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pip install fails
See original GitHub issueTrying to install jq with pip install jq. Seems that is stumbles over:
fatal: Not a git repository (or any of the parent directories): .git
fatal: Not a git repository (or any of the parent directories): .git
full output is:
DEPRECATION: Python 2.7 will reach the end of its life on January 1st, 2020. Please upgrade your Python as Python 2.7 won't be maintained after that date. A future version of pip will drop support for Python 2.7.
Collecting jq
Using cached https://files.pythonhosted.org/packages/82/0c/bf3f544f850cef19f4468bea93e4d0aa908e0d8c601609ba1ed561b42c79/jq-0.1.6.tar.gz
Building wheels for collected packages: jq
Building wheel for jq (setup.py) ... error
Complete output from command /gpfs1/data/galaxy_server/galaxy-dev/.venv/bin/python -u -c "import setuptools, tokenize;__file__='/tmp/pip-install-4BZXbj/jq/setup.py';f=getattr(tokenize, 'open', open)(__file__);code=f.read().replace('\r\n', '\n');f.close();exec(compile(code, __file__, 'exec'))" bdist_wheel -d /tmp/pip-wheel-vvSnfw --python-tag cp27:
running bdist_wheel
running build
running build_ext
Executing: ./configure CFLAGS=-fPIC --prefix=/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6
checking for a BSD-compatible install... /usr/bin/install -c
checking whether build environment is sane... yes
checking for a thread-safe mkdir -p... /bin/mkdir -p
checking for gawk... gawk
checking whether make sets $(MAKE)... yes
checking for gcc... /usr/local/gcc/5.2.0-1/bin/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 /usr/local/gcc/5.2.0-1/bin/gcc accepts -g... yes
checking for /usr/local/gcc/5.2.0-1/bin/gcc option to accept ISO C89... none needed
checking for style of include used by make... GNU
checking dependency style of /usr/local/gcc/5.2.0-1/bin/gcc... gcc3
checking build system type... x86_64-unknown-linux-gnu
checking host system type... x86_64-unknown-linux-gnu
checking how to print strings... printf
checking for a sed that does not truncate output... /bin/sed
checking for grep that handles long lines and -e... /bin/grep
checking for egrep... /bin/grep -E
checking for fgrep... /bin/grep -F
checking for ld used by /usr/local/gcc/5.2.0-1/bin/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... 3458764513820540925
checking whether the shell understands some XSI constructs... yes
checking whether the shell understands "+="... yes
checking how to convert x86_64-unknown-linux-gnu file names to x86_64-unknown-linux-gnu format... func_convert_file_noop
checking how to convert x86_64-unknown-linux-gnu file names to toolchain format... func_convert_file_noop
checking for /usr/bin/ld option to reload object files... -r
checking for objdump... objdump
checking how to recognize dependent libraries... pass_all
checking for dlltool... no
checking how to associate runtime and link libraries... printf %s\n
checking for ar... ar
checking for archiver @FILE support... @
checking for strip... strip
checking for ranlib... ranlib
checking command to parse /usr/bin/nm -B output from /usr/local/gcc/5.2.0-1/bin/gcc object... ok
checking for sysroot... no
checking for mt... no
checking if : is a manifest tool... no
checking how to run the C preprocessor... /usr/local/gcc/5.2.0-1/bin/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 /usr/local/gcc/5.2.0-1/bin/gcc supports -fno-rtti -fno-exceptions... no
checking for /usr/local/gcc/5.2.0-1/bin/gcc option to produce PIC... -fPIC -DPIC
checking if /usr/local/gcc/5.2.0-1/bin/gcc PIC flag -fPIC -DPIC works... yes
checking if /usr/local/gcc/5.2.0-1/bin/gcc static flag -static works... no
checking if /usr/local/gcc/5.2.0-1/bin/gcc supports -c -o file.o... yes
checking if /usr/local/gcc/5.2.0-1/bin/gcc supports -c -o file.o... (cached) yes
checking whether the /usr/local/gcc/5.2.0-1/bin/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 whether make sets $(MAKE)... (cached) yes
checking for ANSI C header files... (cached) yes
checking for stdlib.h... (cached) yes
checking for string.h... (cached) yes
checking for strings.h... (cached) yes
checking sys/time.h usability... yes
checking sys/time.h presence... yes
checking for sys/time.h... yes
checking for unistd.h... (cached) yes
checking sys/times.h usability... yes
checking sys/times.h presence... yes
checking for sys/times.h... yes
checking size of int... 4
checking size of short... 2
checking size of long... 8
checking for an ANSI C-conforming const... yes
checking whether time.h and sys/time.h may both be included... yes
checking for size_t... yes
checking for working alloca.h... yes
checking for alloca... yes
checking for working memcmp... yes
checking for prototypes... yes
checking for variable length prototypes and stdarg.h... yes
configure: creating ./config.status
config.status: creating Makefile
config.status: creating onig-config
config.status: creating sample/Makefile
config.status: creating config.h
config.status: executing depfiles commands
config.status: executing libtool commands
config.status: executing default commands
Executing: make
make all-recursive
make[1]: Entering directory `/tmp/pip-install-4BZXbj/jq/onig-5.9.6'
Making all in .
make[2]: Entering directory `/tmp/pip-install-4BZXbj/jq/onig-5.9.6'
/bin/sh ./libtool --tag=CC --mode=compile /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT regerror.lo -MD -MP -MF .deps/regerror.Tpo -c -o regerror.lo regerror.c
libtool: compile: /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT regerror.lo -MD -MP -MF .deps/regerror.Tpo -c regerror.c -fPIC -DPIC -o .libs/regerror.o
libtool: compile: /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT regerror.lo -MD -MP -MF .deps/regerror.Tpo -c regerror.c -o regerror.o >/dev/null 2>&1
mv -f .deps/regerror.Tpo .deps/regerror.Plo
/bin/sh ./libtool --tag=CC --mode=compile /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT regparse.lo -MD -MP -MF .deps/regparse.Tpo -c -o regparse.lo regparse.c
libtool: compile: /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT regparse.lo -MD -MP -MF .deps/regparse.Tpo -c regparse.c -fPIC -DPIC -o .libs/regparse.o
libtool: compile: /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT regparse.lo -MD -MP -MF .deps/regparse.Tpo -c regparse.c -o regparse.o >/dev/null 2>&1
mv -f .deps/regparse.Tpo .deps/regparse.Plo
/bin/sh ./libtool --tag=CC --mode=compile /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT regext.lo -MD -MP -MF .deps/regext.Tpo -c -o regext.lo regext.c
