Mock Version: 2.8
ENTER ['do_with_status'](['bash', '--login', '-c', '/usr/bin/rpmbuild -bs --target x86_64 --nodeps /builddir/build/SPECS/harry.spec'], chrootPath='/var/lib/mock/fedora-rawhide-x86_64-1608269844.105135/root'env={'TERM': 'vt100', 'SHELL': '/bin/bash', 'HOME': '/builddir', 'HOSTNAME': 'mock', 'PATH': '/usr/bin:/bin:/usr/sbin:/sbin', 'PROMPT_COMMAND': 'printf "\\033]0;<mock-chroot>\\007"', 'PS1': '<mock-chroot> \\s-\\v\\$ ', 'LANG': 'C.UTF-8'}shell=Falselogger=<mockbuild.trace_decorator.getLog object at 0x7fb963c24d60>timeout=0uid=1001gid=135user='mockbuild'nspawn_args=['--capability=cap_ipc_lock', '--rlimit=RLIMIT_NOFILE=10240', '--capability=cap_ipc_lock', '--bind=/tmp/mock-resolv.3_n32glc:/etc/resolv.conf', '--bind=/dev/btrfs-control', '--bind=/dev/loop-control', '--bind=/dev/loop0', '--bind=/dev/loop1', '--bind=/dev/loop2', '--bind=/dev/loop3', '--bind=/dev/loop4', '--bind=/dev/loop5', '--bind=/dev/loop6', '--bind=/dev/loop7', '--bind=/dev/loop8', '--bind=/dev/loop9', '--bind=/dev/loop10', '--bind=/dev/loop11']unshare_net=TrueprintOutput=True)
Using nspawn with args ['--capability=cap_ipc_lock', '--rlimit=RLIMIT_NOFILE=10240', '--capability=cap_ipc_lock', '--bind=/tmp/mock-resolv.3_n32glc:/etc/resolv.conf', '--bind=/dev/btrfs-control', '--bind=/dev/loop-control', '--bind=/dev/loop0', '--bind=/dev/loop1', '--bind=/dev/loop2', '--bind=/dev/loop3', '--bind=/dev/loop4', '--bind=/dev/loop5', '--bind=/dev/loop6', '--bind=/dev/loop7', '--bind=/dev/loop8', '--bind=/dev/loop9', '--bind=/dev/loop10', '--bind=/dev/loop11']
Executing command: ['/usr/bin/systemd-nspawn', '-q', '-M', 'cfc3b473e0d04d0eb1512bde6358686e', '-D', '/var/lib/mock/fedora-rawhide-x86_64-1608269844.105135/root', '-a', '-u', 'mockbuild', '--capability=cap_ipc_lock', '--rlimit=RLIMIT_NOFILE=10240', '--capability=cap_ipc_lock', '--bind=/tmp/mock-resolv.3_n32glc:/etc/resolv.conf', '--bind=/dev/btrfs-control', '--bind=/dev/loop-control', '--bind=/dev/loop0', '--bind=/dev/loop1', '--bind=/dev/loop2', '--bind=/dev/loop3', '--bind=/dev/loop4', '--bind=/dev/loop5', '--bind=/dev/loop6', '--bind=/dev/loop7', '--bind=/dev/loop8', '--bind=/dev/loop9', '--bind=/dev/loop10', '--bind=/dev/loop11', '--console=pipe', '--setenv=TERM=vt100', '--setenv=SHELL=/bin/bash', '--setenv=HOME=/builddir', '--setenv=HOSTNAME=mock', '--setenv=PATH=/usr/bin:/bin:/usr/sbin:/sbin', '--setenv=PROMPT_COMMAND=printf "\\033]0;<mock-chroot>\\007"', '--setenv=PS1=<mock-chroot> \\s-\\v\\$ ', '--setenv=LANG=C.UTF-8', '--resolv-conf=off', 'bash', '--login', '-c', '/usr/bin/rpmbuild -bs --target x86_64 --nodeps /builddir/build/SPECS/harry.spec'] with env {'TERM': 'vt100', 'SHELL': '/bin/bash', 'HOME': '/builddir', 'HOSTNAME': 'mock', 'PATH': '/usr/bin:/bin:/usr/sbin:/sbin', 'PROMPT_COMMAND': 'printf "\\033]0;<mock-chroot>\\007"', 'PS1': '<mock-chroot> \\s-\\v\\$ ', 'LANG': 'C.UTF-8', 'SYSTEMD_NSPAWN_TMPFS_TMP': '0'} and shell False
Building target platforms: x86_64
Building for target x86_64
setting SOURCE_DATE_EPOCH=1608249600
Wrote: /builddir/build/SRPMS/harry-0.4.2-2.fc34.src.rpm
Child return code was: 0
ENTER ['do_with_status'](['bash', '--login', '-c', '/usr/bin/rpmbuild -bb --target x86_64 --nodeps /builddir/build/SPECS/harry.spec'], chrootPath='/var/lib/mock/fedora-rawhide-x86_64-1608269844.105135/root'env={'TERM': 'vt100', 'SHELL': '/bin/bash', 'HOME': '/builddir', 'HOSTNAME': 'mock', 'PATH': '/usr/bin:/bin:/usr/sbin:/sbin', 'PROMPT_COMMAND': 'printf "\\033]0;<mock-chroot>\\007"', 'PS1': '<mock-chroot> \\s-\\v\\$ ', 'LANG': 'C.UTF-8'}shell=Falselogger=<mockbuild.trace_decorator.getLog object at 0x7fb963c24d60>timeout=0uid=1001gid=135user='mockbuild'nspawn_args=['--capability=cap_ipc_lock', '--rlimit=RLIMIT_NOFILE=10240', '--capability=cap_ipc_lock', '--bind=/tmp/mock-resolv.3_n32glc:/etc/resolv.conf', '--bind=/dev/btrfs-control', '--bind=/dev/loop-control', '--bind=/dev/loop0', '--bind=/dev/loop1', '--bind=/dev/loop2', '--bind=/dev/loop3', '--bind=/dev/loop4', '--bind=/dev/loop5', '--bind=/dev/loop6', '--bind=/dev/loop7', '--bind=/dev/loop8', '--bind=/dev/loop9', '--bind=/dev/loop10', '--bind=/dev/loop11']unshare_net=TrueprintOutput=True)
Using nspawn with args ['--capability=cap_ipc_lock', '--rlimit=RLIMIT_NOFILE=10240', '--capability=cap_ipc_lock', '--bind=/tmp/mock-resolv.3_n32glc:/etc/resolv.conf', '--bind=/dev/btrfs-control', '--bind=/dev/loop-control', '--bind=/dev/loop0', '--bind=/dev/loop1', '--bind=/dev/loop2', '--bind=/dev/loop3', '--bind=/dev/loop4', '--bind=/dev/loop5', '--bind=/dev/loop6', '--bind=/dev/loop7', '--bind=/dev/loop8', '--bind=/dev/loop9', '--bind=/dev/loop10', '--bind=/dev/loop11']
Executing command: ['/usr/bin/systemd-nspawn', '-q', '-M', '50ad53f10c904466b5ed0ce915d0df72', '-D', '/var/lib/mock/fedora-rawhide-x86_64-1608269844.105135/root', '-a', '-u', 'mockbuild', '--capability=cap_ipc_lock', '--rlimit=RLIMIT_NOFILE=10240', '--capability=cap_ipc_lock', '--bind=/tmp/mock-resolv.3_n32glc:/etc/resolv.conf', '--bind=/dev/btrfs-control', '--bind=/dev/loop-control', '--bind=/dev/loop0', '--bind=/dev/loop1', '--bind=/dev/loop2', '--bind=/dev/loop3', '--bind=/dev/loop4', '--bind=/dev/loop5', '--bind=/dev/loop6', '--bind=/dev/loop7', '--bind=/dev/loop8', '--bind=/dev/loop9', '--bind=/dev/loop10', '--bind=/dev/loop11', '--console=pipe', '--setenv=TERM=vt100', '--setenv=SHELL=/bin/bash', '--setenv=HOME=/builddir', '--setenv=HOSTNAME=mock', '--setenv=PATH=/usr/bin:/bin:/usr/sbin:/sbin', '--setenv=PROMPT_COMMAND=printf "\\033]0;<mock-chroot>\\007"', '--setenv=PS1=<mock-chroot> \\s-\\v\\$ ', '--setenv=LANG=C.UTF-8', '--resolv-conf=off', 'bash', '--login', '-c', '/usr/bin/rpmbuild -bb --target x86_64 --nodeps /builddir/build/SPECS/harry.spec'] with env {'TERM': 'vt100', 'SHELL': '/bin/bash', 'HOME': '/builddir', 'HOSTNAME': 'mock', 'PATH': '/usr/bin:/bin:/usr/sbin:/sbin', 'PROMPT_COMMAND': 'printf "\\033]0;<mock-chroot>\\007"', 'PS1': '<mock-chroot> \\s-\\v\\$ ', 'LANG': 'C.UTF-8', 'SYSTEMD_NSPAWN_TMPFS_TMP': '0'} and shell False
Building target platforms: x86_64
Building for target x86_64
setting SOURCE_DATE_EPOCH=1608249600
Executing(%prep): /bin/sh -e /var/tmp/rpm-tmp.R8jZov
+ umask 022
+ cd /builddir/build/BUILD
+ cd /builddir/build/BUILD
+ rm -rf harry-0.4.2
+ /usr/bin/gzip -dc /builddir/build/SOURCES/0.4.2.tar.gz
+ /usr/bin/tar -xof -
+ STATUS=0
+ '[' 0 -ne 0 ']'
+ cd harry-0.4.2
+ /usr/bin/chmod -Rf a+rX,u+w,g-w,o-w .
+ /usr/bin/cat /builddir/build/SOURCES/harry_autotools.patch
+ /usr/bin/patch -s --fuzz=0 --no-backup-if-mismatch
+ 2to3 --write --nobackups python/gen_options.py
RefactoringTool: Skipping optional fixer: buffer
RefactoringTool: Skipping optional fixer: idioms
RefactoringTool: Skipping optional fixer: set_literal
RefactoringTool: Skipping optional fixer: ws_comma
RefactoringTool: Refactored python/gen_options.py
RefactoringTool: Files that were modified:
RefactoringTool: python/gen_options.py
--- python/gen_options.py	(original)
+++ python/gen_options.py	(refactored)
@@ -3,7 +3,7 @@
 
 # Script for configuring the Python module at compile-time.
 if len(sys.argv) != 5:
-    print "usage: %s <options.file> <binpath> <module.in> <module.out>" % sys.argv[0]
+    print("usage: %s <options.file> <binpath> <module.in> <module.out>" % sys.argv[0])
     sys.exit(0)
 
