.o pba.o seqaligndisplay.o dbadisplay.o proteinsw.o estquick3.o -g -L../base/ -L../dynlibsrc/ -L../HMMer2/ -lhmmer -ldyna -lwisebase -lm gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L genewisedb.c -I../base/ -I../dynlibsrc/ -I../HMMer2/ genewisedb.c: In function 'show_output': genewisedb.c:490:34: warning: 'cgr' may be used uninitialized in this function [-Wmaybe-uninitialized] show_halfwise_GenomicRegion(cgr,cgr->genomic->baseseq->name,"HALFWISE","PFAM",1,"Pfam-Sanger",ofp); ^ gcc -g -o genewisedb genewisedb.o geneparser21.o geneparameter.o genestats.o geneutil.o threestatemodel.o genefrequency.o splicesitemodeler.o genewise4.o genewise6.o genewise21.o geneloop21.o geneloop6.o gwlite.o gwlitemodel.o gwrap.o matchsum.o estwrap.o genewisemodel.o cdparser.o genedisplay.o estwise3.o estslim3.o estloop3.o estfrag3.o estslimloop.o gwquickdb.o threestatedb.o pfamhmmer1db.o pwmdna.o wise2xhmmer2.o genewisemodeldb.o seqhit.o geneparser4.o sw_wrap.o abc.o pba.o seqaligndisplay.o dbadisplay.o proteinsw.o estquick3.o -g -L../base/ -L../dynlibsrc/ -L../HMMer2/ -lhmmer -ldyna -lwisebase -lm gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L estwisedb.c -I../base/ -I../dynlibsrc/ -I../HMMer2/ estwisedb.c: In function 'show_output': estwisedb.c:347:22: warning: 'set' may be used uninitialized in this function [-Wmaybe-uninitialized] add_SequenceSet(set,hard_link_Sequence(cdna->baseseq)); ^ estwisedb.c:377:33: warning: 'anchored' may be used uninitialized in this function [-Wmaybe-uninitialized] write_mul_estwise_AlnBlock(anchored,ct,ofp); ^ gcc -g -o estwisedb estwisedb.o geneparser21.o geneparameter.o genestats.o geneutil.o threestatemodel.o genefrequency.o splicesitemodeler.o genewise4.o genewise6.o genewise21.o geneloop21.o geneloop6.o gwlite.o gwlitemodel.o gwrap.o matchsum.o estwrap.o genewisemodel.o cdparser.o genedisplay.o estwise3.o estslim3.o estloop3.o estfrag3.o estslimloop.o gwquickdb.o threestatedb.o pfamhmmer1db.o pwmdna.o wise2xhmmer2.o genewisemodeldb.o seqhit.o geneparser4.o sw_wrap.o abc.o pba.o seqaligndisplay.o dbadisplay.o proteinsw.o estquick3.o -g -L../base/ -L../dynlibsrc/ -L../HMMer2/ -lhmmer -ldyna -lwisebase -lm gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ genomewise.c genomewise.c: In function 'main': genomewise.c:88:7: warning: unused variable 'kbyte' [-Wunused-variable] int kbyte = 10000; ^ genomewise.c: In function 'show_utr_exon_genomewise': genomewise.c:272:7: warning: variable 'is_start' set but not used [-Wunused-but-set-variable] int is_start; ^ gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ genomewise9.c genomewise9.c: In function 'Wise2_PackAln_bestmemory_GenomeWise9': genomewise9.c:743:19: warning: unused variable 'de' [-Wunused-variable] GenomeWise9 * mat; ^ genomewise9.c: In function 'Wise2_PackAln_calculate_Small_GenomeWise9': genomewise9.c:1272:19: warning: unused variable 'pau' [-Wunused-variable] int score; ^ gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ genome_evidence.c genome_evidence.dy: In function 'Wise2_free_GenomeEvidenceUnit': genome_evidence.dy:61:1: warning: control reaches end of non-void function [-Wreturn-type] } ^ gcc -c -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -D_POSIX_C_SOURCE=200112L -I../base/ -I../dynlibsrc/ est_evidence.c est_evidence.dy: In function 'Wise2_new_est_GenomeEvidenceUnit': est_evidence.dy:136:16: warning: assignment from incompatible pointer type [enabled by default] in->geu_free = free_EstEvidence; ^ est_evidence.dy: In function 'Wise2_est_start_pot': est_evidence.dy:177:7: warning: unused variable 'i' [-Wunused-variable] int i; ^ est_evidence.dy: In function 'Wise2_est_stop_pot': est_evidence.dy:197:7: warning: unused variable 'i' [-Wunused-variable] int i; ^ gcc -g -o genomewise genomewise.o genomewise9.o genome_evidence.o est_evidence.o geneutil.o -g -L../base/ -L../dynlibsrc/ -L../HMMer2/ -ldyna -lwisebase -lm ar ru libmodel.a geneparser21.o geneparameter.o genestats.o geneutil.o threestatemodel.o genefrequency.o splicesitemodeler.o genewise4.o genewise6.o genewise21.o geneloop21.o geneloop6.o gwlite.o gwlitemodel.o gwrap.o matchsum.o estwrap.o genewisemodel.o cdparser.o genedisplay.o estwise3.o estslim3.o estloop3.o estfrag3.o estslimloop.o gwquickdb.o threestatedb.o pfamhmmer1db.o pwmdna.o wise2xhmmer2.o genewisemodeldb.o seqhit.o geneparser4.o sw_wrap.o abc.o pba.o seqaligndisplay.o dbadisplay.o proteinsw.o estquick3.o ar: creating libmodel.a make[1]: Leaving directory `/builddir/build/BUILD/wise2.2.0/src/models' make bin make[1]: Entering directory `/builddir/build/BUILD/wise2.2.0/src' mkdir bin mv models/pswdb models/psw models/genewisedb models/estwisedb models/estwise models/genewise models/dba models/dnal models/genomewise ./bin make[1]: Leaving directory `/builddir/build/BUILD/wise2.2.0/src' + exit 0 Executing(%install): /bin/sh -e /var/tmp/rpm-tmp.9Fwf9h + umask 022 + cd /builddir/build/BUILD + '[' /builddir/build/BUILDROOT/wise2-2.2.0-14.el7.arm '!=' / ']' + rm -rf /builddir/build/BUILDROOT/wise2-2.2.0-14.el7.arm ++ dirname /builddir/build/BUILDROOT/wise2-2.2.0-14.el7.arm + mkdir -p /builddir/build/BUILDROOT + mkdir /builddir/build/BUILDROOT/wise2-2.2.0-14.el7.arm + cd wise2.2.0 + rm -rf /builddir/build/BUILDROOT/wise2-2.2.0-14.el7.arm + cd src/bin + /usr/bin/mkdir -p /builddir/build/BUILDROOT/wise2-2.2.0-14.el7.arm/usr/bin + for i in dba dnal estwise estwisedb genewise genewisedb genomewise psw pswdb + /usr/bin/install dba /builddir/build/BUILDROOT/wise2-2.2.0-14.el7.arm//usr/bin + for i in dba dnal estwise estwisedb genewise genewisedb genomewise psw pswdb + /usr/bin/install dnal /builddir/build/BUILDROOT/wise2-2.2.0-14.el7.arm//usr/bin + for i in dba dnal estwise estwisedb genewise genewisedb genomewise psw pswdb + /usr/bin/install estwise /builddir/build/BUILDROOT/wise2-2.2.0-14.el7.arm//usr/bin + for i in dba dnal estwise estwisedb genewise genewisedb genomewise psw pswdb + /usr/bin/install estwisedb /builddir/build/BUILDROOT/wise2-2.2.0-14.el7.arm//usr/bin + for i in dba dnal estwise estwisedb genewise genewisedb genomewise psw pswdb + /usr/bin/install genewise /builddir/build/BUILDROOT/wise2-2.2.0-14.el7.arm//usr/bin + for i in dba dnal estwise estwisedb genewise genewisedb genomewise psw pswdb + /usr/bin/install genewisedb /builddir/build/BUILDROOT/wise2-2.2.0-14.el7.arm//usr/bin + for i in dba dnal estwise estwisedb genewise genewisedb genomewise psw pswdb + /usr/bin/install genomewise /builddir/build/BUILDROOT/wise2-2.2.0-14.el7.arm//usr/bin + for i in dba dnal estwise estwisedb genewise genewisedb genomewise psw pswdb + /usr/bin/install psw /builddir/build/BUILDROOT/wise2-2.2.0-14.el7.arm//usr/bin + for i in dba dnal estwise estwisedb genewise genewisedb genomewise psw pswdb + /usr/bin/install pswdb /builddir/build/BUILDROOT/wise2-2.2.0-14.el7.arm//usr/bin /builddir/build/BUILD/wise2.2.0 + cd - + /usr/bin/mkdir -p /builddir/build/BUILDROOT/wise2-2.2.0-14.el7.arm/usr/share/wise2 + cd wisecfg + /usr/bin/install -pm 644 BLOSUM30.bla BLOSUM45.bla BLOSUM62.bla BLOSUM80.bla aa.rnd blosum30.bla blosum62.bla cb.tmf codon.table gene.stat gon120.bla gon160.bla gon200.bla gon250.bla gon350.bla human.gf human.gp human.stats idenity.bla methods pb.gf pombe.gf tm.pri wise.2 wise.per worm.gf /builddir/build/BUILDROOT/wise2-2.2.0-14.el7.arm/usr/share/wise2 + /usr/bin/mkdir -p /builddir/build/BUILDROOT/wise2-2.2.0-14.el7.arm/etc/profile.d + echo 'export WISECONFIGDIR=/usr/share/wise2/' + echo 'setenv WISECONFIGDIR /usr/share/wise2/' + /usr/lib/rpm/find-debuginfo.sh --strict-build-id -m --run-dwz --dwz-low-mem-die-limit 10000000 --dwz-max-die-limit 50000000 /builddir/build/BUILD/wise2.2.0 extracting debug info from /builddir/build/BUILDROOT/wise2-2.2.0-14.el7.arm/usr/bin/estwise extracting debug info from /builddir/build/BUILDROOT/wise2-2.2.0-14.el7.arm/usr/bin/genewisedb extracting debug info from /builddir/build/BUILDROOT/wise2-2.2.0-14.el7.arm/usr/bin/genewise extracting debug info from /builddir/build/BUILDROOT/wise2-2.2.0-14.el7.arm/usr/bin/dnal extracting debug info from /builddir/build/BUILDROOT/wise2-2.2.0-14.el7.arm/usr/bin/psw extracting debug info from /builddir/build/BUILDROOT/wise2-2.2.0-14.el7.arm/usr/bin/genomewise extracting debug info from /builddir/build/BUILDROOT/wise2-2.2.0-14.el7.arm/usr/bin/estwisedb extracting debug info from /builddir/build/BUILDROOT/wise2-2.2.0-14.el7.arm/usr/bin/dba extracting debug info from /builddir/build/BUILDROOT/wise2-2.2.0-14.el7.arm/usr/bin/pswdb /usr/lib/rpm/sepdebugcrcfix: Updated 9 CRC32s, 0 CRC32s did match. 16007 blocks + /usr/lib/rpm/check-buildroot + /usr/lib/rpm/redhat/brp-compress + /usr/lib/rpm/redhat/brp-strip-static-archive /usr/bin/strip + /usr/lib/rpm/brp-python-bytecompile /usr/bin/python 1 + /usr/lib/rpm/redhat/brp-python-hardlink + /usr/lib/rpm/redhat/brp-java-repack-jars Processing files: wise2-2.2.0-14.el7.armv7hl Executing(%doc): /bin/sh -e /var/tmp/rpm-tmp.JoQCZl + umask 022 + cd /builddir/build/BUILD + cd wise2.2.0 + DOCDIR=/builddir/build/BUILDROOT/wise2-2.2.0-14.el7.arm/usr/share/doc/wise2-2.2.0 + export DOCDIR + /usr/bin/mkdir -p /builddir/build/BUILDROOT/wise2-2.2.0-14.el7.arm/usr/share/doc/wise2-2.2.0 + cp -pr docs /builddir/build/BUILDROOT/wise2-2.2.0-14.el7.arm/usr/share/doc/wise2-2.2.0 + cp -pr test_data /builddir/build/BUILDROOT/wise2-2.2.0-14.el7.arm/usr/share/doc/wise2-2.2.0 + cp -pr INSTALL /builddir/build/BUILDROOT/wise2-2.2.0-14.el7.arm/usr/share/doc/wise2-2.2.0 + cp -pr LICENSE /builddir/build/BUILDROOT/wise2-2.2.0-14.el7.arm/usr/share/doc/wise2-2.2.0 + cp -pr README /builddir/build/BUILDROOT/wise2-2.2.0-14.el7.arm/usr/share/doc/wise2-2.2.0 + cp -pr LICENSE.base /builddir/build/BUILDROOT/wise2-2.2.0-14.el7.arm/usr/share/doc/wise2-2.2.0 + cp -pr LICENSE.dynlibsrc /builddir/build/BUILDROOT/wise2-2.2.0-14.el7.arm/usr/share/doc/wise2-2.2.0 + cp -pr LICENSE.dyc /builddir/build/BUILDROOT/wise2-2.2.0-14.el7.arm/usr/share/doc/wise2-2.2.0 + cp -pr LICENSE.GPL /builddir/build/BUILDROOT/wise2-2.2.0-14.el7.arm/usr/share/doc/wise2-2.2.0 + exit 0 Provides: config(wise2) = 2.2.0-14.el7 wise2 = 2.2.0-14.el7 wise2(armv7hl-32) = 2.2.0-14.el7 Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Requires: ld-linux-armhf.so.3 ld-linux-armhf.so.3(GLIBC_2.4) libc.so.6 libc.so.6(GLIBC_2.4) libc.so.6(GLIBC_2.7) libgcc_s.so.1 libgcc_s.so.1(GCC_3.5) libm.so.6 libm.so.6(GLIBC_2.4) rtld(GNU_HASH) Processing files: wise2-debuginfo-2.2.0-14.el7.armv7hl Provides: wise2-debuginfo = 2.2.0-14.el7 wise2-debuginfo(armv7hl-32) = 2.2.0-14.el7 Requires(rpmlib): rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 rpmlib(CompressedFileNames) <= 3.0.4-1 Checking for unpackaged file(s): /usr/lib/rpm/check-files /builddir/build/BUILDROOT/wise2-2.2.0-14.el7.arm Wrote: /builddir/build/RPMS/wise2-2.2.0-14.el7.armv7hl.rpm Wrote: /builddir/build/RPMS/wise2-debuginfo-2.2.0-14.el7.armv7hl.rpm Executing(%clean): /bin/sh -e /var/tmp/rpm-tmp.H9nHvN + umask 022 + cd /builddir/build/BUILD + cd wise2.2.0 + rm -rf /builddir/build/BUILDROOT/wise2-2.2.0-14.el7.arm + exit 0 Child return code was: 0