libtool: compile: /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT regext.lo -MD -MP -MF .deps/regext.Tpo -c regext.c -fPIC -DPIC -o .libs/regext.o
libtool: compile: /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT regext.lo -MD -MP -MF .deps/regext.Tpo -c regext.c -o regext.o >/dev/null 2>&1
mv -f .deps/regext.Tpo .deps/regext.Plo
/bin/sh ./libtool --tag=CC --mode=compile /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT regcomp.lo -MD -MP -MF .deps/regcomp.Tpo -c -o regcomp.lo regcomp.c
libtool: compile: /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT regcomp.lo -MD -MP -MF .deps/regcomp.Tpo -c regcomp.c -fPIC -DPIC -o .libs/regcomp.o
libtool: compile: /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT regcomp.lo -MD -MP -MF .deps/regcomp.Tpo -c regcomp.c -o regcomp.o >/dev/null 2>&1
mv -f .deps/regcomp.Tpo .deps/regcomp.Plo
/bin/sh ./libtool --tag=CC --mode=compile /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT regexec.lo -MD -MP -MF .deps/regexec.Tpo -c -o regexec.lo regexec.c
libtool: compile: /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT regexec.lo -MD -MP -MF .deps/regexec.Tpo -c regexec.c -fPIC -DPIC -o .libs/regexec.o
libtool: compile: /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT regexec.lo -MD -MP -MF .deps/regexec.Tpo -c regexec.c -o regexec.o >/dev/null 2>&1
mv -f .deps/regexec.Tpo .deps/regexec.Plo
/bin/sh ./libtool --tag=CC --mode=compile /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT reggnu.lo -MD -MP -MF .deps/reggnu.Tpo -c -o reggnu.lo reggnu.c
libtool: compile: /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT reggnu.lo -MD -MP -MF .deps/reggnu.Tpo -c reggnu.c -fPIC -DPIC -o .libs/reggnu.o
libtool: compile: /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT reggnu.lo -MD -MP -MF .deps/reggnu.Tpo -c reggnu.c -o reggnu.o >/dev/null 2>&1
mv -f .deps/reggnu.Tpo .deps/reggnu.Plo
/bin/sh ./libtool --tag=CC --mode=compile /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT regenc.lo -MD -MP -MF .deps/regenc.Tpo -c -o regenc.lo regenc.c
libtool: compile: /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT regenc.lo -MD -MP -MF .deps/regenc.Tpo -c regenc.c -fPIC -DPIC -o .libs/regenc.o
libtool: compile: /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT regenc.lo -MD -MP -MF .deps/regenc.Tpo -c regenc.c -o regenc.o >/dev/null 2>&1
mv -f .deps/regenc.Tpo .deps/regenc.Plo
/bin/sh ./libtool --tag=CC --mode=compile /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT regsyntax.lo -MD -MP -MF .deps/regsyntax.Tpo -c -o regsyntax.lo regsyntax.c
libtool: compile: /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT regsyntax.lo -MD -MP -MF .deps/regsyntax.Tpo -c regsyntax.c -fPIC -DPIC -o .libs/regsyntax.o
libtool: compile: /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT regsyntax.lo -MD -MP -MF .deps/regsyntax.Tpo -c regsyntax.c -o regsyntax.o >/dev/null 2>&1
mv -f .deps/regsyntax.Tpo .deps/regsyntax.Plo
/bin/sh ./libtool --tag=CC --mode=compile /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT regtrav.lo -MD -MP -MF .deps/regtrav.Tpo -c -o regtrav.lo regtrav.c
libtool: compile: /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT regtrav.lo -MD -MP -MF .deps/regtrav.Tpo -c regtrav.c -fPIC -DPIC -o .libs/regtrav.o
libtool: compile: /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT regtrav.lo -MD -MP -MF .deps/regtrav.Tpo -c regtrav.c -o regtrav.o >/dev/null 2>&1
mv -f .deps/regtrav.Tpo .deps/regtrav.Plo
/bin/sh ./libtool --tag=CC --mode=compile /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT regversion.lo -MD -MP -MF .deps/regversion.Tpo -c -o regversion.lo regversion.c
libtool: compile: /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT regversion.lo -MD -MP -MF .deps/regversion.Tpo -c regversion.c -fPIC -DPIC -o .libs/regversion.o
libtool: compile: /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT regversion.lo -MD -MP -MF .deps/regversion.Tpo -c regversion.c -o regversion.o >/dev/null 2>&1
mv -f .deps/regversion.Tpo .deps/regversion.Plo
/bin/sh ./libtool --tag=CC --mode=compile /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT st.lo -MD -MP -MF .deps/st.Tpo -c -o st.lo st.c
libtool: compile: /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT st.lo -MD -MP -MF .deps/st.Tpo -c st.c -fPIC -DPIC -o .libs/st.o
libtool: compile: /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT st.lo -MD -MP -MF .deps/st.Tpo -c st.c -o st.o >/dev/null 2>&1
mv -f .deps/st.Tpo .deps/st.Plo
/bin/sh ./libtool --tag=CC --mode=compile /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT regposix.lo -MD -MP -MF .deps/regposix.Tpo -c -o regposix.lo regposix.c
libtool: compile: /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT regposix.lo -MD -MP -MF .deps/regposix.Tpo -c regposix.c -fPIC -DPIC -o .libs/regposix.o
libtool: compile: /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT regposix.lo -MD -MP -MF .deps/regposix.Tpo -c regposix.c -o regposix.o >/dev/null 2>&1
mv -f .deps/regposix.Tpo .deps/regposix.Plo
/bin/sh ./libtool --tag=CC --mode=compile /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT regposerr.lo -MD -MP -MF .deps/regposerr.Tpo -c -o regposerr.lo regposerr.c
libtool: compile: /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT regposerr.lo -MD -MP -MF .deps/regposerr.Tpo -c regposerr.c -fPIC -DPIC -o .libs/regposerr.o
libtool: compile: /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT regposerr.lo -MD -MP -MF .deps/regposerr.Tpo -c regposerr.c -o regposerr.o >/dev/null 2>&1
mv -f .deps/regposerr.Tpo .deps/regposerr.Plo
/bin/sh ./libtool --tag=CC --mode=compile /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT unicode.lo -MD -MP -MF .deps/unicode.Tpo -c -o unicode.lo `test -f './enc/unicode.c' || echo './'`./enc/unicode.c
libtool: compile: /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT unicode.lo -MD -MP -MF .deps/unicode.Tpo -c ./enc/unicode.c -fPIC -DPIC -o .libs/unicode.o
libtool: compile: /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT unicode.lo -MD -MP -MF .deps/unicode.Tpo -c ./enc/unicode.c -o unicode.o >/dev/null 2>&1
mv -f .deps/unicode.Tpo .deps/unicode.Plo
/bin/sh ./libtool --tag=CC --mode=compile /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT ascii.lo -MD -MP -MF .deps/ascii.Tpo -c -o ascii.lo `test -f './enc/ascii.c' || echo './'`./enc/ascii.c
libtool: compile: /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT ascii.lo -MD -MP -MF .deps/ascii.Tpo -c ./enc/ascii.c -fPIC -DPIC -o .libs/ascii.o