 options = []
+ RPM_EC=0
++ jobs -p
+ exit 0
Executing(%build): /bin/sh -e /var/tmp/rpm-tmp.DQ1Iiv
+ umask 022
+ cd /builddir/build/BUILD
+ cd harry-0.4.2
+ ./bootstrap
libtoolize: putting auxiliary files in '.'.
libtoolize: linking file './ltmain.sh'
libtoolize: putting macros in AC_CONFIG_MACRO_DIRS, 'm4'.
libtoolize: linking file 'm4/libtool.m4'
libtoolize: linking file 'm4/ltoptions.m4'
libtoolize: linking file 'm4/ltsugar.m4'
libtoolize: linking file 'm4/ltversion.m4'
libtoolize: linking file 'm4/lt~obsolete.m4'
configure.ac:17: installing './compile'
configure.ac:18: installing './config.guess'
configure.ac:18: installing './config.sub'
configure.ac:13: installing './install-sh'
configure.ac:13: installing './missing'
python/Makefile.am:16: installing './py-compile'
src/Makefile.am: installing './depcomp'
parallel-tests: installing './test-driver'
+ CFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection'
+ export CFLAGS
+ CXXFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection'
+ export CXXFLAGS
+ FFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules'
+ export FFLAGS
+ FCFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules'
+ export FCFLAGS
+ LDFLAGS='-Wl,-z,relro -Wl,--as-needed  -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld '
+ export LDFLAGS
+ LT_SYS_LIBRARY_PATH=/usr/lib64:
+ export LT_SYS_LIBRARY_PATH
+ CC=gcc
+ export CC
+ CXX=g++
+ export CXX
+ '[' '-flto=auto -ffat-lto-objectsx' '!=' x ']'
++ find . -type f -name configure -print
+ for file in $(find . -type f -name configure -print)
+ /usr/bin/sed -r --in-place=.backup 's/^char \(\*f\) \(\) = /__attribute__ ((used)) char (*f) () = /g' ./configure
+ diff -u ./configure.backup ./configure
+ mv ./configure.backup ./configure
+ /usr/bin/sed -r --in-place=.backup 's/^char \(\*f\) \(\);/__attribute__ ((used)) char (*f) ();/g' ./configure
+ diff -u ./configure.backup ./configure
+ mv ./configure.backup ./configure
+ /usr/bin/sed -r --in-place=.backup 's/^char \$2 \(\);/__attribute__ ((used)) char \$2 ();/g' ./configure
+ diff -u ./configure.backup ./configure
--- ./configure.backup	2020-12-18 05:37:48.462964097 +0000
+++ ./configure	2020-12-18 05:37:49.780932645 +0000
@@ -1772,7 +1772,7 @@
 #ifdef __cplusplus
 extern "C"
 #endif
-char $2 ();
+__attribute__ ((used)) char $2 ();
 /* The GNU C library defines this for functions which it implements
     to always fail with ENOSYS.  Some functions are actually named
     something starting with __ and the normal name is an alias.  */
+ /usr/bin/sed --in-place=.backup '1{$!N;$!N};$!N;s/int x = 1;\nint y = 0;\nint z;\nint nan;/volatile int x = 1; volatile int y = 0; volatile int z, nan;/;P;D' ./configure
+ diff -u ./configure.backup ./configure
+ mv ./configure.backup ./configure
+ /usr/bin/sed --in-place=.backup 's#^lt_cv_sys_global_symbol_to_cdecl=.*#lt_cv_sys_global_symbol_to_cdecl="sed -n -e '\''s/^T .* \\(.*\\)$/extern int \\1();/p'\'' -e '\''s/^$symcode* .* \\(.*\\)$/extern char \\1;/p'\''"#' ./configure
+ diff -u ./configure.backup ./configure
--- ./configure.backup	2020-12-18 05:37:49.780932645 +0000
+++ ./configure	2020-12-18 05:37:49.799932191 +0000
@@ -5998,7 +5998,7 @@
 # Transform an extracted symbol line into a proper C declaration.
 # Some systems (esp. on ia64) link data and code symbols differently,
 # so use this general approach.
-lt_cv_sys_global_symbol_to_cdecl="sed -n"\
+lt_cv_sys_global_symbol_to_cdecl="sed -n -e 's/^T .* \(.*\)$/extern int \1();/p' -e 's/^$symcode* .* \(.*\)$/extern char \1;/p'"
 $lt_cdecl_hook\
 " -e 's/^T .* \(.*\)$/extern int \1();/p'"\
 " -e 's/^$symcode$symcode* .* \(.*\)$/extern char \1;/p'"
@@ -13633,7 +13633,7 @@
 compiler='`$ECHO "$compiler" | $SED "$delay_single_quote_subst"`'
 GCC='`$ECHO "$GCC" | $SED "$delay_single_quote_subst"`'
 lt_cv_sys_global_symbol_pipe='`$ECHO "$lt_cv_sys_global_symbol_pipe" | $SED "$delay_single_quote_subst"`'
-lt_cv_sys_global_symbol_to_cdecl='`$ECHO "$lt_cv_sys_global_symbol_to_cdecl" | $SED "$delay_single_quote_subst"`'
+lt_cv_sys_global_symbol_to_cdecl="sed -n -e 's/^T .* \(.*\)$/extern int \1();/p' -e 's/^$symcode* .* \(.*\)$/extern char \1;/p'"
 lt_cv_sys_global_symbol_to_import='`$ECHO "$lt_cv_sys_global_symbol_to_import" | $SED "$delay_single_quote_subst"`'
 lt_cv_sys_global_symbol_to_c_name_address='`$ECHO "$lt_cv_sys_global_symbol_to_c_name_address" | $SED "$delay_single_quote_subst"`'
 lt_cv_sys_global_symbol_to_c_name_address_lib_prefix='`$ECHO "$lt_cv_sys_global_symbol_to_c_name_address_lib_prefix" | $SED "$delay_single_quote_subst"`'
+ '[' 1 = 1 ']'
+++ dirname ./configure
++ find . -name config.guess -o -name config.sub
+ for i in $(find $(dirname ./configure) -name config.guess -o -name config.sub)
++ basename ./config.sub
+ '[' -f /usr/lib/rpm/redhat/config.sub ']'
+ /usr/bin/rm -f ./config.sub
++ basename ./config.sub
+ /usr/bin/cp -fv /usr/lib/rpm/redhat/config.sub ./config.sub
'/usr/lib/rpm/redhat/config.sub' -> './config.sub'
+ for i in $(find $(dirname ./configure) -name config.guess -o -name config.sub)
++ basename ./config.guess
+ '[' -f /usr/lib/rpm/redhat/config.guess ']'
+ /usr/bin/rm -f ./config.guess
++ basename ./config.guess
+ /usr/bin/cp -fv /usr/lib/rpm/redhat/config.guess ./config.guess
'/usr/lib/rpm/redhat/config.guess' -> './config.guess'
+ '[' 1 = 1 ']'
+ '[' x '!=' 'x-Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld' ']'
++ find . -name ltmain.sh
+ for i in $(find . -name ltmain.sh)
+ /usr/bin/sed -i.backup -e 's~compiler_flags=$~compiler_flags="-Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld"~' ./ltmain.sh
+ ./configure --build=x86_64-redhat-linux-gnu --host=x86_64-redhat-linux-gnu --program-prefix= --disable-dependency-tracking --prefix=/usr --exec-prefix=/usr --bindir=/usr/bin --sbindir=/usr/sbin --sysconfdir=/etc --datadir=/usr/share --includedir=/usr/include --libdir=/usr/lib64 --libexecdir=/usr/libexec --localstatedir=/var --sharedstatedir=/var/lib --mandir=/usr/share/man --infodir=/usr/share/info --prefix /usr/bin --enable-prwlock
  Harry - A Tool for Measuring String Similarity
  Copyright (c) 2013-2016 Konrad Rieck (konrad@mlsec.org)
checking for a BSD-compatible install... /usr/bin/install -c
checking whether build environment is sane... yes
checking for a thread-safe mkdir -p... /usr/bin/mkdir -p
checking for gawk... gawk
checking whether make sets $(MAKE)... yes
checking whether make supports nested variables... yes
checking for x86_64-redhat-linux-gnu-gcc... gcc
checking whether the C compiler works... yes
checking for C compiler default output file name... a.out
checking for suffix of executables... 
checking whether we are cross compiling... no
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 ISO C89... none needed
checking whether gcc understands -c and -o together... yes
checking whether make supports the include directive... yes (GNU style)
checking dependency style of gcc... none
checking build system type... x86_64-redhat-linux-gnu
checking host system type... x86_64-redhat-linux-gnu
checking for a sed that does not truncate output... /usr/bin/sed
checking for grep that handles long lines and -e... /usr/bin/grep
checking for egrep... /usr/bin/grep -E
checking for fgrep... /usr/bin/grep -F
checking how to print strings... printf
checking for ld used by gcc... /usr/bin/ld
checking if the linker (/usr/bin/ld) is GNU ld... yes
checking for BSD- or MS-compatible name lister (nm)... /usr/bin/nm -B
checking the name lister (/usr/bin/nm -B) interface... BSD nm
checking whether ln -s works... yes
checking the maximum length of command line arguments... 1572864
checking how to convert x86_64-redhat-linux-gnu file names to x86_64-redhat-linux-gnu format... func_convert_file_noop
checking how to convert x86_64-redhat-linux-gnu file names to toolchain format... func_convert_file_noop
checking for /usr/bin/ld option to reload object files... -r
checking for x86_64-redhat-linux-gnu-objdump... no
checking for objdump... objdump
checking how to recognize dependent libraries... pass_all
checking for x86_64-redhat-linux-gnu-dlltool... no
checking for dlltool... no
checking how to associate runtime and link libraries... printf %s\n
checking for x86_64-redhat-linux-gnu-ar... no
checking for ar... ar
checking for archiver @FILE support... @
checking for x86_64-redhat-linux-gnu-strip... no
checking for strip... strip
checking for x86_64-redhat-linux-gnu-ranlib... no
checking for ranlib... ranlib
checking command to parse /usr/bin/nm -B output from gcc object... ./configure: line 5952:  -e 's/^T .* \(.*\)$/extern int \1();/p' -e 's/^[ABCDGIRSTW][ABCDGIRSTW]* .* \(.*\)$/extern char \1;/p': No such file or directory
ok
checking for sysroot... no
checking for a working dd... /usr/bin/dd
checking how to truncate binary pipes... /usr/bin/dd bs=4096 count=1
checking for x86_64-redhat-linux-gnu-mt... no
checking for mt... no
checking if : is a manifest tool... no
checking how to run the C preprocessor... gcc -E
checking for ANSI C header files... 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 dlfcn.h... yes
checking for objdir... .libs
checking if gcc supports -fno-rtti -fno-exceptions... no
checking for gcc option to produce PIC... -fPIC -DPIC
checking if gcc PIC flag -fPIC -DPIC works... yes
checking if gcc static flag -static works... no
checking if gcc supports -c -o file.o... yes
checking if gcc supports -c -o file.o... (cached) yes
checking whether the gcc linker (/usr/bin/ld -m elf_x86_64) supports shared libraries... yes
checking whether -lc should be explicitly linked in... no
checking dynamic linker characteristics... GNU/Linux ld.so
checking how to hardcode library paths into programs... immediate
checking whether stripping libraries is possible... yes
checking if libtool supports shared libraries... yes
checking whether to build shared libraries... yes
checking whether to build static libraries... yes
checking for python... no
checking for python2... no
checking for python3... /usr/bin/python3
checking for python version... 3.9
checking for python platform... linux
checking for python script directory... ${prefix}/lib/python3.9/site-packages
checking for python extension module directory... ${exec_prefix}/bin/lib64/python3.9/site-packages
checking zlib.h usability... yes
checking zlib.h presence... yes
checking for zlib.h... yes
checking for gzopen in -lz... yes
checking archive.h usability... yes
checking archive.h presence... yes
checking for archive.h... yes
checking for archive_read_new in -larchive... yes
checking libconfig.h usability... yes
checking libconfig.h presence... yes
checking for libconfig.h... yes
checking for x86_64-redhat-linux-gnu-pkg-config... /usr/bin/x86_64-redhat-linux-gnu-pkg-config
checking pkg-config is at least version 0.9.0... yes
checking for PKGCONFIG... yes
checking omp.h usability... yes
checking omp.h presence... yes
checking for omp.h... yes
checking for OpenMP flag of C compiler... -fopenmp
checking pthread.h usability... yes
checking pthread.h presence... yes
checking for pthread.h... yes
checking for pthread_rwlock_init in -lpthread... yes
checking getopt.h usability... yes
checking getopt.h presence... yes
checking for getopt.h... yes
checking for string.h... (cached) yes
checking for strings.h... (cached) yes
checking regex.h usability... yes
checking regex.h presence... yes
checking for regex.h... yes
checking uthash.h usability... no
checking uthash.h presence... no
checking for uthash.h... no
checking uthash/uthash.h usability... no
checking uthash/uthash.h presence... no
checking for uthash/uthash.h... no
checking for log2... yes
checking that generated files are newer than configure... done
configure: creating ./config.status
config.status: creating Makefile
config.status: creating src/Makefile
config.status: creating src/measures/Makefile
config.status: creating src/input/Makefile
config.status: creating src/output/Makefile
config.status: creating python/Makefile
config.status: creating tests/Makefile
config.status: creating doc/Makefile
config.status: creating examples/Makefile
config.status: creating examples/alexa/Makefile
config.status: creating examples/reuters/Makefile
config.status: creating config.h
config.status: executing depfiles commands
config.status: executing libtool commands
 .Oo Optional packages:
     Support for reading archives (--with-libarchive):       yes
     Support for multi-processing (--with-openmp):           yes
     Support for POSIX threads and locks (--with-pthreads):  yes
 .Oo Optional features:
     POSIX read-write lock (--enable-prwlock):               yes
     MD5 as alternative hash (--enable-md5hash):             no
+ /usr/bin/make -O -j2 V=1 VERBOSE=1
/usr/bin/make  all-recursive
Making all in src
Making all in measures
make[3]: Entering directory '/builddir/build/BUILD/harry-0.4.2/src/measures'
/usr/bin/python3 gen_measures.py measures.txt measures.c
make[3]: Leaving directory '/builddir/build/BUILD/harry-0.4.2/src/measures'
make[3]: Entering directory '/builddir/build/BUILD/harry-0.4.2/src/measures'
/bin/sh ../../libtool  --tag=CC   --mode=compile gcc -DHAVE_CONFIG_H -I. -I../..  -I./.. -I./../input   -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC  -fopenmp  -c -o dist_hamming.lo dist_hamming.c
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I../.. -I./.. -I./../input -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC -fopenmp -c dist_hamming.c  -fPIC -DPIC -o .libs/dist_hamming.o
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I../.. -I./.. -I./../input -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC -fopenmp -c dist_hamming.c -o dist_hamming.o >/dev/null 2>&1
make[3]: Leaving directory '/builddir/build/BUILD/harry-0.4.2/src/measures'
In file included from /usr/include/sys/time.h:21,
                 from ./../common.h:23,
                 from dist_hamming.c:12:
/usr/include/features.h:187:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp]
  187 | # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE"
      |   ^~~~~~~
make[3]: Entering directory '/builddir/build/BUILD/harry-0.4.2/src/measures'
/bin/sh ../../libtool  --tag=CC   --mode=compile gcc -DHAVE_CONFIG_H -I. -I../..  -I./.. -I./../input   -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC  -fopenmp  -c -o dist_levenshtein.lo dist_levenshtein.c
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I../.. -I./.. -I./../input -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC -fopenmp -c dist_levenshtein.c  -fPIC -DPIC -o .libs/dist_levenshtein.o
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I../.. -I./.. -I./../input -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC -fopenmp -c dist_levenshtein.c -o dist_levenshtein.o >/dev/null 2>&1
make[3]: Leaving directory '/builddir/build/BUILD/harry-0.4.2/src/measures'
In file included from /usr/include/sys/time.h:21,
                 from ./../common.h:23,
                 from dist_levenshtein.c:14:
/usr/include/features.h:187:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp]
  187 | # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE"
      |   ^~~~~~~
make[3]: Entering directory '/builddir/build/BUILD/harry-0.4.2/src/measures'
/bin/sh ../../libtool  --tag=CC   --mode=compile gcc -DHAVE_CONFIG_H -I. -I../..  -I./.. -I./../input   -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC  -fopenmp  -c -o dist_jarowinkler.lo dist_jarowinkler.c
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I../.. -I./.. -I./../input -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC -fopenmp -c dist_jarowinkler.c  -fPIC -DPIC -o .libs/dist_jarowinkler.o
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I../.. -I./.. -I./../input -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC -fopenmp -c dist_jarowinkler.c -o dist_jarowinkler.o >/dev/null 2>&1
In file included from /usr/include/sys/time.h:21,
                 from ./../common.h:23,
                 from dist_jarowinkler.c:22:
/usr/include/features.h:187:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp]
  187 | # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE"
      |   ^~~~~~~
make[3]: Leaving directory '/builddir/build/BUILD/harry-0.4.2/src/measures'
make[3]: Entering directory '/builddir/build/BUILD/harry-0.4.2/src/measures'
/bin/sh ../../libtool  --tag=CC   --mode=compile gcc -DHAVE_CONFIG_H -I. -I../..  -I./.. -I./../input   -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC  -fopenmp  -c -o dist_lee.lo dist_lee.c
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I../.. -I./.. -I./../input -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC -fopenmp -c dist_lee.c  -fPIC -DPIC -o .libs/dist_lee.o
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I../.. -I./.. -I./../input -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC -fopenmp -c dist_lee.c -o dist_lee.o >/dev/null 2>&1
In file included from /usr/include/sys/time.h:21,
                 from ./../common.h:23,
                 from dist_lee.c:12:
/usr/include/features.h:187:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp]
  187 | # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE"
      |   ^~~~~~~
make[3]: Leaving directory '/builddir/build/BUILD/harry-0.4.2/src/measures'
make[3]: Entering directory '/builddir/build/BUILD/harry-0.4.2/src/measures'
/bin/sh ../../libtool  --tag=CC   --mode=compile gcc -DHAVE_CONFIG_H -I. -I../..  -I./.. -I./../input   -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC  -fopenmp  -c -o kern_wdegree.lo kern_wdegree.c
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I../.. -I./.. -I./../input -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC -fopenmp -c kern_wdegree.c  -fPIC -DPIC -o .libs/kern_wdegree.o
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I../.. -I./.. -I./../input -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC -fopenmp -c kern_wdegree.c -o kern_wdegree.o >/dev/null 2>&1
In file included from /usr/include/sys/time.h:21,
                 from ./../common.h:23,
                 from kern_wdegree.c:12:
/usr/include/features.h:187:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp]
  187 | # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE"
      |   ^~~~~~~
make[3]: Leaving directory '/builddir/build/BUILD/harry-0.4.2/src/measures'
make[3]: Entering directory '/builddir/build/BUILD/harry-0.4.2/src/measures'
/bin/sh ../../libtool  --tag=CC   --mode=compile gcc -DHAVE_CONFIG_H -I. -I../..  -I./.. -I./../input   -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC  -fopenmp  -c -o kern_subsequence.lo kern_subsequence.c
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I../.. -I./.. -I./../input -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC -fopenmp -c kern_subsequence.c  -fPIC -DPIC -o .libs/kern_subsequence.o
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I../.. -I./.. -I./../input -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC -fopenmp -c kern_subsequence.c -o kern_subsequence.o >/dev/null 2>&1
In file included from /usr/include/sys/time.h:21,
                 from ./../common.h:23,
                 from kern_subsequence.c:12:
/usr/include/features.h:187:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp]
  187 | # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE"
      |   ^~~~~~~
make[3]: Leaving directory '/builddir/build/BUILD/harry-0.4.2/src/measures'
make[3]: Entering directory '/builddir/build/BUILD/harry-0.4.2/src/measures'
/bin/sh ../../libtool  --tag=CC   --mode=compile gcc -DHAVE_CONFIG_H -I. -I../..  -I./.. -I./../input   -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC  -fopenmp  -c -o dist_damerau.lo dist_damerau.c
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I../.. -I./.. -I./../input -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC -fopenmp -c dist_damerau.c  -fPIC -DPIC -o .libs/dist_damerau.o
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I../.. -I./.. -I./../input -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC -fopenmp -c dist_damerau.c -o dist_damerau.o >/dev/null 2>&1
In file included from /usr/include/sys/time.h:21,
                 from ./../common.h:23,
                 from dist_damerau.c:13:
/usr/include/features.h:187:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp]
  187 | # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE"
      |   ^~~~~~~
make[3]: Leaving directory '/builddir/build/BUILD/harry-0.4.2/src/measures'
make[3]: Entering directory '/builddir/build/BUILD/harry-0.4.2/src/measures'
/bin/sh ../../libtool  --tag=CC   --mode=compile gcc -DHAVE_CONFIG_H -I. -I../..  -I./.. -I./../input   -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC  -fopenmp  -c -o dist_compression.lo dist_compression.c
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I../.. -I./.. -I./../input -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC -fopenmp -c dist_compression.c  -fPIC -DPIC -o .libs/dist_compression.o
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I../.. -I./.. -I./../input -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC -fopenmp -c dist_compression.c -o dist_compression.o >/dev/null 2>&1
In file included from /usr/include/sys/time.h:21,
                 from ./../common.h:23,
                 from dist_compression.c:12:
/usr/include/features.h:187:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp]
  187 | # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE"
      |   ^~~~~~~
make[3]: Leaving directory '/builddir/build/BUILD/harry-0.4.2/src/measures'
make[3]: Entering directory '/builddir/build/BUILD/harry-0.4.2/src/measures'
/bin/sh ../../libtool  --tag=CC   --mode=compile gcc -DHAVE_CONFIG_H -I. -I../..  -I./.. -I./../input   -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC  -fopenmp  -c -o norm.lo norm.c
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I../.. -I./.. -I./../input -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC -fopenmp -c norm.c  -fPIC -DPIC -o .libs/norm.o
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I../.. -I./.. -I./../input -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC -fopenmp -c norm.c -o norm.o >/dev/null 2>&1
In file included from /usr/include/sys/time.h:21,
                 from ./../common.h:23,
                 from norm.c:12:
/usr/include/features.h:187:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp]
  187 | # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE"
      |   ^~~~~~~
make[3]: Leaving directory '/builddir/build/BUILD/harry-0.4.2/src/measures'
make[3]: Entering directory '/builddir/build/BUILD/harry-0.4.2/src/measures'
/bin/sh ../../libtool  --tag=CC   --mode=compile gcc -DHAVE_CONFIG_H -I. -I../..  -I./.. -I./../input   -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC  -fopenmp  -c -o dist_bag.lo dist_bag.c
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I../.. -I./.. -I./../input -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC -fopenmp -c dist_bag.c  -fPIC -DPIC -o .libs/dist_bag.o
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I../.. -I./.. -I./../input -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC -fopenmp -c dist_bag.c -o dist_bag.o >/dev/null 2>&1
make[3]: Leaving directory '/builddir/build/BUILD/harry-0.4.2/src/measures'
In file included from /usr/include/sys/time.h:21,
                 from ./../common.h:23,
                 from dist_bag.c:12:
/usr/include/features.h:187:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp]
  187 | # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE"
      |   ^~~~~~~
make[3]: Entering directory '/builddir/build/BUILD/harry-0.4.2/src/measures'
/bin/sh ../../libtool  --tag=CC   --mode=compile gcc -DHAVE_CONFIG_H -I. -I../..  -I./.. -I./../input   -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC  -fopenmp  -c -o kern_distance.lo kern_distance.c
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I../.. -I./.. -I./../input -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC -fopenmp -c kern_distance.c  -fPIC -DPIC -o .libs/kern_distance.o
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I../.. -I./.. -I./../input -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC -fopenmp -c kern_distance.c -o kern_distance.o >/dev/null 2>&1
make[3]: Leaving directory '/builddir/build/BUILD/harry-0.4.2/src/measures'
In file included from /usr/include/sys/time.h:21,
                 from ./../common.h:23,
                 from kern_distance.c:12:
/usr/include/features.h:187:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp]
  187 | # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE"
      |   ^~~~~~~
make[3]: Entering directory '/builddir/build/BUILD/harry-0.4.2/src/measures'
/bin/sh ../../libtool  --tag=CC   --mode=compile gcc -DHAVE_CONFIG_H -I. -I../..  -I./.. -I./../input   -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC  -fopenmp  -c -o dist_kernel.lo dist_kernel.c
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I../.. -I./.. -I./../input -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC -fopenmp -c dist_kernel.c  -fPIC -DPIC -o .libs/dist_kernel.o
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I../.. -I./.. -I./../input -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC -fopenmp -c dist_kernel.c -o dist_kernel.o >/dev/null 2>&1
make[3]: Leaving directory '/builddir/build/BUILD/harry-0.4.2/src/measures'
In file included from /usr/include/sys/time.h:21,
                 from ./../common.h:23,
                 from dist_kernel.c:12:
/usr/include/features.h:187:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp]
  187 | # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE"
      |   ^~~~~~~
make[3]: Entering directory '/builddir/build/BUILD/harry-0.4.2/src/measures'
/bin/sh ../../libtool  --tag=CC   --mode=compile gcc -DHAVE_CONFIG_H -I. -I../..  -I./.. -I./../input   -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC  -fopenmp  -c -o sim_coefficient.lo sim_coefficient.c
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I../.. -I./.. -I./../input -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC -fopenmp -c sim_coefficient.c  -fPIC -DPIC -o .libs/sim_coefficient.o
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I../.. -I./.. -I./../input -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC -fopenmp -c sim_coefficient.c -o sim_coefficient.o >/dev/null 2>&1
In file included from /usr/include/sys/time.h:21,
                 from ./../common.h:23,
                 from sim_coefficient.c:12:
/usr/include/features.h:187:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp]
  187 | # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE"
      |   ^~~~~~~
make[3]: Leaving directory '/builddir/build/BUILD/harry-0.4.2/src/measures'
make[3]: Entering directory '/builddir/build/BUILD/harry-0.4.2/src/measures'
/bin/sh ../../libtool  --tag=CC   --mode=compile gcc -DHAVE_CONFIG_H -I. -I../..  -I./.. -I./../input   -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC  -fopenmp  -c -o kern_spectrum.lo kern_spectrum.c
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I../.. -I./.. -I./../input -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC -fopenmp -c kern_spectrum.c  -fPIC -DPIC -o .libs/kern_spectrum.o
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I../.. -I./.. -I./../input -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC -fopenmp -c kern_spectrum.c -o kern_spectrum.o >/dev/null 2>&1
make[3]: Leaving directory '/builddir/build/BUILD/harry-0.4.2/src/measures'
In file included from /usr/include/sys/time.h:21,
                 from ./../common.h:23,
                 from kern_spectrum.c:12:
/usr/include/features.h:187:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp]
  187 | # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE"
      |   ^~~~~~~
make[3]: Entering directory '/builddir/build/BUILD/harry-0.4.2/src/measures'
/bin/sh ../../libtool  --tag=CC   --mode=compile gcc -DHAVE_CONFIG_H -I. -I../..  -I./.. -I./../input   -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC  -fopenmp  -c -o dist_osa.lo dist_osa.c
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I../.. -I./.. -I./../input -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC -fopenmp -c dist_osa.c  -fPIC -DPIC -o .libs/dist_osa.o
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I../.. -I./.. -I./../input -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC -fopenmp -c dist_osa.c -o dist_osa.o >/dev/null 2>&1
make[3]: Leaving directory '/builddir/build/BUILD/harry-0.4.2/src/measures'
In file included from /usr/include/sys/time.h:21,
                 from ./../common.h:23,
                 from dist_osa.c:12:
/usr/include/features.h:187:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp]
  187 | # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE"
      |   ^~~~~~~
make[3]: Entering directory '/builddir/build/BUILD/harry-0.4.2/src/measures'
/bin/sh ../../libtool  --tag=CC   --mode=compile gcc -DHAVE_CONFIG_H -I. -I../..  -I./.. -I./../input   -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC  -fopenmp  -c -o measures.lo measures.c
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I../.. -I./.. -I./../input -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC -fopenmp -c measures.c  -fPIC -DPIC -o .libs/measures.o
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I../.. -I./.. -I./../input -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC -fopenmp -c measures.c -o measures.o >/dev/null 2>&1
make[3]: Leaving directory '/builddir/build/BUILD/harry-0.4.2/src/measures'
In file included from /usr/include/sys/time.h:21,
                 from ./../common.h:23,
                 from measures.c:21:
/usr/include/features.h:187:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp]
  187 | # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE"
      |   ^~~~~~~
make[3]: Entering directory '/builddir/build/BUILD/harry-0.4.2/src/measures'
/bin/sh ../../libtool  --tag=CC   --mode=link gcc  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC  -fopenmp   -Wl,-z,relro -Wl,--as-needed  -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld  -o libmeasures.la  measures.lo dist_hamming.lo dist_levenshtein.lo dist_jarowinkler.lo dist_lee.lo kern_wdegree.lo dist_damerau.lo kern_subsequence.lo dist_compression.lo dist_bag.lo norm.lo sim_coefficient.lo kern_distance.lo dist_kernel.lo kern_spectrum.lo dist_osa.lo  -lpthread -larchive -lz  -lm -lconfig 
libtool: link: ar cru .libs/libmeasures.a .libs/measures.o .libs/dist_hamming.o .libs/dist_levenshtein.o .libs/dist_jarowinkler.o .libs/dist_lee.o .libs/kern_wdegree.o .libs/dist_damerau.o .libs/kern_subsequence.o .libs/dist_compression.o .libs/dist_bag.o .libs/norm.o .libs/sim_coefficient.o .libs/kern_distance.o .libs/dist_kernel.o .libs/kern_spectrum.o .libs/dist_osa.o 
libtool: link: ranlib .libs/libmeasures.a
libtool: link: ( cd ".libs" && rm -f "libmeasures.la" && ln -s "../libmeasures.la" "libmeasures.la" )
make[3]: Leaving directory '/builddir/build/BUILD/harry-0.4.2/src/measures'
Making all in input
make[3]: Entering directory '/builddir/build/BUILD/harry-0.4.2/src/input'
/bin/sh ../../libtool  --tag=CC   --mode=compile gcc -DHAVE_CONFIG_H -I. -I../..  -I../../src    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC  -fopenmp  -c -o input.lo input.c
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I../.. -I../../src -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC -fopenmp -c input.c  -fPIC -DPIC -o .libs/input.o
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I../.. -I../../src -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC -fopenmp -c input.c -o input.o >/dev/null 2>&1
In file included from /usr/include/sys/time.h:21,
                 from ../../src/common.h:23,
                 from input.c:21:
/usr/include/features.h:187:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp]
  187 | # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE"
      |   ^~~~~~~
make[3]: Leaving directory '/builddir/build/BUILD/harry-0.4.2/src/input'
make[3]: Entering directory '/builddir/build/BUILD/harry-0.4.2/src/input'
/bin/sh ../../libtool  --tag=CC   --mode=compile gcc -DHAVE_CONFIG_H -I. -I../..  -I../../src    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC  -fopenmp  -c -o input_arc.lo input_arc.c
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I../.. -I../../src -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC -fopenmp -c input_arc.c  -fPIC -DPIC -o .libs/input_arc.o
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I../.. -I../../src -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC -fopenmp -c input_arc.c -o input_arc.o >/dev/null 2>&1
In file included from /usr/include/sys/time.h:21,
                 from ../../src/common.h:23,
                 from input_arc.c:23:
/usr/include/features.h:187:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp]
  187 | # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE"
      |   ^~~~~~~
make[3]: Leaving directory '/builddir/build/BUILD/harry-0.4.2/src/input'
make[3]: Entering directory '/builddir/build/BUILD/harry-0.4.2/src/input'
/bin/sh ../../libtool  --tag=CC   --mode=compile gcc -DHAVE_CONFIG_H -I. -I../..  -I../../src    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC  -fopenmp  -c -o input_dir.lo input_dir.c
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I../.. -I../../src -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC -fopenmp -c input_dir.c  -fPIC -DPIC -o .libs/input_dir.o