libtool: compile: /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT ascii.lo -MD -MP -MF .deps/ascii.Tpo -c ./enc/ascii.c -o ascii.o >/dev/null 2>&1
mv -f .deps/ascii.Tpo .deps/ascii.Plo
/bin/sh ./libtool --tag=CC --mode=compile /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT utf8.lo -MD -MP -MF .deps/utf8.Tpo -c -o utf8.lo `test -f './enc/utf8.c' || echo './'`./enc/utf8.c
libtool: compile: /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT utf8.lo -MD -MP -MF .deps/utf8.Tpo -c ./enc/utf8.c -fPIC -DPIC -o .libs/utf8.o
libtool: compile: /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT utf8.lo -MD -MP -MF .deps/utf8.Tpo -c ./enc/utf8.c -o utf8.o >/dev/null 2>&1
mv -f .deps/utf8.Tpo .deps/utf8.Plo
/bin/sh ./libtool --tag=CC --mode=compile /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT utf16_be.lo -MD -MP -MF .deps/utf16_be.Tpo -c -o utf16_be.lo `test -f './enc/utf16_be.c' || echo './'`./enc/utf16_be.c
libtool: compile: /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT utf16_be.lo -MD -MP -MF .deps/utf16_be.Tpo -c ./enc/utf16_be.c -fPIC -DPIC -o .libs/utf16_be.o
libtool: compile: /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT utf16_be.lo -MD -MP -MF .deps/utf16_be.Tpo -c ./enc/utf16_be.c -o utf16_be.o >/dev/null 2>&1
mv -f .deps/utf16_be.Tpo .deps/utf16_be.Plo
/bin/sh ./libtool --tag=CC --mode=compile /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT utf16_le.lo -MD -MP -MF .deps/utf16_le.Tpo -c -o utf16_le.lo `test -f './enc/utf16_le.c' || echo './'`./enc/utf16_le.c
libtool: compile: /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT utf16_le.lo -MD -MP -MF .deps/utf16_le.Tpo -c ./enc/utf16_le.c -fPIC -DPIC -o .libs/utf16_le.o
libtool: compile: /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT utf16_le.lo -MD -MP -MF .deps/utf16_le.Tpo -c ./enc/utf16_le.c -o utf16_le.o >/dev/null 2>&1
mv -f .deps/utf16_le.Tpo .deps/utf16_le.Plo
/bin/sh ./libtool --tag=CC --mode=compile /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT utf32_be.lo -MD -MP -MF .deps/utf32_be.Tpo -c -o utf32_be.lo `test -f './enc/utf32_be.c' || echo './'`./enc/utf32_be.c
libtool: compile: /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT utf32_be.lo -MD -MP -MF .deps/utf32_be.Tpo -c ./enc/utf32_be.c -fPIC -DPIC -o .libs/utf32_be.o
libtool: compile: /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT utf32_be.lo -MD -MP -MF .deps/utf32_be.Tpo -c ./enc/utf32_be.c -o utf32_be.o >/dev/null 2>&1
mv -f .deps/utf32_be.Tpo .deps/utf32_be.Plo
/bin/sh ./libtool --tag=CC --mode=compile /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT utf32_le.lo -MD -MP -MF .deps/utf32_le.Tpo -c -o utf32_le.lo `test -f './enc/utf32_le.c' || echo './'`./enc/utf32_le.c
libtool: compile: /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT utf32_le.lo -MD -MP -MF .deps/utf32_le.Tpo -c ./enc/utf32_le.c -fPIC -DPIC -o .libs/utf32_le.o
libtool: compile: /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT utf32_le.lo -MD -MP -MF .deps/utf32_le.Tpo -c ./enc/utf32_le.c -o utf32_le.o >/dev/null 2>&1
mv -f .deps/utf32_le.Tpo .deps/utf32_le.Plo
/bin/sh ./libtool --tag=CC --mode=compile /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT euc_jp.lo -MD -MP -MF .deps/euc_jp.Tpo -c -o euc_jp.lo `test -f './enc/euc_jp.c' || echo './'`./enc/euc_jp.c
libtool: compile: /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT euc_jp.lo -MD -MP -MF .deps/euc_jp.Tpo -c ./enc/euc_jp.c -fPIC -DPIC -o .libs/euc_jp.o
libtool: compile: /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT euc_jp.lo -MD -MP -MF .deps/euc_jp.Tpo -c ./enc/euc_jp.c -o euc_jp.o >/dev/null 2>&1
mv -f .deps/euc_jp.Tpo .deps/euc_jp.Plo
/bin/sh ./libtool --tag=CC --mode=compile /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT sjis.lo -MD -MP -MF .deps/sjis.Tpo -c -o sjis.lo `test -f './enc/sjis.c' || echo './'`./enc/sjis.c
libtool: compile: /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT sjis.lo -MD -MP -MF .deps/sjis.Tpo -c ./enc/sjis.c -fPIC -DPIC -o .libs/sjis.o
libtool: compile: /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT sjis.lo -MD -MP -MF .deps/sjis.Tpo -c ./enc/sjis.c -o sjis.o >/dev/null 2>&1
mv -f .deps/sjis.Tpo .deps/sjis.Plo
/bin/sh ./libtool --tag=CC --mode=compile /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT iso8859_1.lo -MD -MP -MF .deps/iso8859_1.Tpo -c -o iso8859_1.lo `test -f './enc/iso8859_1.c' || echo './'`./enc/iso8859_1.c
libtool: compile: /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT iso8859_1.lo -MD -MP -MF .deps/iso8859_1.Tpo -c ./enc/iso8859_1.c -fPIC -DPIC -o .libs/iso8859_1.o
libtool: compile: /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT iso8859_1.lo -MD -MP -MF .deps/iso8859_1.Tpo -c ./enc/iso8859_1.c -o iso8859_1.o >/dev/null 2>&1
mv -f .deps/iso8859_1.Tpo .deps/iso8859_1.Plo
/bin/sh ./libtool --tag=CC --mode=compile /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT iso8859_2.lo -MD -MP -MF .deps/iso8859_2.Tpo -c -o iso8859_2.lo `test -f './enc/iso8859_2.c' || echo './'`./enc/iso8859_2.c
libtool: compile: /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT iso8859_2.lo -MD -MP -MF .deps/iso8859_2.Tpo -c ./enc/iso8859_2.c -fPIC -DPIC -o .libs/iso8859_2.o
libtool: compile: /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT iso8859_2.lo -MD -MP -MF .deps/iso8859_2.Tpo -c ./enc/iso8859_2.c -o iso8859_2.o >/dev/null 2>&1
mv -f .deps/iso8859_2.Tpo .deps/iso8859_2.Plo
/bin/sh ./libtool --tag=CC --mode=compile /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT iso8859_3.lo -MD -MP -MF .deps/iso8859_3.Tpo -c -o iso8859_3.lo `test -f './enc/iso8859_3.c' || echo './'`./enc/iso8859_3.c
libtool: compile: /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT iso8859_3.lo -MD -MP -MF .deps/iso8859_3.Tpo -c ./enc/iso8859_3.c -fPIC -DPIC -o .libs/iso8859_3.o
libtool: compile: /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT iso8859_3.lo -MD -MP -MF .deps/iso8859_3.Tpo -c ./enc/iso8859_3.c -o iso8859_3.o >/dev/null 2>&1
mv -f .deps/iso8859_3.Tpo .deps/iso8859_3.Plo
/bin/sh ./libtool --tag=CC --mode=compile /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT iso8859_4.lo -MD -MP -MF .deps/iso8859_4.Tpo -c -o iso8859_4.lo `test -f './enc/iso8859_4.c' || echo './'`./enc/iso8859_4.c
libtool: compile: /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT iso8859_4.lo -MD -MP -MF .deps/iso8859_4.Tpo -c ./enc/iso8859_4.c -fPIC -DPIC -o .libs/iso8859_4.o