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I../.. -I../../src -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC -fopenmp -c input_dir.c -o input_dir.o >/dev/null 2>&1
In file included from /usr/include/sys/time.h:21,
                 from ../../src/common.h:23,
                 from input_dir.c:23:
/usr/include/features.h:187:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp]
  187 | # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE"
      |   ^~~~~~~
make[3]: Leaving directory '/builddir/build/BUILD/harry-0.4.2/src/input'
make[3]: Entering directory '/builddir/build/BUILD/harry-0.4.2/src/input'
/bin/sh ../../libtool  --tag=CC   --mode=compile gcc -DHAVE_CONFIG_H -I. -I../..  -I../../src    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC  -fopenmp  -c -o input_lines.lo input_lines.c
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I../.. -I../../src -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC -fopenmp -c input_lines.c  -fPIC -DPIC -o .libs/input_lines.o
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I../.. -I../../src -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC -fopenmp -c input_lines.c -o input_lines.o >/dev/null 2>&1
In file included from /usr/include/sys/time.h:21,
                 from ../../src/common.h:23,
                 from input_lines.c:20:
/usr/include/features.h:187:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp]
  187 | # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE"
      |   ^~~~~~~
make[3]: Leaving directory '/builddir/build/BUILD/harry-0.4.2/src/input'
make[3]: Entering directory '/builddir/build/BUILD/harry-0.4.2/src/input'
/bin/sh ../../libtool  --tag=CC   --mode=compile gcc -DHAVE_CONFIG_H -I. -I../..  -I../../src    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC  -fopenmp  -c -o input_stdin.lo input_stdin.c
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I../.. -I../../src -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC -fopenmp -c input_stdin.c  -fPIC -DPIC -o .libs/input_stdin.o
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I../.. -I../../src -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC -fopenmp -c input_stdin.c -o input_stdin.o >/dev/null 2>&1
In file included from /usr/include/sys/time.h:21,
                 from ../../src/common.h:23,
                 from input_stdin.c:20:
/usr/include/features.h:187:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp]
  187 | # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE"
      |   ^~~~~~~
make[3]: Leaving directory '/builddir/build/BUILD/harry-0.4.2/src/input'
make[3]: Entering directory '/builddir/build/BUILD/harry-0.4.2/src/input'
/bin/sh ../../libtool  --tag=CC   --mode=compile gcc -DHAVE_CONFIG_H -I. -I../..  -I../../src    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC  -fopenmp  -c -o input_fasta.lo input_fasta.c
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I../.. -I../../src -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC -fopenmp -c input_fasta.c  -fPIC -DPIC -o .libs/input_fasta.o
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I../.. -I../../src -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC -fopenmp -c input_fasta.c -o input_fasta.o >/dev/null 2>&1
In file included from /usr/include/sys/time.h:21,
                 from ../../src/common.h:23,
                 from input_fasta.c:21:
/usr/include/features.h:187:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp]
  187 | # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE"
      |   ^~~~~~~
In file included from /usr/include/string.h:519,
                 from ../../src/common.h:54,
                 from input_fasta.c:21:
In function 'strncat',
    inlined from 'input_fasta_read' at input_fasta.c:165:9:
/usr/include/bits/string_fortified.h:129:10: warning: 'strncat' specified bound depends on the length of the source argument [-Wstringop-overflow=]
  129 |   return __builtin___strncat_chk (__dest, __src, __len, __bos (__dest));
      |          ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
input_fasta.c: In function 'input_fasta_read':
input_fasta.c:165:9: note: length computed here
  165 |         strncat(seq, line, strlen(line));
      |         ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
make[3]: Leaving directory '/builddir/build/BUILD/harry-0.4.2/src/input'
make[3]: Entering directory '/builddir/build/BUILD/harry-0.4.2/src/input'
/bin/sh ../../libtool  --tag=CC   --mode=compile gcc -DHAVE_CONFIG_H -I. -I../..  -I../../src    -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC  -fopenmp  -c -o input_raw.lo input_raw.c
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I../.. -I../../src -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC -fopenmp -c input_raw.c  -fPIC -DPIC -o .libs/input_raw.o
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I../.. -I../../src -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC -fopenmp -c input_raw.c -o input_raw.o >/dev/null 2>&1
make[3]: Leaving directory '/builddir/build/BUILD/harry-0.4.2/src/input'
In file included from /usr/include/sys/time.h:21,
                 from ../../src/common.h:23,
                 from input_raw.c:25:
/usr/include/features.h:187:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp]
  187 | # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE"
      |   ^~~~~~~
make[3]: Entering directory '/builddir/build/BUILD/harry-0.4.2/src/input'
/bin/sh ../../libtool  --tag=CC   --mode=link gcc  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC  -fopenmp   -Wl,-z,relro -Wl,--as-needed  -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld  -o libinput.la  input.lo input_arc.lo input_dir.lo input_lines.lo input_fasta.lo input_stdin.lo input_raw.lo  -lpthread -larchive -lz  -lm -lconfig 
libtool: link: ar cru .libs/libinput.a .libs/input.o .libs/input_arc.o .libs/input_dir.o .libs/input_lines.o .libs/input_fasta.o .libs/input_stdin.o .libs/input_raw.o 
libtool: link: ranlib .libs/libinput.a
libtool: link: ( cd ".libs" && rm -f "libinput.la" && ln -s "../libinput.la" "libinput.la" )
make[3]: Leaving directory '/builddir/build/BUILD/harry-0.4.2/src/input'
Making all in output
make[3]: Entering directory '/builddir/build/BUILD/harry-0.4.2/src/output'
/bin/sh ../../libtool  --tag=CC   --mode=compile gcc -DHAVE_CONFIG_H -I. -I../..  -I../../src -I../../src/fvec   -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC  -fopenmp  -c -o output.lo output.c
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I../.. -I../../src -I../../src/fvec -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC -fopenmp -c output.c  -fPIC -DPIC -o .libs/output.o
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I../.. -I../../src -I../../src/fvec -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC -fopenmp -c output.c -o output.o >/dev/null 2>&1
make[3]: Leaving directory '/builddir/build/BUILD/harry-0.4.2/src/output'
In file included from /usr/include/sys/time.h:21,
                 from ../../src/common.h:23,
                 from output.c:21:
/usr/include/features.h:187:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp]
  187 | # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE"
      |   ^~~~~~~
make[3]: Entering directory '/builddir/build/BUILD/harry-0.4.2/src/output'
/bin/sh ../../libtool  --tag=CC   --mode=compile gcc -DHAVE_CONFIG_H -I. -I../..  -I../../src -I../../src/fvec   -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC  -fopenmp  -c -o output_stdout.lo output_stdout.c
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I../.. -I../../src -I../../src/fvec -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC -fopenmp -c output_stdout.c  -fPIC -DPIC -o .libs/output_stdout.o
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I../.. -I../../src -I../../src/fvec -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC -fopenmp -c output_stdout.c -o output_stdout.o >/dev/null 2>&1
In file included from /usr/include/sys/time.h:21,
                 from ../../src/common.h:23,
                 from output_stdout.c:21:
/usr/include/features.h:187:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp]
  187 | # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE"
      |   ^~~~~~~
make[3]: Leaving directory '/builddir/build/BUILD/harry-0.4.2/src/output'
make[3]: Entering directory '/builddir/build/BUILD/harry-0.4.2/src/output'
/bin/sh ../../libtool  --tag=CC   --mode=compile gcc -DHAVE_CONFIG_H -I. -I../..  -I../../src -I../../src/fvec   -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC  -fopenmp  -c -o output_null.lo output_null.c
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I../.. -I../../src -I../../src/fvec -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC -fopenmp -c output_null.c  -fPIC -DPIC -o .libs/output_null.o
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I../.. -I../../src -I../../src/fvec -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC -fopenmp -c output_null.c -o output_null.o >/dev/null 2>&1
In file included from /usr/include/sys/time.h:21,
                 from ../../src/common.h:23,
                 from output_null.c:20:
/usr/include/features.h:187:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp]
  187 | # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE"
      |   ^~~~~~~
make[3]: Leaving directory '/builddir/build/BUILD/harry-0.4.2/src/output'
make[3]: Entering directory '/builddir/build/BUILD/harry-0.4.2/src/output'
/bin/sh ../../libtool  --tag=CC   --mode=compile gcc -DHAVE_CONFIG_H -I. -I../..  -I../../src -I../../src/fvec   -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC  -fopenmp  -c -o output_text.lo output_text.c
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I../.. -I../../src -I../../src/fvec -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC -fopenmp -c output_text.c  -fPIC -DPIC -o .libs/output_text.o
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I../.. -I../../src -I../../src/fvec -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC -fopenmp -c output_text.c -o output_text.o >/dev/null 2>&1
In file included from /usr/include/sys/time.h:21,
                 from ../../src/common.h:23,
                 from output_text.c:21:
/usr/include/features.h:187:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp]
  187 | # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE"
      |   ^~~~~~~
make[3]: Leaving directory '/builddir/build/BUILD/harry-0.4.2/src/output'
make[3]: Entering directory '/builddir/build/BUILD/harry-0.4.2/src/output'
/bin/sh ../../libtool  --tag=CC   --mode=compile gcc -DHAVE_CONFIG_H -I. -I../..  -I../../src -I../../src/fvec   -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC  -fopenmp  -c -o output_libsvm.lo output_libsvm.c
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I../.. -I../../src -I../../src/fvec -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC -fopenmp -c output_libsvm.c  -fPIC -DPIC -o .libs/output_libsvm.o
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I../.. -I../../src -I../../src/fvec -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC -fopenmp -c output_libsvm.c -o output_libsvm.o >/dev/null 2>&1
make[3]: Leaving directory '/builddir/build/BUILD/harry-0.4.2/src/output'
In file included from /usr/include/sys/time.h:21,
                 from ../../src/common.h:23,
                 from output_libsvm.c:21:
/usr/include/features.h:187:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp]
  187 | # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE"
      |   ^~~~~~~
make[3]: Entering directory '/builddir/build/BUILD/harry-0.4.2/src/output'
/bin/sh ../../libtool  --tag=CC   --mode=compile gcc -DHAVE_CONFIG_H -I. -I../..  -I../../src -I../../src/fvec   -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC  -fopenmp  -c -o output_json.lo output_json.c
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I../.. -I../../src -I../../src/fvec -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC -fopenmp -c output_json.c  -fPIC -DPIC -o .libs/output_json.o
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I../.. -I../../src -I../../src/fvec -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC -fopenmp -c output_json.c -o output_json.o >/dev/null 2>&1
In file included from /usr/include/sys/time.h:21,
                 from ../../src/common.h:23,
                 from output_json.c:21:
/usr/include/features.h:187:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp]
  187 | # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE"
      |   ^~~~~~~
make[3]: Leaving directory '/builddir/build/BUILD/harry-0.4.2/src/output'
make[3]: Entering directory '/builddir/build/BUILD/harry-0.4.2/src/output'
/bin/sh ../../libtool  --tag=CC   --mode=compile gcc -DHAVE_CONFIG_H -I. -I../..  -I../../src -I../../src/fvec   -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC  -fopenmp  -c -o output_raw.lo output_raw.c
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I../.. -I../../src -I../../src/fvec -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC -fopenmp -c output_raw.c  -fPIC -DPIC -o .libs/output_raw.o
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I../.. -I../../src -I../../src/fvec -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC -fopenmp -c output_raw.c -o output_raw.o >/dev/null 2>&1
In file included from /usr/include/sys/time.h:21,
                 from ../../src/common.h:23,
                 from output_raw.c:31:
/usr/include/features.h:187:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp]
  187 | # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE"
      |   ^~~~~~~
make[3]: Leaving directory '/builddir/build/BUILD/harry-0.4.2/src/output'
make[3]: Entering directory '/builddir/build/BUILD/harry-0.4.2/src/output'
/bin/sh ../../libtool  --tag=CC   --mode=compile gcc -DHAVE_CONFIG_H -I. -I../..  -I../../src -I../../src/fvec   -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC  -fopenmp  -c -o output_matlab.lo output_matlab.c
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I../.. -I../../src -I../../src/fvec -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC -fopenmp -c output_matlab.c  -fPIC -DPIC -o .libs/output_matlab.o
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I../.. -I../../src -I../../src/fvec -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC -fopenmp -c output_matlab.c -o output_matlab.o >/dev/null 2>&1
make[3]: Leaving directory '/builddir/build/BUILD/harry-0.4.2/src/output'
In file included from /usr/include/sys/time.h:21,
                 from ../../src/common.h:23,
                 from output_matlab.c:22:
/usr/include/features.h:187:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp]
  187 | # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE"
      |   ^~~~~~~
make[3]: Entering directory '/builddir/build/BUILD/harry-0.4.2/src/output'
/bin/sh ../../libtool  --tag=CC   --mode=link gcc  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC  -fopenmp   -Wl,-z,relro -Wl,--as-needed  -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld  -o liboutput.la  output.lo output_stdout.lo output_text.lo output_null.lo output_libsvm.lo output_json.lo output_matlab.lo output_raw.lo  -lpthread -larchive -lz  -lm -lconfig 
libtool: link: ar cru .libs/liboutput.a .libs/output.o .libs/output_stdout.o .libs/output_text.o .libs/output_null.o .libs/output_libsvm.o .libs/output_json.o .libs/output_matlab.o .libs/output_raw.o 
libtool: link: ranlib .libs/liboutput.a
libtool: link: ( cd ".libs" && rm -f "liboutput.la" && ln -s "../liboutput.la" "liboutput.la" )
make[3]: Leaving directory '/builddir/build/BUILD/harry-0.4.2/src/output'
make[3]: Entering directory '/builddir/build/BUILD/harry-0.4.2/src'
/usr/bin/python3 gen_options.py options.txt harry.c
make[3]: Leaving directory '/builddir/build/BUILD/harry-0.4.2/src'
make[3]: Entering directory '/builddir/build/BUILD/harry-0.4.2/src'
/bin/sh ../libtool  --tag=CC   --mode=compile gcc -DHAVE_CONFIG_H -I. -I..  -I./measures -I./input -I./output   -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC  -fopenmp  -c -o hconfig.lo hconfig.c
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I.. -I./measures -I./input -I./output -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC -fopenmp -c hconfig.c  -fPIC -DPIC -o .libs/hconfig.o
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I.. -I./measures -I./input -I./output -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC -fopenmp -c hconfig.c -o hconfig.o >/dev/null 2>&1
In file included from /usr/include/sys/time.h:21,
                 from common.h:23,
                 from hconfig.c:21:
/usr/include/features.h:187:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp]