libtool: compile: /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT iso8859_4.lo -MD -MP -MF .deps/iso8859_4.Tpo -c ./enc/iso8859_4.c -o iso8859_4.o >/dev/null 2>&1
mv -f .deps/iso8859_4.Tpo .deps/iso8859_4.Plo
/bin/sh ./libtool --tag=CC --mode=compile /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT iso8859_5.lo -MD -MP -MF .deps/iso8859_5.Tpo -c -o iso8859_5.lo `test -f './enc/iso8859_5.c' || echo './'`./enc/iso8859_5.c
libtool: compile: /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT iso8859_5.lo -MD -MP -MF .deps/iso8859_5.Tpo -c ./enc/iso8859_5.c -fPIC -DPIC -o .libs/iso8859_5.o
libtool: compile: /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT iso8859_5.lo -MD -MP -MF .deps/iso8859_5.Tpo -c ./enc/iso8859_5.c -o iso8859_5.o >/dev/null 2>&1
mv -f .deps/iso8859_5.Tpo .deps/iso8859_5.Plo
/bin/sh ./libtool --tag=CC --mode=compile /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT iso8859_6.lo -MD -MP -MF .deps/iso8859_6.Tpo -c -o iso8859_6.lo `test -f './enc/iso8859_6.c' || echo './'`./enc/iso8859_6.c
libtool: compile: /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT iso8859_6.lo -MD -MP -MF .deps/iso8859_6.Tpo -c ./enc/iso8859_6.c -fPIC -DPIC -o .libs/iso8859_6.o
libtool: compile: /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT iso8859_6.lo -MD -MP -MF .deps/iso8859_6.Tpo -c ./enc/iso8859_6.c -o iso8859_6.o >/dev/null 2>&1
mv -f .deps/iso8859_6.Tpo .deps/iso8859_6.Plo
/bin/sh ./libtool --tag=CC --mode=compile /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT iso8859_7.lo -MD -MP -MF .deps/iso8859_7.Tpo -c -o iso8859_7.lo `test -f './enc/iso8859_7.c' || echo './'`./enc/iso8859_7.c
libtool: compile: /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT iso8859_7.lo -MD -MP -MF .deps/iso8859_7.Tpo -c ./enc/iso8859_7.c -fPIC -DPIC -o .libs/iso8859_7.o
libtool: compile: /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT iso8859_7.lo -MD -MP -MF .deps/iso8859_7.Tpo -c ./enc/iso8859_7.c -o iso8859_7.o >/dev/null 2>&1
mv -f .deps/iso8859_7.Tpo .deps/iso8859_7.Plo
/bin/sh ./libtool --tag=CC --mode=compile /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT iso8859_8.lo -MD -MP -MF .deps/iso8859_8.Tpo -c -o iso8859_8.lo `test -f './enc/iso8859_8.c' || echo './'`./enc/iso8859_8.c
libtool: compile: /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT iso8859_8.lo -MD -MP -MF .deps/iso8859_8.Tpo -c ./enc/iso8859_8.c -fPIC -DPIC -o .libs/iso8859_8.o
libtool: compile: /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT iso8859_8.lo -MD -MP -MF .deps/iso8859_8.Tpo -c ./enc/iso8859_8.c -o iso8859_8.o >/dev/null 2>&1
mv -f .deps/iso8859_8.Tpo .deps/iso8859_8.Plo
/bin/sh ./libtool --tag=CC --mode=compile /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT iso8859_9.lo -MD -MP -MF .deps/iso8859_9.Tpo -c -o iso8859_9.lo `test -f './enc/iso8859_9.c' || echo './'`./enc/iso8859_9.c
libtool: compile: /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT iso8859_9.lo -MD -MP -MF .deps/iso8859_9.Tpo -c ./enc/iso8859_9.c -fPIC -DPIC -o .libs/iso8859_9.o
libtool: compile: /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT iso8859_9.lo -MD -MP -MF .deps/iso8859_9.Tpo -c ./enc/iso8859_9.c -o iso8859_9.o >/dev/null 2>&1
mv -f .deps/iso8859_9.Tpo .deps/iso8859_9.Plo
/bin/sh ./libtool --tag=CC --mode=compile /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT iso8859_10.lo -MD -MP -MF .deps/iso8859_10.Tpo -c -o iso8859_10.lo `test -f './enc/iso8859_10.c' || echo './'`./enc/iso8859_10.c
libtool: compile: /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT iso8859_10.lo -MD -MP -MF .deps/iso8859_10.Tpo -c ./enc/iso8859_10.c -fPIC -DPIC -o .libs/iso8859_10.o
libtool: compile: /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT iso8859_10.lo -MD -MP -MF .deps/iso8859_10.Tpo -c ./enc/iso8859_10.c -o iso8859_10.o >/dev/null 2>&1
mv -f .deps/iso8859_10.Tpo .deps/iso8859_10.Plo
/bin/sh ./libtool --tag=CC --mode=compile /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT iso8859_11.lo -MD -MP -MF .deps/iso8859_11.Tpo -c -o iso8859_11.lo `test -f './enc/iso8859_11.c' || echo './'`./enc/iso8859_11.c
libtool: compile: /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT iso8859_11.lo -MD -MP -MF .deps/iso8859_11.Tpo -c ./enc/iso8859_11.c -fPIC -DPIC -o .libs/iso8859_11.o
libtool: compile: /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT iso8859_11.lo -MD -MP -MF .deps/iso8859_11.Tpo -c ./enc/iso8859_11.c -o iso8859_11.o >/dev/null 2>&1
mv -f .deps/iso8859_11.Tpo .deps/iso8859_11.Plo
/bin/sh ./libtool --tag=CC --mode=compile /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT iso8859_13.lo -MD -MP -MF .deps/iso8859_13.Tpo -c -o iso8859_13.lo `test -f './enc/iso8859_13.c' || echo './'`./enc/iso8859_13.c
libtool: compile: /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT iso8859_13.lo -MD -MP -MF .deps/iso8859_13.Tpo -c ./enc/iso8859_13.c -fPIC -DPIC -o .libs/iso8859_13.o
libtool: compile: /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT iso8859_13.lo -MD -MP -MF .deps/iso8859_13.Tpo -c ./enc/iso8859_13.c -o iso8859_13.o >/dev/null 2>&1
mv -f .deps/iso8859_13.Tpo .deps/iso8859_13.Plo
/bin/sh ./libtool --tag=CC --mode=compile /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT iso8859_14.lo -MD -MP -MF .deps/iso8859_14.Tpo -c -o iso8859_14.lo `test -f './enc/iso8859_14.c' || echo './'`./enc/iso8859_14.c
libtool: compile: /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT iso8859_14.lo -MD -MP -MF .deps/iso8859_14.Tpo -c ./enc/iso8859_14.c -fPIC -DPIC -o .libs/iso8859_14.o
libtool: compile: /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT iso8859_14.lo -MD -MP -MF .deps/iso8859_14.Tpo -c ./enc/iso8859_14.c -o iso8859_14.o >/dev/null 2>&1
mv -f .deps/iso8859_14.Tpo .deps/iso8859_14.Plo
/bin/sh ./libtool --tag=CC --mode=compile /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT iso8859_15.lo -MD -MP -MF .deps/iso8859_15.Tpo -c -o iso8859_15.lo `test -f './enc/iso8859_15.c' || echo './'`./enc/iso8859_15.c
libtool: compile: /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT iso8859_15.lo -MD -MP -MF .deps/iso8859_15.Tpo -c ./enc/iso8859_15.c -fPIC -DPIC -o .libs/iso8859_15.o
libtool: compile: /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT iso8859_15.lo -MD -MP -MF .deps/iso8859_15.Tpo -c ./enc/iso8859_15.c -o iso8859_15.o >/dev/null 2>&1
mv -f .deps/iso8859_15.Tpo .deps/iso8859_15.Plo
/bin/sh ./libtool --tag=CC --mode=compile /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT iso8859_16.lo -MD -MP -MF .deps/iso8859_16.Tpo -c -o iso8859_16.lo `test -f './enc/iso8859_16.c' || echo './'`./enc/iso8859_16.c
libtool: compile: /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT iso8859_16.lo -MD -MP -MF .deps/iso8859_16.Tpo -c ./enc/iso8859_16.c -fPIC -DPIC -o .libs/iso8859_16.o
libtool: compile: /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT iso8859_16.lo -MD -MP -MF .deps/iso8859_16.Tpo -c ./enc/iso8859_16.c -o iso8859_16.o >/dev/null 2>&1
mv -f .deps/iso8859_16.Tpo .deps/iso8859_16.Plo
/bin/sh ./libtool --tag=CC --mode=compile /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT euc_tw.lo -MD -MP -MF .deps/euc_tw.Tpo -c -o euc_tw.lo `test -f './enc/euc_tw.c' || echo './'`./enc/euc_tw.c
libtool: compile: /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT euc_tw.lo -MD -MP -MF .deps/euc_tw.Tpo -c ./enc/euc_tw.c -fPIC -DPIC -o .libs/euc_tw.o
libtool: compile: /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT euc_tw.lo -MD -MP -MF .deps/euc_tw.Tpo -c ./enc/euc_tw.c -o euc_tw.o >/dev/null 2>&1
mv -f .deps/euc_tw.Tpo .deps/euc_tw.Plo
/bin/sh ./libtool --tag=CC --mode=compile /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT euc_kr.lo -MD -MP -MF .deps/euc_kr.Tpo -c -o euc_kr.lo `test -f './enc/euc_kr.c' || echo './'`./enc/euc_kr.c
libtool: compile: /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT euc_kr.lo -MD -MP -MF .deps/euc_kr.Tpo -c ./enc/euc_kr.c -fPIC -DPIC -o .libs/euc_kr.o
libtool: compile: /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT euc_kr.lo -MD -MP -MF .deps/euc_kr.Tpo -c ./enc/euc_kr.c -o euc_kr.o >/dev/null 2>&1
mv -f .deps/euc_kr.Tpo .deps/euc_kr.Plo
/bin/sh ./libtool --tag=CC --mode=compile /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT big5.lo -MD -MP -MF .deps/big5.Tpo -c -o big5.lo `test -f './enc/big5.c' || echo './'`./enc/big5.c
libtool: compile: /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT big5.lo -MD -MP -MF .deps/big5.Tpo -c ./enc/big5.c -fPIC -DPIC -o .libs/big5.o
libtool: compile: /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT big5.lo -MD -MP -MF .deps/big5.Tpo -c ./enc/big5.c -o big5.o >/dev/null 2>&1
mv -f .deps/big5.Tpo .deps/big5.Plo
/bin/sh ./libtool --tag=CC --mode=compile /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT gb18030.lo -MD -MP -MF .deps/gb18030.Tpo -c -o gb18030.lo `test -f './enc/gb18030.c' || echo './'`./enc/gb18030.c
libtool: compile: /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT gb18030.lo -MD -MP -MF .deps/gb18030.Tpo -c ./enc/gb18030.c -fPIC -DPIC -o .libs/gb18030.o
libtool: compile: /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT gb18030.lo -MD -MP -MF .deps/gb18030.Tpo -c ./enc/gb18030.c -o gb18030.o >/dev/null 2>&1
mv -f .deps/gb18030.Tpo .deps/gb18030.Plo
/bin/sh ./libtool --tag=CC --mode=compile /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT koi8_r.lo -MD -MP -MF .deps/koi8_r.Tpo -c -o koi8_r.lo `test -f './enc/koi8_r.c' || echo './'`./enc/koi8_r.c
libtool: compile: /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT koi8_r.lo -MD -MP -MF .deps/koi8_r.Tpo -c ./enc/koi8_r.c -fPIC -DPIC -o .libs/koi8_r.o
libtool: compile: /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT koi8_r.lo -MD -MP -MF .deps/koi8_r.Tpo -c ./enc/koi8_r.c -o koi8_r.o >/dev/null 2>&1
mv -f .deps/koi8_r.Tpo .deps/koi8_r.Plo
/bin/sh ./libtool --tag=CC --mode=compile /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT cp1251.lo -MD -MP -MF .deps/cp1251.Tpo -c -o cp1251.lo `test -f './enc/cp1251.c' || echo './'`./enc/cp1251.c
libtool: compile: /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT cp1251.lo -MD -MP -MF .deps/cp1251.Tpo -c ./enc/cp1251.c -fPIC -DPIC -o .libs/cp1251.o
libtool: compile: /usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT cp1251.lo -MD -MP -MF .deps/cp1251.Tpo -c ./enc/cp1251.c -o cp1251.o >/dev/null 2>&1
mv -f .deps/cp1251.Tpo .deps/cp1251.Plo
/bin/sh ./libtool --tag=CC --mode=link /usr/local/gcc/5.2.0-1/bin/gcc -fPIC -version-info 2:0:0 -L/usr/local/libtool/2.4.6-1/lib -L/global/apps/bioinf/galaxy/bin/openldap-2.4.45/lib -L/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/lib -L/global/apps/bioinf/galaxy/bin/Python-2.7.13/lib -L/usr/local/readline/6.3-2/lib -L/usr/local/ncurses/5.9-1/lib -L/usr/local/openssl/1.0.2-1/usr/lib -L/usr/local/zlib/1.2.8-4/lib -L/usr/local/sqlite/3.15.1-1/lib -L/usr/local/libedit/20160903-3.1-1/lib -L/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/lib -L/usr/local/pcre/8.38-1/lib -L/usr/local/expat/2.1.1-1/lib -L/usr/local/curl/7.41.0-1/lib -L/usr/local/tcl/8.6.1-2/lib -L/usr/local/flex/2.6.0-1/lib -L/usr/local/bison/3.0.4-1/lib -L/usr/local/bzip2/1.0.6-3/lib -o libonig.la -rpath /tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/lib regerror.lo regparse.lo regext.lo regcomp.lo regexec.lo reggnu.lo regenc.lo regsyntax.lo regtrav.lo regversion.lo st.lo regposix.lo regposerr.lo unicode.lo ascii.lo utf8.lo utf16_be.lo utf16_le.lo utf32_be.lo utf32_le.lo euc_jp.lo sjis.lo iso8859_1.lo iso8859_2.lo iso8859_3.lo iso8859_4.lo iso8859_5.lo iso8859_6.lo iso8859_7.lo iso8859_8.lo iso8859_9.lo iso8859_10.lo iso8859_11.lo iso8859_13.lo iso8859_14.lo iso8859_15.lo iso8859_16.lo euc_tw.lo euc_kr.lo big5.lo gb18030.lo koi8_r.lo cp1251.lo
libtool: link: /usr/local/gcc/5.2.0-1/bin/gcc -shared -fPIC -DPIC .libs/regerror.o .libs/regparse.o .libs/regext.o .libs/regcomp.o .libs/regexec.o .libs/reggnu.o .libs/regenc.o .libs/regsyntax.o .libs/regtrav.o .libs/regversion.o .libs/st.o .libs/regposix.o .libs/regposerr.o .libs/unicode.o .libs/ascii.o .libs/utf8.o .libs/utf16_be.o .libs/utf16_le.o .libs/utf32_be.o .libs/utf32_le.o .libs/euc_jp.o .libs/sjis.o .libs/iso8859_1.o .libs/iso8859_2.o .libs/iso8859_3.o .libs/iso8859_4.o .libs/iso8859_5.o .libs/iso8859_6.o .libs/iso8859_7.o .libs/iso8859_8.o .libs/iso8859_9.o .libs/iso8859_10.o .libs/iso8859_11.o .libs/iso8859_13.o .libs/iso8859_14.o .libs/iso8859_15.o .libs/iso8859_16.o .libs/euc_tw.o .libs/euc_kr.o .libs/big5.o .libs/gb18030.o .libs/koi8_r.o .libs/cp1251.o -L/usr/local/libtool/2.4.6-1/lib -L/global/apps/bioinf/galaxy/bin/openldap-2.4.45/lib -L/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/lib -L/global/apps/bioinf/galaxy/bin/Python-2.7.13/lib -L/usr/local/readline/6.3-2/lib -L/usr/local/ncurses/5.9-1/lib -L/usr/local/openssl/1.0.2-1/usr/lib -L/usr/local/zlib/1.2.8-4/lib -L/usr/local/sqlite/3.15.1-1/lib -L/usr/local/libedit/20160903-3.1-1/lib -L/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/lib -L/usr/local/pcre/8.38-1/lib -L/usr/local/expat/2.1.1-1/lib -L/usr/local/curl/7.41.0-1/lib -L/usr/local/tcl/8.6.1-2/lib -L/usr/local/flex/2.6.0-1/lib -L/usr/local/bison/3.0.4-1/lib -L/usr/local/bzip2/1.0.6-3/lib -Wl,-soname -Wl,libonig.so.2 -o .libs/libonig.so.2.0.0