  187 | # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE"
      |   ^~~~~~~
make[3]: Leaving directory '/builddir/build/BUILD/harry-0.4.2/src'
make[3]: Entering directory '/builddir/build/BUILD/harry-0.4.2/src'
/bin/sh ../libtool  --tag=CC   --mode=compile gcc -DHAVE_CONFIG_H -I. -I..  -I./measures -I./input -I./output   -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC  -fopenmp  -c -o util.lo util.c
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I.. -I./measures -I./input -I./output -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC -fopenmp -c util.c  -fPIC -DPIC -o .libs/util.o
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I.. -I./measures -I./input -I./output -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC -fopenmp -c util.c -o util.o >/dev/null 2>&1
In file included from /usr/include/sys/time.h:21,
                 from common.h:23,
                 from util.c:20:
/usr/include/features.h:187:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp]
  187 | # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE"
      |   ^~~~~~~
make[3]: Leaving directory '/builddir/build/BUILD/harry-0.4.2/src'
make[3]: Entering directory '/builddir/build/BUILD/harry-0.4.2/src'
/bin/sh ../libtool  --tag=CC   --mode=compile gcc -DHAVE_CONFIG_H -I. -I..  -I./measures -I./input -I./output   -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC  -fopenmp  -c -o murmur.lo murmur.c
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I.. -I./measures -I./input -I./output -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC -fopenmp -c murmur.c  -fPIC -DPIC -o .libs/murmur.o
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I.. -I./measures -I./input -I./output -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC -fopenmp -c murmur.c -o murmur.o >/dev/null 2>&1
In file included from /usr/include/sys/time.h:21,
                 from common.h:23,
                 from murmur.c:9:
/usr/include/features.h:187:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp]
  187 | # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE"
      |   ^~~~~~~
make[3]: Leaving directory '/builddir/build/BUILD/harry-0.4.2/src'
make[3]: Entering directory '/builddir/build/BUILD/harry-0.4.2/src'
/bin/sh ../libtool  --tag=CC   --mode=compile gcc -DHAVE_CONFIG_H -I. -I..  -I./measures -I./input -I./output   -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC  -fopenmp  -c -o md5.lo md5.c
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I.. -I./measures -I./input -I./output -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC -fopenmp -c md5.c  -fPIC -DPIC -o .libs/md5.o
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I.. -I./measures -I./input -I./output -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC -fopenmp -c md5.c -o md5.o >/dev/null 2>&1
make[3]: Leaving directory '/builddir/build/BUILD/harry-0.4.2/src'
In file included from /usr/include/sys/time.h:21,
                 from common.h:23,
                 from md5.c:19:
/usr/include/features.h:187:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp]
  187 | # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE"
      |   ^~~~~~~
make[3]: Entering directory '/builddir/build/BUILD/harry-0.4.2/src'
/bin/sh ../libtool  --tag=CC   --mode=compile gcc -DHAVE_CONFIG_H -I. -I..  -I./measures -I./input -I./output   -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC  -fopenmp  -c -o vcache.lo vcache.c
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I.. -I./measures -I./input -I./output -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC -fopenmp -c vcache.c  -fPIC -DPIC -o .libs/vcache.o
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I.. -I./measures -I./input -I./output -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC -fopenmp -c vcache.c -o vcache.o >/dev/null 2>&1
In file included from /usr/include/sys/time.h:21,
                 from common.h:23,
                 from vcache.c:13:
/usr/include/features.h:187:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp]
  187 | # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE"
      |   ^~~~~~~
make[3]: Leaving directory '/builddir/build/BUILD/harry-0.4.2/src'
make[3]: Entering directory '/builddir/build/BUILD/harry-0.4.2/src'
/bin/sh ../libtool  --tag=CC   --mode=compile gcc -DHAVE_CONFIG_H -I. -I..  -I./measures -I./input -I./output   -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC  -fopenmp  -c -o rwlock.lo rwlock.c
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I.. -I./measures -I./input -I./output -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC -fopenmp -c rwlock.c  -fPIC -DPIC -o .libs/rwlock.o
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I.. -I./measures -I./input -I./output -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC -fopenmp -c rwlock.c -o rwlock.o >/dev/null 2>&1
make[3]: Leaving directory '/builddir/build/BUILD/harry-0.4.2/src'
In file included from /usr/include/sys/time.h:21,
                 from common.h:23,
                 from rwlock.c:13:
/usr/include/features.h:187:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp]
  187 | # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE"
      |   ^~~~~~~
make[3]: Entering directory '/builddir/build/BUILD/harry-0.4.2/src'
/bin/sh ../libtool  --tag=CC   --mode=compile gcc -DHAVE_CONFIG_H -I. -I..  -I./measures -I./input -I./output   -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC  -fopenmp  -c -o hstring.lo hstring.c
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I.. -I./measures -I./input -I./output -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC -fopenmp -c hstring.c  -fPIC -DPIC -o .libs/hstring.o
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I.. -I./measures -I./input -I./output -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC -fopenmp -c hstring.c -o hstring.o >/dev/null 2>&1
make[3]: Leaving directory '/builddir/build/BUILD/harry-0.4.2/src'
In file included from /usr/include/sys/time.h:21,
                 from common.h:23,
                 from hstring.c:20:
/usr/include/features.h:187:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp]
  187 | # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE"
      |   ^~~~~~~
make[3]: Entering directory '/builddir/build/BUILD/harry-0.4.2/src'
gcc -DHAVE_CONFIG_H -I. -I..  -I./measures -I./input -I./output   -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC  -fopenmp  -c -o harry.o harry.c
make[3]: Leaving directory '/builddir/build/BUILD/harry-0.4.2/src'
In file included from /usr/include/sys/time.h:21,
                 from common.h:23,
                 from harry.c:13:
/usr/include/features.h:187:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp]
  187 | # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE"
      |   ^~~~~~~
make[3]: Entering directory '/builddir/build/BUILD/harry-0.4.2/src'
/bin/sh ../libtool  --tag=CC   --mode=compile gcc -DHAVE_CONFIG_H -I. -I..  -I./measures -I./input -I./output   -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC  -fopenmp  -c -o hmatrix.lo hmatrix.c
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I.. -I./measures -I./input -I./output -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC -fopenmp -c hmatrix.c  -fPIC -DPIC -o .libs/hmatrix.o
libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I.. -I./measures -I./input -I./output -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC -fopenmp -c hmatrix.c -o hmatrix.o >/dev/null 2>&1
make[3]: Leaving directory '/builddir/build/BUILD/harry-0.4.2/src'
In file included from /usr/include/sys/time.h:21,
                 from common.h:23,
                 from hmatrix.c:20:
/usr/include/features.h:187:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp]
  187 | # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE"
      |   ^~~~~~~
make[3]: Entering directory '/builddir/build/BUILD/harry-0.4.2/src'
/bin/sh ../libtool  --tag=CC   --mode=link gcc  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC  -fopenmp   -Wl,-z,relro -Wl,--as-needed  -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld  -o libharry.la  util.lo hconfig.lo md5.lo murmur.lo hstring.lo vcache.lo rwlock.lo hmatrix.lo input/libinput.la measures/libmeasures.la output/liboutput.la -lpthread -larchive -lz  -lm -lconfig 
libtool: link: (cd .libs/libharry.lax/libinput.a && ar x "/builddir/build/BUILD/harry-0.4.2/src/input/.libs/libinput.a")
libtool: link: (cd .libs/libharry.lax/libmeasures.a && ar x "/builddir/build/BUILD/harry-0.4.2/src/measures/.libs/libmeasures.a")
libtool: link: (cd .libs/libharry.lax/liboutput.a && ar x "/builddir/build/BUILD/harry-0.4.2/src/output/.libs/liboutput.a")
libtool: link: ar cru .libs/libharry.a .libs/util.o .libs/hconfig.o .libs/md5.o .libs/murmur.o .libs/hstring.o .libs/vcache.o .libs/rwlock.o .libs/hmatrix.o   .libs/libharry.lax/libinput.a/input.o .libs/libharry.lax/libinput.a/input_arc.o .libs/libharry.lax/libinput.a/input_dir.o .libs/libharry.lax/libinput.a/input_fasta.o .libs/libharry.lax/libinput.a/input_lines.o .libs/libharry.lax/libinput.a/input_raw.o .libs/libharry.lax/libinput.a/input_stdin.o  .libs/libharry.lax/libmeasures.a/dist_bag.o .libs/libharry.lax/libmeasures.a/dist_compression.o .libs/libharry.lax/libmeasures.a/dist_damerau.o .libs/libharry.lax/libmeasures.a/dist_hamming.o .libs/libharry.lax/libmeasures.a/dist_jarowinkler.o .libs/libharry.lax/libmeasures.a/dist_kernel.o .libs/libharry.lax/libmeasures.a/dist_lee.o .libs/libharry.lax/libmeasures.a/dist_levenshtein.o .libs/libharry.lax/libmeasures.a/dist_osa.o .libs/libharry.lax/libmeasures.a/kern_distance.o .libs/libharry.lax/libmeasures.a/kern_spectrum.o .libs/libharry.lax/libmeasures.a/kern_subsequence.o .libs/libharry.lax/libmeasures.a/kern_wdegree.o .libs/libharry.lax/libmeasures.a/measures.o .libs/libharry.lax/libmeasures.a/norm.o .libs/libharry.lax/libmeasures.a/sim_coefficient.o  .libs/libharry.lax/liboutput.a/output.o .libs/libharry.lax/liboutput.a/output_json.o .libs/libharry.lax/liboutput.a/output_libsvm.o .libs/libharry.lax/liboutput.a/output_matlab.o .libs/libharry.lax/liboutput.a/output_null.o .libs/libharry.lax/liboutput.a/output_raw.o .libs/libharry.lax/liboutput.a/output_stdout.o .libs/libharry.lax/liboutput.a/output_text.o 
libtool: link: ranlib .libs/libharry.a
libtool: link: rm -fr .libs/libharry.lax
libtool: link: ( cd ".libs" && rm -f "libharry.la" && ln -s "../libharry.la" "libharry.la" )
make[3]: Leaving directory '/builddir/build/BUILD/harry-0.4.2/src'
make[3]: Entering directory '/builddir/build/BUILD/harry-0.4.2/src'
/bin/sh ../libtool  --tag=CC   --mode=link gcc  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC  -fopenmp   -Wl,-z,relro -Wl,--as-needed  -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld  -o harry harry.o libharry.la -lpthread -larchive -lz  -lm -lconfig 
libtool: link: gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC -fopenmp -Wl,-z -Wl,relro -Wl,--as-needed -Wl,-z -Wl,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -o harry harry.o  ./.libs/libharry.a -lpthread -larchive -lz -lm -lconfig -fopenmp
make[3]: Leaving directory '/builddir/build/BUILD/harry-0.4.2/src'
In function 'strncat',
    inlined from 'input_fasta_read' at input/input_fasta.c:165:9:
/usr/include/bits/string_fortified.h:129:10: warning: '__builtin_strncat' specified bound depends on the length of the source argument [-Wstringop-overflow=]
  129 |   return __builtin___strncat_chk (__dest, __src, __len, __bos (__dest));
      |          ^
input/input_fasta.c: In function 'input_fasta_read':
input/input_fasta.c:165:9: note: length computed here
  165 |         strncat(seq, line, strlen(line));
      |         ^
Making all in doc
make[2]: Entering directory '/builddir/build/BUILD/harry-0.4.2/doc'
pod2man -c "User Manual" -s 1 -r "Harry 0.4.2" harry.pod > harry.man
make[2]: Leaving directory '/builddir/build/BUILD/harry-0.4.2/doc'
Making all in examples
Making all in alexa
make[3]: Nothing to be done for 'all'.
Making all in reuters
make[3]: Nothing to be done for 'all'.
Making all in .
make[3]: Nothing to be done for 'all-am'.
Making all in python
make[2]: Entering directory '/builddir/build/BUILD/harry-0.4.2/python'
/usr/bin/python3 ./gen_options.py ../src/options.txt \
            /usr/bin ./harry.py.in ./harry.py
make[2]: Leaving directory '/builddir/build/BUILD/harry-0.4.2/python'
Making all in .
Making all in tests
make[2]: Entering directory '/builddir/build/BUILD/harry-0.4.2/tests'
gcc -DHAVE_CONFIG_H -I. -I..  -I../src -I../src/measures   -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC  -fopenmp  -c -o dist_levenshtein.o dist_levenshtein.c
In file included from /usr/include/sys/time.h:21,
                 from ../src/common.h:23,
                 from dist_levenshtein.c:13:
/usr/include/features.h:187:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp]
  187 | # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE"
      |   ^~~~~~~
make[2]: Leaving directory '/builddir/build/BUILD/harry-0.4.2/tests'
make[2]: Entering directory '/builddir/build/BUILD/harry-0.4.2/tests'
gcc -DHAVE_CONFIG_H -I. -I..  -I../src -I../src/measures   -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC  -fopenmp  -c -o vcache.o vcache.c
In file included from /usr/include/sys/time.h:21,
                 from ../src/common.h:23,
                 from vcache.c:13:
/usr/include/features.h:187:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp]
  187 | # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE"
      |   ^~~~~~~
make[2]: Leaving directory '/builddir/build/BUILD/harry-0.4.2/tests'
make[2]: Entering directory '/builddir/build/BUILD/harry-0.4.2/tests'
gcc -DHAVE_CONFIG_H -I. -I..  -I../src -I../src/measures   -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC  -fopenmp  -c -o dist_jarowinkler.o dist_jarowinkler.c
In file included from /usr/include/sys/time.h:21,
                 from ../src/common.h:23,
                 from dist_jarowinkler.c:13:
/usr/include/features.h:187:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp]
  187 | # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE"
      |   ^~~~~~~
make[2]: Leaving directory '/builddir/build/BUILD/harry-0.4.2/tests'
make[2]: Entering directory '/builddir/build/BUILD/harry-0.4.2/tests'
gcc -DHAVE_CONFIG_H -I. -I..  -I../src -I../src/measures   -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC  -fopenmp  -c -o dist_hamming.o dist_hamming.c
In file included from /usr/include/sys/time.h:21,
                 from ../src/common.h:23,
                 from dist_hamming.c:13:
/usr/include/features.h:187:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp]
  187 | # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE"
      |   ^~~~~~~
make[2]: Leaving directory '/builddir/build/BUILD/harry-0.4.2/tests'
make[2]: Entering directory '/builddir/build/BUILD/harry-0.4.2/tests'
gcc -DHAVE_CONFIG_H -I. -I..  -I../src -I../src/measures   -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC  -fopenmp  -c -o dist_lee.o dist_lee.c
In file included from /usr/include/sys/time.h:21,
                 from ../src/common.h:23,
                 from dist_lee.c:13:
/usr/include/features.h:187:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp]
  187 | # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE"
      |   ^~~~~~~
make[2]: Leaving directory '/builddir/build/BUILD/harry-0.4.2/tests'
make[2]: Entering directory '/builddir/build/BUILD/harry-0.4.2/tests'
gcc -DHAVE_CONFIG_H -I. -I..  -I../src -I../src/measures   -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC  -fopenmp  -c -o dist_damerau.o dist_damerau.c
In file included from /usr/include/sys/time.h:21,
                 from ../src/common.h:23,
                 from dist_damerau.c:13:
/usr/include/features.h:187:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp]
  187 | # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE"
      |   ^~~~~~~
make[2]: Leaving directory '/builddir/build/BUILD/harry-0.4.2/tests'
make[2]: Entering directory '/builddir/build/BUILD/harry-0.4.2/tests'
gcc -DHAVE_CONFIG_H -I. -I..  -I../src -I../src/measures   -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC  -fopenmp  -c -o dist_compression.o dist_compression.c
In file included from /usr/include/sys/time.h:21,
                 from ../src/common.h:23,
                 from dist_compression.c:13:
/usr/include/features.h:187:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp]
  187 | # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE"
      |   ^~~~~~~
make[2]: Leaving directory '/builddir/build/BUILD/harry-0.4.2/tests'
make[2]: Entering directory '/builddir/build/BUILD/harry-0.4.2/tests'
gcc -DHAVE_CONFIG_H -I. -I..  -I../src -I../src/measures   -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC  -fopenmp  -c -o kern_wdegree.o kern_wdegree.c
In file included from /usr/include/sys/time.h:21,
                 from ../src/common.h:23,
                 from kern_wdegree.c:13:
/usr/include/features.h:187:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp]
  187 | # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE"
      |   ^~~~~~~
make[2]: Leaving directory '/builddir/build/BUILD/harry-0.4.2/tests'
make[2]: Entering directory '/builddir/build/BUILD/harry-0.4.2/tests'
gcc -DHAVE_CONFIG_H -I. -I..  -I../src -I../src/measures   -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC  -fopenmp  -c -o kern_subsequence.o kern_subsequence.c
make[2]: Leaving directory '/builddir/build/BUILD/harry-0.4.2/tests'
make[2]: Entering directory '/builddir/build/BUILD/harry-0.4.2/tests'
gcc -DHAVE_CONFIG_H -I. -I..  -I../src -I../src/measures   -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC  -fopenmp  -c -o dist_bag.o dist_bag.c
make[2]: Leaving directory '/builddir/build/BUILD/harry-0.4.2/tests'
In file included from /usr/include/sys/time.h:21,
                 from ../src/common.h:23,
                 from kern_subsequence.c:13:
/usr/include/features.h:187:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp]
  187 | # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE"
      |   ^~~~~~~
In file included from /usr/include/sys/time.h:21,
                 from ../src/common.h:23,
                 from dist_bag.c:13:
/usr/include/features.h:187:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp]
  187 | # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE"
      |   ^~~~~~~
make[2]: Entering directory '/builddir/build/BUILD/harry-0.4.2/tests'
gcc -DHAVE_CONFIG_H -I. -I..  -I../src -I../src/measures   -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC  -fopenmp  -c -o sim_coefficient.o sim_coefficient.c
In file included from /usr/include/sys/time.h:21,
                 from ../src/common.h:23,
                 from sim_coefficient.c:13:
/usr/include/features.h:187:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp]
  187 | # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE"
      |   ^~~~~~~
make[2]: Leaving directory '/builddir/build/BUILD/harry-0.4.2/tests'
make[2]: Entering directory '/builddir/build/BUILD/harry-0.4.2/tests'
gcc -DHAVE_CONFIG_H -I. -I..  -I../src -I../src/measures   -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC  -fopenmp  -c -o kern_distance.o kern_distance.c
In file included from /usr/include/sys/time.h:21,
                 from ../src/common.h:23,
                 from kern_distance.c:13:
/usr/include/features.h:187:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp]
  187 | # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE"
      |   ^~~~~~~
make[2]: Leaving directory '/builddir/build/BUILD/harry-0.4.2/tests'
make[2]: Entering directory '/builddir/build/BUILD/harry-0.4.2/tests'
gcc -DHAVE_CONFIG_H -I. -I..  -I../src -I../src/measures   -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC  -fopenmp  -c -o dist_kernel.o dist_kernel.c
In file included from /usr/include/sys/time.h:21,
                 from ../src/common.h:23,
                 from dist_kernel.c:13:
/usr/include/features.h:187:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp]
  187 | # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE"
      |   ^~~~~~~
make[2]: Leaving directory '/builddir/build/BUILD/harry-0.4.2/tests'
make[2]: Entering directory '/builddir/build/BUILD/harry-0.4.2/tests'
gcc -DHAVE_CONFIG_H -I. -I..  -I../src -I../src/measures   -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC  -fopenmp  -c -o kern_spectrum.o kern_spectrum.c
In file included from /usr/include/sys/time.h:21,
                 from ../src/common.h:23,
                 from kern_spectrum.c:13:
/usr/include/features.h:187:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp]
  187 | # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE"
      |   ^~~~~~~
make[2]: Leaving directory '/builddir/build/BUILD/harry-0.4.2/tests'
make[2]: Entering directory '/builddir/build/BUILD/harry-0.4.2/tests'
gcc -DHAVE_CONFIG_H -I. -I..  -I../src -I../src/measures   -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC  -fopenmp  -c -o dist_osa.o dist_osa.c
In file included from /usr/include/sys/time.h:21,
                 from ../src/common.h:23,
                 from dist_osa.c:13:
/usr/include/features.h:187:3: warning: #warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE" [-Wcpp]
  187 | # warning "_BSD_SOURCE and _SVID_SOURCE are deprecated, use _DEFAULT_SOURCE"
      |   ^~~~~~~
make[2]: Leaving directory '/builddir/build/BUILD/harry-0.4.2/tests'
make[2]: Entering directory '/builddir/build/BUILD/harry-0.4.2/tests'
/bin/sh ../libtool  --tag=CC   --mode=link gcc  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC  -fopenmp   -Wl,-z,relro -Wl,--as-needed  -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld  -o check_vcache vcache.o ../src/libharry.la -lpthread -larchive -lz  -lm -lconfig 
libtool: link: gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC -fopenmp -Wl,-z -Wl,relro -Wl,--as-needed -Wl,-z -Wl,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -o check_vcache vcache.o  ../src/.libs/libharry.a -lpthread -larchive -lz -lm -lconfig -fopenmp
make[2]: Leaving directory '/builddir/build/BUILD/harry-0.4.2/tests'
make[2]: Entering directory '/builddir/build/BUILD/harry-0.4.2/tests'
/bin/sh ../libtool  --tag=CC   --mode=link gcc  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC  -fopenmp   -Wl,-z,relro -Wl,--as-needed  -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld  -o check_levenshtein dist_levenshtein.o ../src/libharry.la -lpthread -larchive -lz  -lm -lconfig 
libtool: link: gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC -fopenmp -Wl,-z -Wl,relro -Wl,--as-needed -Wl,-z -Wl,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -o check_levenshtein dist_levenshtein.o  ../src/.libs/libharry.a -lpthread -larchive -lz -lm -lconfig -fopenmp
make[2]: Leaving directory '/builddir/build/BUILD/harry-0.4.2/tests'
make[2]: Entering directory '/builddir/build/BUILD/harry-0.4.2/tests'
/bin/sh ../libtool  --tag=CC   --mode=link gcc  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC  -fopenmp   -Wl,-z,relro -Wl,--as-needed  -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld  -o check_hamming dist_hamming.o ../src/libharry.la -lpthread -larchive -lz  -lm -lconfig 
libtool: link: gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC -fopenmp -Wl,-z -Wl,relro -Wl,--as-needed -Wl,-z -Wl,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -o check_hamming dist_hamming.o  ../src/.libs/libharry.a -lpthread -larchive -lz -lm -lconfig -fopenmp
make[2]: Leaving directory '/builddir/build/BUILD/harry-0.4.2/tests'
make[2]: Entering directory '/builddir/build/BUILD/harry-0.4.2/tests'
/bin/sh ../libtool  --tag=CC   --mode=link gcc  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC  -fopenmp   -Wl,-z,relro -Wl,--as-needed  -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld  -o check_jarowinkler dist_jarowinkler.o ../src/libharry.la -lpthread -larchive -lz  -lm -lconfig 
libtool: link: gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC -fopenmp -Wl,-z -Wl,relro -Wl,--as-needed -Wl,-z -Wl,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -o check_jarowinkler dist_jarowinkler.o  ../src/.libs/libharry.a -lpthread -larchive -lz -lm -lconfig -fopenmp
make[2]: Leaving directory '/builddir/build/BUILD/harry-0.4.2/tests'
make[2]: Entering directory '/builddir/build/BUILD/harry-0.4.2/tests'
/bin/sh ../libtool  --tag=CC   --mode=link gcc  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC  -fopenmp   -Wl,-z,relro -Wl,--as-needed  -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld  -o check_lee dist_lee.o ../src/libharry.la -lpthread -larchive -lz  -lm -lconfig 
libtool: link: gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC -fopenmp -Wl,-z -Wl,relro -Wl,--as-needed -Wl,-z -Wl,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -o check_lee dist_lee.o  ../src/.libs/libharry.a -lpthread -larchive -lz -lm -lconfig -fopenmp
make[2]: Leaving directory '/builddir/build/BUILD/harry-0.4.2/tests'
make[2]: Entering directory '/builddir/build/BUILD/harry-0.4.2/tests'
/bin/sh ../libtool  --tag=CC   --mode=link gcc  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC  -fopenmp   -Wl,-z,relro -Wl,--as-needed  -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld  -o check_damerau dist_damerau.o ../src/libharry.la -lpthread -larchive -lz  -lm -lconfig 
libtool: link: gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC -fopenmp -Wl,-z -Wl,relro -Wl,--as-needed -Wl,-z -Wl,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -o check_damerau dist_damerau.o  ../src/.libs/libharry.a -lpthread -larchive -lz -lm -lconfig -fopenmp
make[2]: Leaving directory '/builddir/build/BUILD/harry-0.4.2/tests'
make[2]: Entering directory '/builddir/build/BUILD/harry-0.4.2/tests'
/bin/sh ../libtool  --tag=CC   --mode=link gcc  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC  -fopenmp   -Wl,-z,relro -Wl,--as-needed  -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld  -o check_compression dist_compression.o ../src/libharry.la -lpthread -larchive -lz  -lm -lconfig 
libtool: link: gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC -fopenmp -Wl,-z -Wl,relro -Wl,--as-needed -Wl,-z -Wl,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -o check_compression dist_compression.o  ../src/.libs/libharry.a -lpthread -larchive -lz -lm -lconfig -fopenmp
make[2]: Leaving directory '/builddir/build/BUILD/harry-0.4.2/tests'
make[2]: Entering directory '/builddir/build/BUILD/harry-0.4.2/tests'
/bin/sh ../libtool  --tag=CC   --mode=link gcc  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC  -fopenmp   -Wl,-z,relro -Wl,--as-needed  -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld  -o check_wdegree kern_wdegree.o ../src/libharry.la -lpthread -larchive -lz  -lm -lconfig 
libtool: link: gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC -fopenmp -Wl,-z -Wl,relro -Wl,--as-needed -Wl,-z -Wl,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -o check_wdegree kern_wdegree.o  ../src/.libs/libharry.a -lpthread -larchive -lz -lm -lconfig -fopenmp
make[2]: Leaving directory '/builddir/build/BUILD/harry-0.4.2/tests'
make[2]: Entering directory '/builddir/build/BUILD/harry-0.4.2/tests'
/bin/sh ../libtool  --tag=CC   --mode=link gcc  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC  -fopenmp   -Wl,-z,relro -Wl,--as-needed  -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld  -o check_subsequence kern_subsequence.o ../src/libharry.la -lpthread -larchive -lz  -lm -lconfig 
libtool: link: gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC -fopenmp -Wl,-z -Wl,relro -Wl,--as-needed -Wl,-z -Wl,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -o check_subsequence kern_subsequence.o  ../src/.libs/libharry.a -lpthread -larchive -lz -lm -lconfig -fopenmp
make[2]: Leaving directory '/builddir/build/BUILD/harry-0.4.2/tests'
make[2]: Entering directory '/builddir/build/BUILD/harry-0.4.2/tests'
/bin/sh ../libtool  --tag=CC   --mode=link gcc  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC  -fopenmp   -Wl,-z,relro -Wl,--as-needed  -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld  -o check_bag dist_bag.o ../src/libharry.la -lpthread -larchive -lz  -lm -lconfig 
libtool: link: gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC -fopenmp -Wl,-z -Wl,relro -Wl,--as-needed -Wl,-z -Wl,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -o check_bag dist_bag.o  ../src/.libs/libharry.a -lpthread -larchive -lz -lm -lconfig -fopenmp
make[2]: Leaving directory '/builddir/build/BUILD/harry-0.4.2/tests'
make[2]: Entering directory '/builddir/build/BUILD/harry-0.4.2/tests'
/bin/sh ../libtool  --tag=CC   --mode=link gcc  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC  -fopenmp   -Wl,-z,relro -Wl,--as-needed  -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld  -o check_coefficient sim_coefficient.o ../src/libharry.la -lpthread -larchive -lz  -lm -lconfig 
libtool: link: gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC -fopenmp -Wl,-z -Wl,relro -Wl,--as-needed -Wl,-z -Wl,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -o check_coefficient sim_coefficient.o  ../src/.libs/libharry.a -lpthread -larchive -lz -lm -lconfig -fopenmp
make[2]: Leaving directory '/builddir/build/BUILD/harry-0.4.2/tests'
make[2]: Entering directory '/builddir/build/BUILD/harry-0.4.2/tests'
/bin/sh ../libtool  --tag=CC   --mode=link gcc  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC  -fopenmp   -Wl,-z,relro -Wl,--as-needed  -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld  -o check_distance kern_distance.o ../src/libharry.la -lpthread -larchive -lz  -lm -lconfig 
libtool: link: gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC -fopenmp -Wl,-z -Wl,relro -Wl,--as-needed -Wl,-z -Wl,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -o check_distance kern_distance.o  ../src/.libs/libharry.a -lpthread -larchive -lz -lm -lconfig -fopenmp
make[2]: Leaving directory '/builddir/build/BUILD/harry-0.4.2/tests'
make[2]: Entering directory '/builddir/build/BUILD/harry-0.4.2/tests'
/bin/sh ../libtool  --tag=CC   --mode=link gcc  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC  -fopenmp   -Wl,-z,relro -Wl,--as-needed  -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld  -o check_kernel dist_kernel.o ../src/libharry.la -lpthread -larchive -lz  -lm -lconfig 
libtool: link: gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC -fopenmp -Wl,-z -Wl,relro -Wl,--as-needed -Wl,-z -Wl,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -o check_kernel dist_kernel.o  ../src/.libs/libharry.a -lpthread -larchive -lz -lm -lconfig -fopenmp
make[2]: Leaving directory '/builddir/build/BUILD/harry-0.4.2/tests'
make[2]: Entering directory '/builddir/build/BUILD/harry-0.4.2/tests'
/bin/sh ../libtool  --tag=CC   --mode=link gcc  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC  -fopenmp   -Wl,-z,relro -Wl,--as-needed  -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld  -o check_spectrum kern_spectrum.o ../src/libharry.la -lpthread -larchive -lz  -lm -lconfig 
libtool: link: gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC -fopenmp -Wl,-z -Wl,relro -Wl,--as-needed -Wl,-z -Wl,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -o check_spectrum kern_spectrum.o  ../src/.libs/libharry.a -lpthread -larchive -lz -lm -lconfig -fopenmp
make[2]: Leaving directory '/builddir/build/BUILD/harry-0.4.2/tests'
make[2]: Entering directory '/builddir/build/BUILD/harry-0.4.2/tests'
/bin/sh ../libtool  --tag=CC   --mode=link gcc  -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1  -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC  -fopenmp   -Wl,-z,relro -Wl,--as-needed  -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld  -o check_osa dist_osa.o ../src/libharry.la -lpthread -larchive -lz  -lm -lconfig 
libtool: link: gcc -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -DNDEBUG -std=c99 -fgnu89-inline -Wall -fPIC -fopenmp -Wl,-z -Wl,relro -Wl,--as-needed -Wl,-z -Wl,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -o check_osa dist_osa.o  ../src/.libs/libharry.a -lpthread -larchive -lz -lm -lconfig -fopenmp
make[2]: Leaving directory '/builddir/build/BUILD/harry-0.4.2/tests'
+ mv python/gen_options.py python/gen_options.bak
+ 2to3 --write --nobackups python/benchmark.py python/harry.py src/gen_options.py tests/check_pylev.py tests/check_python.py tests/dist_compression.py
RefactoringTool: Skipping optional fixer: buffer
RefactoringTool: Skipping optional fixer: idioms
RefactoringTool: Skipping optional fixer: set_literal
RefactoringTool: Skipping optional fixer: ws_comma
RefactoringTool: No changes to python/benchmark.py
RefactoringTool: Refactored python/harry.py
RefactoringTool: No changes to src/gen_options.py
RefactoringTool: Refactored tests/check_pylev.py
RefactoringTool: Refactored tests/check_python.py
RefactoringTool: Refactored tests/dist_compression.py
RefactoringTool: Files that were modified:
RefactoringTool: python/benchmark.py
RefactoringTool: python/harry.py
RefactoringTool: src/gen_options.py
RefactoringTool: tests/check_pylev.py
RefactoringTool: tests/check_python.py
RefactoringTool: tests/dist_compression.py
--- python/harry.py	(original)
+++ python/harry.py	(refactored)
@@ -11,7 +11,7 @@
 import os
 import subprocess as sp
 import shlex
-import urllib
+import urllib.request, urllib.parse, urllib.error
 import struct
 import warnings
 