libtool: link: (cd ".libs" && rm -f "libonig.so.2" && ln -s "libonig.so.2.0.0" "libonig.so.2")
libtool: link: (cd ".libs" && rm -f "libonig.so" && ln -s "libonig.so.2.0.0" "libonig.so")
libtool: link: ar cru .libs/libonig.a regerror.o regparse.o regext.o regcomp.o regexec.o reggnu.o regenc.o regsyntax.o regtrav.o regversion.o st.o regposix.o regposerr.o unicode.o ascii.o utf8.o utf16_be.o utf16_le.o utf32_be.o utf32_le.o euc_jp.o sjis.o iso8859_1.o iso8859_2.o iso8859_3.o iso8859_4.o iso8859_5.o iso8859_6.o iso8859_7.o iso8859_8.o iso8859_9.o iso8859_10.o iso8859_11.o iso8859_13.o iso8859_14.o iso8859_15.o iso8859_16.o euc_tw.o euc_kr.o big5.o gb18030.o koi8_r.o cp1251.o
libtool: link: ranlib .libs/libonig.a
libtool: link: ( cd ".libs" && rm -f "libonig.la" && ln -s "../libonig.la" "libonig.la" )
sed -e 's,[@]datadir[@],/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/share,g' -e 's,[@]datarootdir[@],/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/share,g' -e 's,[@]PACKAGE_VERSION[@],5.9.6,g' -e 's,[@]prefix[@],/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6,g' -e 's,[@]exec_prefix[@],/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6,g' -e 's,[@]libdir[@],/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/lib,g' -e 's,[@]includedir[@],/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include,g' < oniguruma.pc.in > oniguruma.pc
make[2]: Leaving directory `/tmp/pip-install-4BZXbj/jq/onig-5.9.6'
Making all in sample
make[2]: Entering directory `/tmp/pip-install-4BZXbj/jq/onig-5.9.6/sample'
/usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I.. -I.. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT encode.o -MD -MP -MF .deps/encode.Tpo -c -o encode.o encode.c
mv -f .deps/encode.Tpo .deps/encode.Po
/bin/sh ../libtool --tag=CC --mode=link /usr/local/gcc/5.2.0-1/bin/gcc -fPIC -L/usr/local/libtool/2.4.6-1/lib -L/global/apps/bioinf/galaxy/bin/openldap-2.4.45/lib -L/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/lib -L/global/apps/bioinf/galaxy/bin/Python-2.7.13/lib -L/usr/local/readline/6.3-2/lib -L/usr/local/ncurses/5.9-1/lib -L/usr/local/openssl/1.0.2-1/usr/lib -L/usr/local/zlib/1.2.8-4/lib -L/usr/local/sqlite/3.15.1-1/lib -L/usr/local/libedit/20160903-3.1-1/lib -L/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/lib -L/usr/local/pcre/8.38-1/lib -L/usr/local/expat/2.1.1-1/lib -L/usr/local/curl/7.41.0-1/lib -L/usr/local/tcl/8.6.1-2/lib -L/usr/local/flex/2.6.0-1/lib -L/usr/local/bison/3.0.4-1/lib -L/usr/local/bzip2/1.0.6-3/lib -o encode encode.o ../libonig.la
libtool: link: /usr/local/gcc/5.2.0-1/bin/gcc -fPIC -o .libs/encode encode.o -L/usr/local/libtool/2.4.6-1/lib -L/global/apps/bioinf/galaxy/bin/openldap-2.4.45/lib -L/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/lib -L/global/apps/bioinf/galaxy/bin/Python-2.7.13/lib -L/usr/local/readline/6.3-2/lib -L/usr/local/ncurses/5.9-1/lib -L/usr/local/openssl/1.0.2-1/usr/lib -L/usr/local/zlib/1.2.8-4/lib -L/usr/local/sqlite/3.15.1-1/lib -L/usr/local/libedit/20160903-3.1-1/lib -L/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/lib -L/usr/local/pcre/8.38-1/lib -L/usr/local/expat/2.1.1-1/lib -L/usr/local/curl/7.41.0-1/lib -L/usr/local/tcl/8.6.1-2/lib -L/usr/local/flex/2.6.0-1/lib -L/usr/local/bison/3.0.4-1/lib -L/usr/local/bzip2/1.0.6-3/lib ../.libs/libonig.so -Wl,-rpath -Wl,/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/lib
/usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I.. -I.. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT listcap.o -MD -MP -MF .deps/listcap.Tpo -c -o listcap.o listcap.c
mv -f .deps/listcap.Tpo .deps/listcap.Po
/bin/sh ../libtool --tag=CC --mode=link /usr/local/gcc/5.2.0-1/bin/gcc -fPIC -L/usr/local/libtool/2.4.6-1/lib -L/global/apps/bioinf/galaxy/bin/openldap-2.4.45/lib -L/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/lib -L/global/apps/bioinf/galaxy/bin/Python-2.7.13/lib -L/usr/local/readline/6.3-2/lib -L/usr/local/ncurses/5.9-1/lib -L/usr/local/openssl/1.0.2-1/usr/lib -L/usr/local/zlib/1.2.8-4/lib -L/usr/local/sqlite/3.15.1-1/lib -L/usr/local/libedit/20160903-3.1-1/lib -L/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/lib -L/usr/local/pcre/8.38-1/lib -L/usr/local/expat/2.1.1-1/lib -L/usr/local/curl/7.41.0-1/lib -L/usr/local/tcl/8.6.1-2/lib -L/usr/local/flex/2.6.0-1/lib -L/usr/local/bison/3.0.4-1/lib -L/usr/local/bzip2/1.0.6-3/lib -o listcap listcap.o ../libonig.la
libtool: link: /usr/local/gcc/5.2.0-1/bin/gcc -fPIC -o .libs/listcap listcap.o -L/usr/local/libtool/2.4.6-1/lib -L/global/apps/bioinf/galaxy/bin/openldap-2.4.45/lib -L/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/lib -L/global/apps/bioinf/galaxy/bin/Python-2.7.13/lib -L/usr/local/readline/6.3-2/lib -L/usr/local/ncurses/5.9-1/lib -L/usr/local/openssl/1.0.2-1/usr/lib -L/usr/local/zlib/1.2.8-4/lib -L/usr/local/sqlite/3.15.1-1/lib -L/usr/local/libedit/20160903-3.1-1/lib -L/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/lib -L/usr/local/pcre/8.38-1/lib -L/usr/local/expat/2.1.1-1/lib -L/usr/local/curl/7.41.0-1/lib -L/usr/local/tcl/8.6.1-2/lib -L/usr/local/flex/2.6.0-1/lib -L/usr/local/bison/3.0.4-1/lib -L/usr/local/bzip2/1.0.6-3/lib ../.libs/libonig.so -Wl,-rpath -Wl,/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/lib
/usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I.. -I.. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT names.o -MD -MP -MF .deps/names.Tpo -c -o names.o names.c
mv -f .deps/names.Tpo .deps/names.Po
/bin/sh ../libtool --tag=CC --mode=link /usr/local/gcc/5.2.0-1/bin/gcc -fPIC -L/usr/local/libtool/2.4.6-1/lib -L/global/apps/bioinf/galaxy/bin/openldap-2.4.45/lib -L/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/lib -L/global/apps/bioinf/galaxy/bin/Python-2.7.13/lib -L/usr/local/readline/6.3-2/lib -L/usr/local/ncurses/5.9-1/lib -L/usr/local/openssl/1.0.2-1/usr/lib -L/usr/local/zlib/1.2.8-4/lib -L/usr/local/sqlite/3.15.1-1/lib -L/usr/local/libedit/20160903-3.1-1/lib -L/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/lib -L/usr/local/pcre/8.38-1/lib -L/usr/local/expat/2.1.1-1/lib -L/usr/local/curl/7.41.0-1/lib -L/usr/local/tcl/8.6.1-2/lib -L/usr/local/flex/2.6.0-1/lib -L/usr/local/bison/3.0.4-1/lib -L/usr/local/bzip2/1.0.6-3/lib -o names names.o ../libonig.la