@@ -38,7 +38,7 @@
         raise Exception("Could not find tool at %s" % __tool)
 
     # Decode special characters and prepare input
-    strs = map(urllib.quote, strs)
+    strs = list(map(urllib.parse.quote, strs))
     stdin = '\n'.join(strs)
 
     # Input: "-"  Read strings from standard input
@@ -142,7 +142,7 @@
 
     # Process options
     opts = "--decode_str"
-    for (k, v) in kwargs.items():
+    for (k, v) in list(kwargs.items()):
         if k not in keyargs:
             raise Exception("Unknown argument '%s'" % k)
         if type(v) is bool:
--- tests/check_pylev.py	(original)
+++ tests/check_pylev.py	(refactored)
@@ -12,7 +12,7 @@
     import Levenshtein as ls
     import numpy as np
 except:
-    print "Something is wrong. Skipping test"
+    print("Something is wrong. Skipping test")
     sys.exit(77)
 
 
@@ -37,16 +37,16 @@
 x1 = ['this', 'is', 'a', 'test']
 x2 = ['guess', 'what', 'this', 'is', 'not', 'a', 'test']
 
-print "Testing Levenshtein implementation:",
+print("Testing Levenshtein implementation:", end=' ')
 m1 = harry.compare(x1, x2)
 m2 = pylev_compare(x1, x2)
 
-print
-print m1
-print m2
+print()
+print(m1)
+print(m2)
 
 if np.linalg.norm(m1 - m2) < 1e-9:
-    print "Ok"
+    print("Ok")
 else:
-    print "Failed"
+    print("Failed")
     sys.exit(1)
--- tests/check_python.py	(original)
+++ tests/check_python.py	(refactored)
@@ -12,7 +12,7 @@
     import random
     import numpy as np
 except:
-    print "Something is wrong. Skipping test"
+    print("Something is wrong. Skipping test")
     sys.exit(77)
 
 # Add path for Harry module
@@ -28,29 +28,29 @@
 a = " abcdefghijklmnopqrstuvwxyz.,"
 x = [''.join(random.choice(a) for _ in range(10)) for _ in range(50)]
 
-print "Testing options:",
+print("Testing options:", end=' ')
 m1 = harry.compare(x)
 m2 = harry.compare(x, x)
 if np.linalg.norm(m1 - m2) < 1e-9:
-    print "Ok"
+    print("Ok")
 else:
-    print "Failed"
+    print("Failed")
     sys.exit(1)
 
-print "Testing kernels:",
+print("Testing kernels:", end=' ')
 # Check kernel matrices for negative eigenvalues
 for name in ["wdegree", "subsequence", "spectrum"]:
     k = harry.compare(x, measure="kern_" + name)
     e = np.min(np.real(np.linalg.eig(k)[0]))
-    print ".",
+    print(".", end=' ')
 
     # Test fails if Eigenvalues are negative
     if e < -1e-6:
-        print "Failed"
+        print("Failed")
         sys.exit(1)
-print "Ok"
+print("Ok")
 
-print "Testing distances:",
+print("Testing distances:", end=' ')
 # Check distances matrices for metric property
 for name in ["hamming", "levenshtein", "bag", "lee"]:
     d = harry.compare(x, measure="dist_" + name)
@@ -61,7 +61,7 @@
             for k in range(len(x)):
                 m = d[i,j] + d[j,k] - d[i,k]
                 if m < 0:
-                    print "Failed"
+                    print("Failed")
                     sys.exit(1)
-    print ".",
-print "Ok"
+    print(".", end=' ')
+print("Ok")
--- tests/dist_compression.py	(original)
+++ tests/dist_compression.py	(refactored)
@@ -29,4 +29,4 @@
     xyl = float(len(zlib.compress(x + y, 9)))
 