libtool: link: /usr/local/gcc/5.2.0-1/bin/gcc -fPIC -o .libs/names names.o -L/usr/local/libtool/2.4.6-1/lib -L/global/apps/bioinf/galaxy/bin/openldap-2.4.45/lib -L/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/lib -L/global/apps/bioinf/galaxy/bin/Python-2.7.13/lib -L/usr/local/readline/6.3-2/lib -L/usr/local/ncurses/5.9-1/lib -L/usr/local/openssl/1.0.2-1/usr/lib -L/usr/local/zlib/1.2.8-4/lib -L/usr/local/sqlite/3.15.1-1/lib -L/usr/local/libedit/20160903-3.1-1/lib -L/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/lib -L/usr/local/pcre/8.38-1/lib -L/usr/local/expat/2.1.1-1/lib -L/usr/local/curl/7.41.0-1/lib -L/usr/local/tcl/8.6.1-2/lib -L/usr/local/flex/2.6.0-1/lib -L/usr/local/bison/3.0.4-1/lib -L/usr/local/bzip2/1.0.6-3/lib ../.libs/libonig.so -Wl,-rpath -Wl,/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/lib
/usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I.. -I.. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT posix.o -MD -MP -MF .deps/posix.Tpo -c -o posix.o posix.c
mv -f .deps/posix.Tpo .deps/posix.Po
/bin/sh ../libtool --tag=CC --mode=link /usr/local/gcc/5.2.0-1/bin/gcc -fPIC -L/usr/local/libtool/2.4.6-1/lib -L/global/apps/bioinf/galaxy/bin/openldap-2.4.45/lib -L/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/lib -L/global/apps/bioinf/galaxy/bin/Python-2.7.13/lib -L/usr/local/readline/6.3-2/lib -L/usr/local/ncurses/5.9-1/lib -L/usr/local/openssl/1.0.2-1/usr/lib -L/usr/local/zlib/1.2.8-4/lib -L/usr/local/sqlite/3.15.1-1/lib -L/usr/local/libedit/20160903-3.1-1/lib -L/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/lib -L/usr/local/pcre/8.38-1/lib -L/usr/local/expat/2.1.1-1/lib -L/usr/local/curl/7.41.0-1/lib -L/usr/local/tcl/8.6.1-2/lib -L/usr/local/flex/2.6.0-1/lib -L/usr/local/bison/3.0.4-1/lib -L/usr/local/bzip2/1.0.6-3/lib -o posix posix.o ../libonig.la
libtool: link: /usr/local/gcc/5.2.0-1/bin/gcc -fPIC -o .libs/posix posix.o -L/usr/local/libtool/2.4.6-1/lib -L/global/apps/bioinf/galaxy/bin/openldap-2.4.45/lib -L/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/lib -L/global/apps/bioinf/galaxy/bin/Python-2.7.13/lib -L/usr/local/readline/6.3-2/lib -L/usr/local/ncurses/5.9-1/lib -L/usr/local/openssl/1.0.2-1/usr/lib -L/usr/local/zlib/1.2.8-4/lib -L/usr/local/sqlite/3.15.1-1/lib -L/usr/local/libedit/20160903-3.1-1/lib -L/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/lib -L/usr/local/pcre/8.38-1/lib -L/usr/local/expat/2.1.1-1/lib -L/usr/local/curl/7.41.0-1/lib -L/usr/local/tcl/8.6.1-2/lib -L/usr/local/flex/2.6.0-1/lib -L/usr/local/bison/3.0.4-1/lib -L/usr/local/bzip2/1.0.6-3/lib ../.libs/libonig.so -Wl,-rpath -Wl,/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/lib
/usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I.. -I.. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT simple.o -MD -MP -MF .deps/simple.Tpo -c -o simple.o simple.c
mv -f .deps/simple.Tpo .deps/simple.Po
/bin/sh ../libtool --tag=CC --mode=link /usr/local/gcc/5.2.0-1/bin/gcc -fPIC -L/usr/local/libtool/2.4.6-1/lib -L/global/apps/bioinf/galaxy/bin/openldap-2.4.45/lib -L/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/lib -L/global/apps/bioinf/galaxy/bin/Python-2.7.13/lib -L/usr/local/readline/6.3-2/lib -L/usr/local/ncurses/5.9-1/lib -L/usr/local/openssl/1.0.2-1/usr/lib -L/usr/local/zlib/1.2.8-4/lib -L/usr/local/sqlite/3.15.1-1/lib -L/usr/local/libedit/20160903-3.1-1/lib -L/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/lib -L/usr/local/pcre/8.38-1/lib -L/usr/local/expat/2.1.1-1/lib -L/usr/local/curl/7.41.0-1/lib -L/usr/local/tcl/8.6.1-2/lib -L/usr/local/flex/2.6.0-1/lib -L/usr/local/bison/3.0.4-1/lib -L/usr/local/bzip2/1.0.6-3/lib -o simple simple.o ../libonig.la
libtool: link: /usr/local/gcc/5.2.0-1/bin/gcc -fPIC -o .libs/simple simple.o -L/usr/local/libtool/2.4.6-1/lib -L/global/apps/bioinf/galaxy/bin/openldap-2.4.45/lib -L/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/lib -L/global/apps/bioinf/galaxy/bin/Python-2.7.13/lib -L/usr/local/readline/6.3-2/lib -L/usr/local/ncurses/5.9-1/lib -L/usr/local/openssl/1.0.2-1/usr/lib -L/usr/local/zlib/1.2.8-4/lib -L/usr/local/sqlite/3.15.1-1/lib -L/usr/local/libedit/20160903-3.1-1/lib -L/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/lib -L/usr/local/pcre/8.38-1/lib -L/usr/local/expat/2.1.1-1/lib -L/usr/local/curl/7.41.0-1/lib -L/usr/local/tcl/8.6.1-2/lib -L/usr/local/flex/2.6.0-1/lib -L/usr/local/bison/3.0.4-1/lib -L/usr/local/bzip2/1.0.6-3/lib ../.libs/libonig.so -Wl,-rpath -Wl,/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/lib
/usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I.. -I.. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT sql.o -MD -MP -MF .deps/sql.Tpo -c -o sql.o sql.c
mv -f .deps/sql.Tpo .deps/sql.Po
/bin/sh ../libtool --tag=CC --mode=link /usr/local/gcc/5.2.0-1/bin/gcc -fPIC -L/usr/local/libtool/2.4.6-1/lib -L/global/apps/bioinf/galaxy/bin/openldap-2.4.45/lib -L/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/lib -L/global/apps/bioinf/galaxy/bin/Python-2.7.13/lib -L/usr/local/readline/6.3-2/lib -L/usr/local/ncurses/5.9-1/lib -L/usr/local/openssl/1.0.2-1/usr/lib -L/usr/local/zlib/1.2.8-4/lib -L/usr/local/sqlite/3.15.1-1/lib -L/usr/local/libedit/20160903-3.1-1/lib -L/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/lib -L/usr/local/pcre/8.38-1/lib -L/usr/local/expat/2.1.1-1/lib -L/usr/local/curl/7.41.0-1/lib -L/usr/local/tcl/8.6.1-2/lib -L/usr/local/flex/2.6.0-1/lib -L/usr/local/bison/3.0.4-1/lib -L/usr/local/bzip2/1.0.6-3/lib -o sql sql.o ../libonig.la
libtool: link: /usr/local/gcc/5.2.0-1/bin/gcc -fPIC -o .libs/sql sql.o -L/usr/local/libtool/2.4.6-1/lib -L/global/apps/bioinf/galaxy/bin/openldap-2.4.45/lib -L/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/lib -L/global/apps/bioinf/galaxy/bin/Python-2.7.13/lib -L/usr/local/readline/6.3-2/lib -L/usr/local/ncurses/5.9-1/lib -L/usr/local/openssl/1.0.2-1/usr/lib -L/usr/local/zlib/1.2.8-4/lib -L/usr/local/sqlite/3.15.1-1/lib -L/usr/local/libedit/20160903-3.1-1/lib -L/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/lib -L/usr/local/pcre/8.38-1/lib -L/usr/local/expat/2.1.1-1/lib -L/usr/local/curl/7.41.0-1/lib -L/usr/local/tcl/8.6.1-2/lib -L/usr/local/flex/2.6.0-1/lib -L/usr/local/bison/3.0.4-1/lib -L/usr/local/bzip2/1.0.6-3/lib ../.libs/libonig.so -Wl,-rpath -Wl,/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/lib
/usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I.. -I.. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT syntax.o -MD -MP -MF .deps/syntax.Tpo -c -o syntax.o syntax.c