     d = (xyl - min(xl, yl)) / max(xl, yl);
-    print '    {"%s", "%s", %f},' % (x,y,d)
+    print('    {"%s", "%s", %f},' % (x,y,d))
+ mv python/gen_options.bak python/gen_options.py
+ sed -i 's/input=stdin/input=stdin.encode()/' python/harry.py
+ sed -i 's/env python/env python3/' tests/check_pylev.py tests/check_python.py tests/dist_compression.py
+ RPM_EC=0
++ jobs -p
+ exit 0
Executing(%install): /bin/sh -e /var/tmp/rpm-tmp.M282Ot
+ umask 022
+ cd /builddir/build/BUILD
+ '[' /builddir/build/BUILDROOT/harry-0.4.2-2.fc34.x86_64 '!=' / ']'
+ rm -rf /builddir/build/BUILDROOT/harry-0.4.2-2.fc34.x86_64
++ dirname /builddir/build/BUILDROOT/harry-0.4.2-2.fc34.x86_64
+ mkdir -p /builddir/build/BUILDROOT
+ mkdir /builddir/build/BUILDROOT/harry-0.4.2-2.fc34.x86_64
+ cd harry-0.4.2
+ /usr/bin/make install DESTDIR=/builddir/build/BUILDROOT/harry-0.4.2-2.fc34.x86_64 'INSTALL=/usr/bin/install -p'
Making install in src
make[1]: Entering directory '/builddir/build/BUILD/harry-0.4.2/src'
Making install in measures
make[2]: Entering directory '/builddir/build/BUILD/harry-0.4.2/src/measures'
make[3]: Entering directory '/builddir/build/BUILD/harry-0.4.2/src/measures'
make[3]: Nothing to be done for 'install-exec-am'.
make[3]: Nothing to be done for 'install-data-am'.
make[3]: Leaving directory '/builddir/build/BUILD/harry-0.4.2/src/measures'
make[2]: Leaving directory '/builddir/build/BUILD/harry-0.4.2/src/measures'
Making install in input
make[2]: Entering directory '/builddir/build/BUILD/harry-0.4.2/src/input'
make[3]: Entering directory '/builddir/build/BUILD/harry-0.4.2/src/input'
make[3]: Nothing to be done for 'install-exec-am'.
make[3]: Nothing to be done for 'install-data-am'.
make[3]: Leaving directory '/builddir/build/BUILD/harry-0.4.2/src/input'
make[2]: Leaving directory '/builddir/build/BUILD/harry-0.4.2/src/input'
Making install in output
make[2]: Entering directory '/builddir/build/BUILD/harry-0.4.2/src/output'
make[3]: Entering directory '/builddir/build/BUILD/harry-0.4.2/src/output'
make[3]: Nothing to be done for 'install-exec-am'.
make[3]: Nothing to be done for 'install-data-am'.
make[3]: Leaving directory '/builddir/build/BUILD/harry-0.4.2/src/output'
make[2]: Leaving directory '/builddir/build/BUILD/harry-0.4.2/src/output'
make[2]: Entering directory '/builddir/build/BUILD/harry-0.4.2/src'
make[3]: Entering directory '/builddir/build/BUILD/harry-0.4.2/src'
 /usr/bin/mkdir -p '/builddir/build/BUILDROOT/harry-0.4.2-2.fc34.x86_64/usr/bin'
  /bin/sh ../libtool   --mode=install /usr/bin/install -p harry '/builddir/build/BUILDROOT/harry-0.4.2-2.fc34.x86_64/usr/bin'
libtool: install: /usr/bin/install -p harry /builddir/build/BUILDROOT/harry-0.4.2-2.fc34.x86_64/usr/bin/harry
make[3]: Nothing to be done for 'install-data-am'.
make[3]: Leaving directory '/builddir/build/BUILD/harry-0.4.2/src'
make[2]: Leaving directory '/builddir/build/BUILD/harry-0.4.2/src'
make[1]: Leaving directory '/builddir/build/BUILD/harry-0.4.2/src'
Making install in doc
make[1]: Entering directory '/builddir/build/BUILD/harry-0.4.2/doc'
make[2]: Entering directory '/builddir/build/BUILD/harry-0.4.2/doc'
make[2]: Nothing to be done for 'install-exec-am'.
 /usr/bin/mkdir -p '/builddir/build/BUILDROOT/harry-0.4.2-2.fc34.x86_64/usr/bin/share/doc/harry'
 /usr/bin/install -p -m 644 example.cfg '/builddir/build/BUILDROOT/harry-0.4.2-2.fc34.x86_64/usr/bin/share/doc/harry'
 /usr/bin/mkdir -p '/builddir/build/BUILDROOT/harry-0.4.2-2.fc34.x86_64/usr/share/man/man1'
 /usr/bin/install -p -m 644 'harry.man' '/builddir/build/BUILDROOT/harry-0.4.2-2.fc34.x86_64/usr/share/man/man1/harry.1'
make[2]: Leaving directory '/builddir/build/BUILD/harry-0.4.2/doc'
make[1]: Leaving directory '/builddir/build/BUILD/harry-0.4.2/doc'
Making install in examples
make[1]: Entering directory '/builddir/build/BUILD/harry-0.4.2/examples'
Making install in alexa
make[2]: Entering directory '/builddir/build/BUILD/harry-0.4.2/examples/alexa'
make[3]: Entering directory '/builddir/build/BUILD/harry-0.4.2/examples/alexa'
make[3]: Nothing to be done for 'install-exec-am'.
 /usr/bin/mkdir -p '/builddir/build/BUILDROOT/harry-0.4.2-2.fc34.x86_64/builddir/build/BUILDROOT/harry-0.4.2-2.fc34.x86_64/usr/bin/share/doc/harry/alexa'
 /usr/bin/install -p -m 644 alexa1000.txt figure_1.png figure_2.png run_example.sh README.md most_similar.py '/builddir/build/BUILDROOT/harry-0.4.2-2.fc34.x86_64/builddir/build/BUILDROOT/harry-0.4.2-2.fc34.x86_64/usr/bin/share/doc/harry/alexa'
make[3]: Leaving directory '/builddir/build/BUILD/harry-0.4.2/examples/alexa'
make[2]: Leaving directory '/builddir/build/BUILD/harry-0.4.2/examples/alexa'
Making install in reuters
make[2]: Entering directory '/builddir/build/BUILD/harry-0.4.2/examples/reuters'
make[3]: Entering directory '/builddir/build/BUILD/harry-0.4.2/examples/reuters'
make[3]: Nothing to be done for 'install-exec-am'.
 /usr/bin/mkdir -p '/builddir/build/BUILDROOT/harry-0.4.2-2.fc34.x86_64/builddir/build/BUILDROOT/harry-0.4.2-2.fc34.x86_64/usr/bin/share/doc/harry/reuters'
 /usr/bin/install -p -m 644 README.md harry.cfg reuters.zip run_example.sh '/builddir/build/BUILDROOT/harry-0.4.2-2.fc34.x86_64/builddir/build/BUILDROOT/harry-0.4.2-2.fc34.x86_64/usr/bin/share/doc/harry/reuters'
make[3]: Leaving directory '/builddir/build/BUILD/harry-0.4.2/examples/reuters'
make[2]: Leaving directory '/builddir/build/BUILD/harry-0.4.2/examples/reuters'
Making install in .
make[2]: Entering directory '/builddir/build/BUILD/harry-0.4.2/examples'
make[3]: Entering directory '/builddir/build/BUILD/harry-0.4.2/examples'
make[3]: Nothing to be done for 'install-exec-am'.
 /usr/bin/mkdir -p '/builddir/build/BUILDROOT/harry-0.4.2-2.fc34.x86_64/usr/bin/share/doc/harry'
 /usr/bin/install -p -m 644 README.md TUTORIAL.md data.txt '/builddir/build/BUILDROOT/harry-0.4.2-2.fc34.x86_64/usr/bin/share/doc/harry'
make[3]: Leaving directory '/builddir/build/BUILD/harry-0.4.2/examples'
make[2]: Leaving directory '/builddir/build/BUILD/harry-0.4.2/examples'
make[1]: Leaving directory '/builddir/build/BUILD/harry-0.4.2/examples'
Making install in python
make[1]: Entering directory '/builddir/build/BUILD/harry-0.4.2/python'
make[2]: Entering directory '/builddir/build/BUILD/harry-0.4.2/python'
make[2]: Nothing to be done for 'install-exec-am'.
 /usr/bin/mkdir -p '/builddir/build/BUILDROOT/harry-0.4.2-2.fc34.x86_64/usr/bin/lib/python3.9/site-packages'
 /usr/bin/install -p -m 644 harry.py '/builddir/build/BUILDROOT/harry-0.4.2-2.fc34.x86_64/usr/bin/lib/python3.9/site-packages'
Byte-compiling python modules...
harry.py
Byte-compiling python modules (optimized versions) ...
harry.py
make[2]: Leaving directory '/builddir/build/BUILD/harry-0.4.2/python'
make[1]: Leaving directory '/builddir/build/BUILD/harry-0.4.2/python'
Making install in .
make[1]: Entering directory '/builddir/build/BUILD/harry-0.4.2'
make[2]: Entering directory '/builddir/build/BUILD/harry-0.4.2'
make[2]: Nothing to be done for 'install-exec-am'.
make[2]: Nothing to be done for 'install-data-am'.
make[2]: Leaving directory '/builddir/build/BUILD/harry-0.4.2'
make[1]: Leaving directory '/builddir/build/BUILD/harry-0.4.2'
Making install in tests
make[1]: Entering directory '/builddir/build/BUILD/harry-0.4.2/tests'
make[2]: Entering directory '/builddir/build/BUILD/harry-0.4.2/tests'
make[2]: Nothing to be done for 'install-exec-am'.
make[2]: Nothing to be done for 'install-data-am'.
make[2]: Leaving directory '/builddir/build/BUILD/harry-0.4.2/tests'
make[1]: Leaving directory '/builddir/build/BUILD/harry-0.4.2/tests'
+ mkdir -p /builddir/build/BUILDROOT/harry-0.4.2-2.fc34.x86_64/usr/share/doc
+ mv /builddir/build/BUILDROOT/harry-0.4.2-2.fc34.x86_64/usr/bin/share/doc/harry /builddir/build/BUILDROOT/harry-0.4.2-2.fc34.x86_64/usr/share/doc/harry
+ mv /builddir/build/BUILDROOT/harry-0.4.2-2.fc34.x86_64/builddir/build/BUILDROOT/harry-0.4.2-2.fc34.x86_64/usr/bin/share/doc/harry/alexa /builddir/build/BUILDROOT/harry-0.4.2-2.fc34.x86_64/builddir/build/BUILDROOT/harry-0.4.2-2.fc34.x86_64/usr/bin/share/doc/harry/reuters /builddir/build/BUILDROOT/harry-0.4.2-2.fc34.x86_64/usr/share/doc/harry
+ rm -rf /builddir/build/BUILDROOT/harry-0.4.2-2.fc34.x86_64home
+ mkdir -p /builddir/build/BUILDROOT/harry-0.4.2-2.fc34.x86_64/usr/lib/python3.9/site-packages
+ mv /builddir/build/BUILDROOT/harry-0.4.2-2.fc34.x86_64/usr/bin/lib/python3.9/site-packages /builddir/build/BUILDROOT/harry-0.4.2-2.fc34.x86_64/usr/lib/python3.9/site-packages/harry
+ /usr/lib/rpm/find-debuginfo.sh -j2 --strict-build-id -m -i --build-id-seed 0.4.2-2.fc34 --unique-debug-suffix -0.4.2-2.fc34.x86_64 --unique-debug-src-base harry-0.4.2-2.fc34.x86_64 --run-dwz --dwz-low-mem-die-limit 10000000 --dwz-max-die-limit 110000000 -S debugsourcefiles.list /builddir/build/BUILD/harry-0.4.2
explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/harry-0.4.2-2.fc34.x86_64/usr/bin/harry
extracting debug info from /builddir/build/BUILDROOT/harry-0.4.2-2.fc34.x86_64/usr/bin/harry
original debug info size: 536kB, size after compression: 468kB
/usr/lib/rpm/sepdebugcrcfix: Updated 1 CRC32s, 0 CRC32s did match.
562 blocks
+ /usr/lib/rpm/check-buildroot
+ /usr/lib/rpm/redhat/brp-ldconfig
+ /usr/lib/rpm/brp-compress
+ /usr/lib/rpm/redhat/brp-strip-lto /usr/bin/strip
+ /usr/lib/rpm/brp-strip-static-archive /usr/bin/strip
+ /usr/lib/rpm/redhat/brp-python-bytecompile '' 1 0
Bytecompiling .py files below /builddir/build/BUILDROOT/harry-0.4.2-2.fc34.x86_64/usr/lib/python3.9 using /usr/bin/python3.9
+ /usr/lib/rpm/brp-python-hardlink
+ /usr/lib/rpm/redhat/brp-mangle-shebangs
Executing(%check): /bin/sh -e /var/tmp/rpm-tmp.t9EZDv
+ umask 022
+ cd /builddir/build/BUILD
+ cd harry-0.4.2
+ make check
Making check in src
make[1]: Entering directory '/builddir/build/BUILD/harry-0.4.2/src'
Making check in measures
make[2]: Entering directory '/builddir/build/BUILD/harry-0.4.2/src/measures'
make[2]: Nothing to be done for 'check'.
make[2]: Leaving directory '/builddir/build/BUILD/harry-0.4.2/src/measures'
Making check in input
make[2]: Entering directory '/builddir/build/BUILD/harry-0.4.2/src/input'
make[2]: Nothing to be done for 'check'.
make[2]: Leaving directory '/builddir/build/BUILD/harry-0.4.2/src/input'
Making check in output
make[2]: Entering directory '/builddir/build/BUILD/harry-0.4.2/src/output'
make[2]: Nothing to be done for 'check'.
make[2]: Leaving directory '/builddir/build/BUILD/harry-0.4.2/src/output'
make[2]: Entering directory '/builddir/build/BUILD/harry-0.4.2/src'
make[2]: Nothing to be done for 'check-am'.
make[2]: Leaving directory '/builddir/build/BUILD/harry-0.4.2/src'
make[1]: Leaving directory '/builddir/build/BUILD/harry-0.4.2/src'
Making check in doc
make[1]: Entering directory '/builddir/build/BUILD/harry-0.4.2/doc'
make[1]: Nothing to be done for 'check'.
make[1]: Leaving directory '/builddir/build/BUILD/harry-0.4.2/doc'
Making check in examples
make[1]: Entering directory '/builddir/build/BUILD/harry-0.4.2/examples'
Making check in alexa
make[2]: Entering directory '/builddir/build/BUILD/harry-0.4.2/examples/alexa'
make[2]: Nothing to be done for 'check'.
make[2]: Leaving directory '/builddir/build/BUILD/harry-0.4.2/examples/alexa'
Making check in reuters
make[2]: Entering directory '/builddir/build/BUILD/harry-0.4.2/examples/reuters'
make[2]: Nothing to be done for 'check'.
make[2]: Leaving directory '/builddir/build/BUILD/harry-0.4.2/examples/reuters'
Making check in .
make[2]: Entering directory '/builddir/build/BUILD/harry-0.4.2/examples'
make[2]: Nothing to be done for 'check-am'.
make[2]: Leaving directory '/builddir/build/BUILD/harry-0.4.2/examples'
make[1]: Leaving directory '/builddir/build/BUILD/harry-0.4.2/examples'
Making check in python
make[1]: Entering directory '/builddir/build/BUILD/harry-0.4.2/python'
make  check-local
make[2]: Entering directory '/builddir/build/BUILD/harry-0.4.2/python'
make[2]: Nothing to be done for 'check-local'.
make[2]: Leaving directory '/builddir/build/BUILD/harry-0.4.2/python'
make[1]: Leaving directory '/builddir/build/BUILD/harry-0.4.2/python'
Making check in .
make[1]: Entering directory '/builddir/build/BUILD/harry-0.4.2'
make[1]: Leaving directory '/builddir/build/BUILD/harry-0.4.2'
Making check in tests
make[1]: Entering directory '/builddir/build/BUILD/harry-0.4.2/tests'
make  check_vcache check_levenshtein check_hamming check_jarowinkler check_lee check_damerau check_compression check_wdegree check_subsequence check_bag check_coefficient check_distance check_kernel check_spectrum check_osa
make[2]: Entering directory '/builddir/build/BUILD/harry-0.4.2/tests'
make[2]: 'check_vcache' is up to date.
make[2]: 'check_levenshtein' is up to date.
make[2]: 'check_hamming' is up to date.
make[2]: 'check_jarowinkler' is up to date.
make[2]: 'check_lee' is up to date.
make[2]: 'check_damerau' is up to date.
make[2]: 'check_compression' is up to date.
make[2]: 'check_wdegree' is up to date.
make[2]: 'check_subsequence' is up to date.
make[2]: 'check_bag' is up to date.
make[2]: 'check_coefficient' is up to date.
make[2]: 'check_distance' is up to date.
make[2]: 'check_kernel' is up to date.
make[2]: 'check_spectrum' is up to date.
make[2]: 'check_osa' is up to date.
make[2]: Leaving directory '/builddir/build/BUILD/harry-0.4.2/tests'
make  check-TESTS
make[2]: Entering directory '/builddir/build/BUILD/harry-0.4.2/tests'
make[3]: Entering directory '/builddir/build/BUILD/harry-0.4.2/tests'
PASS: check_vcache
PASS: check_levenshtein
PASS: check_hamming
PASS: check_jarowinkler
PASS: check_lee
PASS: check_damerau
PASS: check_compression
PASS: check_wdegree
PASS: check_subsequence
PASS: check_bag
PASS: check_coefficient
PASS: check_distance
PASS: check_kernel
PASS: check_spectrum
PASS: check_osa
PASS: check_measures.sh
PASS: check_options.sh
PASS: check_configs.sh
PASS: check_inputs.sh
PASS: check_python.py
PASS: check_pylev.py
============================================================================
Testsuite summary for harry 0.4.2
============================================================================
# TOTAL: 21
# PASS:  21
# SKIP:  0
# XFAIL: 0
# FAIL:  0
# XPASS: 0
# ERROR: 0
============================================================================
make[3]: Leaving directory '/builddir/build/BUILD/harry-0.4.2/tests'
make[2]: Leaving directory '/builddir/build/BUILD/harry-0.4.2/tests'
make[1]: Leaving directory '/builddir/build/BUILD/harry-0.4.2/tests'
+ RPM_EC=0
++ jobs -p
+ exit 0
Processing files: harry-0.4.2-2.fc34.x86_64
Executing(%license): /bin/sh -e /var/tmp/rpm-tmp.b02hqu
+ umask 022
+ cd /builddir/build/BUILD
+ cd harry-0.4.2
+ LICENSEDIR=/builddir/build/BUILDROOT/harry-0.4.2-2.fc34.x86_64/usr/share/licenses/harry
+ export LC_ALL=C
+ LC_ALL=C
+ export LICENSEDIR
+ /usr/bin/mkdir -p /builddir/build/BUILDROOT/harry-0.4.2-2.fc34.x86_64/usr/share/licenses/harry
+ cp -pr COPYING /builddir/build/BUILDROOT/harry-0.4.2-2.fc34.x86_64/usr/share/licenses/harry
+ RPM_EC=0
++ jobs -p
+ exit 0
Provides: harry = 0.4.2-2.fc34 harry(x86-64) = 0.4.2-2.fc34
Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PartialHardlinkSets) <= 4.0.4-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1
Requires: libarchive.so.13()(64bit) libc.so.6()(64bit) libc.so.6(GLIBC_2.14)(64bit) libc.so.6(GLIBC_2.2.5)(64bit) libc.so.6(GLIBC_2.3)(64bit) libc.so.6(GLIBC_2.3.4)(64bit) libc.so.6(GLIBC_2.33)(64bit) libc.so.6(GLIBC_2.4)(64bit) libc.so.6(GLIBC_2.7)(64bit) libconfig.so.11()(64bit) libgcc_s.so.1()(64bit) libgcc_s.so.1(GCC_3.3.1)(64bit) libgomp.so.1()(64bit) libgomp.so.1(GOMP_1.0)(64bit) libgomp.so.1(GOMP_4.0)(64bit) libgomp.so.1(OMP_1.0)(64bit) libm.so.6()(64bit) libm.so.6(GLIBC_2.2.5)(64bit) libm.so.6(GLIBC_2.29)(64bit) libpthread.so.0()(64bit) libpthread.so.0(GLIBC_2.2.5)(64bit) libz.so.1()(64bit) libz.so.1(ZLIB_1.2.0)(64bit) python(abi) = 3.9 rtld(GNU_HASH)
Processing files: harry-debugsource-0.4.2-2.fc34.x86_64
Provides: harry-debugsource = 0.4.2-2.fc34 harry-debugsource(x86-64) = 0.4.2-2.fc34
Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1
Processing files: harry-debuginfo-0.4.2-2.fc34.x86_64
Provides: debuginfo(build-id) = 3cb1d8e63c840124311f5f4be4fd9e47b253442f harry-debuginfo = 0.4.2-2.fc34 harry-debuginfo(x86-64) = 0.4.2-2.fc34
Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1
Recommends: harry-debugsource(x86-64) = 0.4.2-2.fc34
Checking for unpackaged file(s): /usr/lib/rpm/check-files /builddir/build/BUILDROOT/harry-0.4.2-2.fc34.x86_64
Wrote: /builddir/build/RPMS/harry-debuginfo-0.4.2-2.fc34.x86_64.rpm
Wrote: /builddir/build/RPMS/harry-0.4.2-2.fc34.x86_64.rpm
Wrote: /builddir/build/RPMS/harry-debugsource-0.4.2-2.fc34.x86_64.rpm
Executing(%clean): /bin/sh -e /var/tmp/rpm-tmp.hlxqWw
+ umask 022
+ cd /builddir/build/BUILD
+ cd harry-0.4.2
+ /usr/bin/rm -rf /builddir/build/BUILDROOT/harry-0.4.2-2.fc34.x86_64
+ RPM_EC=0
++ jobs -p
+ exit 0
Child return code was: 0