mv -f .deps/syntax.Tpo .deps/syntax.Po
/bin/sh ../libtool --tag=CC --mode=link /usr/local/gcc/5.2.0-1/bin/gcc -fPIC -L/usr/local/libtool/2.4.6-1/lib -L/global/apps/bioinf/galaxy/bin/openldap-2.4.45/lib -L/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/lib -L/global/apps/bioinf/galaxy/bin/Python-2.7.13/lib -L/usr/local/readline/6.3-2/lib -L/usr/local/ncurses/5.9-1/lib -L/usr/local/openssl/1.0.2-1/usr/lib -L/usr/local/zlib/1.2.8-4/lib -L/usr/local/sqlite/3.15.1-1/lib -L/usr/local/libedit/20160903-3.1-1/lib -L/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/lib -L/usr/local/pcre/8.38-1/lib -L/usr/local/expat/2.1.1-1/lib -L/usr/local/curl/7.41.0-1/lib -L/usr/local/tcl/8.6.1-2/lib -L/usr/local/flex/2.6.0-1/lib -L/usr/local/bison/3.0.4-1/lib -L/usr/local/bzip2/1.0.6-3/lib -o syntax syntax.o ../libonig.la
libtool: link: /usr/local/gcc/5.2.0-1/bin/gcc -fPIC -o .libs/syntax syntax.o -L/usr/local/libtool/2.4.6-1/lib -L/global/apps/bioinf/galaxy/bin/openldap-2.4.45/lib -L/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/lib -L/global/apps/bioinf/galaxy/bin/Python-2.7.13/lib -L/usr/local/readline/6.3-2/lib -L/usr/local/ncurses/5.9-1/lib -L/usr/local/openssl/1.0.2-1/usr/lib -L/usr/local/zlib/1.2.8-4/lib -L/usr/local/sqlite/3.15.1-1/lib -L/usr/local/libedit/20160903-3.1-1/lib -L/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/lib -L/usr/local/pcre/8.38-1/lib -L/usr/local/expat/2.1.1-1/lib -L/usr/local/curl/7.41.0-1/lib -L/usr/local/tcl/8.6.1-2/lib -L/usr/local/flex/2.6.0-1/lib -L/usr/local/bison/3.0.4-1/lib -L/usr/local/bzip2/1.0.6-3/lib ../.libs/libonig.so -Wl,-rpath -Wl,/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/lib
/usr/local/gcc/5.2.0-1/bin/gcc -DHAVE_CONFIG_H -I. -I.. -I.. -I/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include -I/usr/local/libtool/2.4.6-1/include -I/global/apps/bioinf/galaxy/bin/openldap-2.4.45/include -I/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/include/sasl -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include/python2.7 -I/global/apps/bioinf/galaxy/bin/Python-2.7.13/include -I/usr/local/readline/6.3-2/include -I/usr/local/ncurses/5.9-1/include/ncursesw -I/usr/local/ncurses/5.9-1/include -I/usr/local/openssl/1.0.2-1/usr/include -I/usr/local/zlib/1.2.8-4/include -I/usr/local/sqlite/3.15.1-1/include -I/usr/local/libedit/20160903-3.1-1/include -I/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/include -I/usr/local/pcre/8.38-1/include -I/usr/local/expat/2.1.1-1/include -I/usr/local/curl/7.41.0-1/include -I/usr/local/tcl/8.6.1-2/include -I/usr/local/flex/2.6.0-1/include -I/usr/local/bison/3.0.4-1/include -I/usr/local/bzip2/1.0.6-3/include -fPIC -MT crnl.o -MD -MP -MF .deps/crnl.Tpo -c -o crnl.o crnl.c
mv -f .deps/crnl.Tpo .deps/crnl.Po
/bin/sh ../libtool --tag=CC --mode=link /usr/local/gcc/5.2.0-1/bin/gcc -fPIC -L/usr/local/libtool/2.4.6-1/lib -L/global/apps/bioinf/galaxy/bin/openldap-2.4.45/lib -L/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/lib -L/global/apps/bioinf/galaxy/bin/Python-2.7.13/lib -L/usr/local/readline/6.3-2/lib -L/usr/local/ncurses/5.9-1/lib -L/usr/local/openssl/1.0.2-1/usr/lib -L/usr/local/zlib/1.2.8-4/lib -L/usr/local/sqlite/3.15.1-1/lib -L/usr/local/libedit/20160903-3.1-1/lib -L/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/lib -L/usr/local/pcre/8.38-1/lib -L/usr/local/expat/2.1.1-1/lib -L/usr/local/curl/7.41.0-1/lib -L/usr/local/tcl/8.6.1-2/lib -L/usr/local/flex/2.6.0-1/lib -L/usr/local/bison/3.0.4-1/lib -L/usr/local/bzip2/1.0.6-3/lib -o crnl crnl.o ../libonig.la
libtool: link: /usr/local/gcc/5.2.0-1/bin/gcc -fPIC -o .libs/crnl crnl.o -L/usr/local/libtool/2.4.6-1/lib -L/global/apps/bioinf/galaxy/bin/openldap-2.4.45/lib -L/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/lib -L/global/apps/bioinf/galaxy/bin/Python-2.7.13/lib -L/usr/local/readline/6.3-2/lib -L/usr/local/ncurses/5.9-1/lib -L/usr/local/openssl/1.0.2-1/usr/lib -L/usr/local/zlib/1.2.8-4/lib -L/usr/local/sqlite/3.15.1-1/lib -L/usr/local/libedit/20160903-3.1-1/lib -L/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/lib -L/usr/local/pcre/8.38-1/lib -L/usr/local/expat/2.1.1-1/lib -L/usr/local/curl/7.41.0-1/lib -L/usr/local/tcl/8.6.1-2/lib -L/usr/local/flex/2.6.0-1/lib -L/usr/local/bison/3.0.4-1/lib -L/usr/local/bzip2/1.0.6-3/lib ../.libs/libonig.so -Wl,-rpath -Wl,/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/lib
make[2]: Leaving directory `/tmp/pip-install-4BZXbj/jq/onig-5.9.6/sample'
make[1]: Leaving directory `/tmp/pip-install-4BZXbj/jq/onig-5.9.6'
Executing: make install
Making install in .
make[1]: Entering directory `/tmp/pip-install-4BZXbj/jq/onig-5.9.6'
make[2]: Entering directory `/tmp/pip-install-4BZXbj/jq/onig-5.9.6'
test -z "/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/bin" || /bin/mkdir -p "/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/bin"
/usr/bin/install -c onig-config '/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/bin'
test -z "/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/lib" || /bin/mkdir -p "/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/lib"
/bin/sh ./libtool --mode=install /usr/bin/install -c libonig.la '/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/lib'
libtool: install: /usr/bin/install -c .libs/libonig.so.2.0.0 /tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/lib/libonig.so.2.0.0
libtool: install: (cd /tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/lib && { ln -s -f libonig.so.2.0.0 libonig.so.2 || { rm -f libonig.so.2 && ln -s libonig.so.2.0.0 libonig.so.2; }; })
libtool: install: (cd /tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/lib && { ln -s -f libonig.so.2.0.0 libonig.so || { rm -f libonig.so && ln -s libonig.so.2.0.0 libonig.so; }; })
libtool: install: /usr/bin/install -c .libs/libonig.lai /tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/lib/libonig.la
libtool: install: /usr/bin/install -c .libs/libonig.a /tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/lib/libonig.a
libtool: install: chmod 644 /tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/lib/libonig.a
libtool: install: ranlib /tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/lib/libonig.a
libtool: finish: PATH="/usr/local/libtool/2.4.6-1/bin:/usr/local/gcc/5.2.0-1/bin:/usr/local/autoconf/2.69-2_CentOS6/bin:/gpfs1/data/galaxy_server/galaxy-dev/.venv/lib/node_modules/.bin:/gpfs1/data/galaxy_server/galaxy-dev/.venv/bin:/global/apps/bioinf/galaxy/bin/openldap-2.4.45/bin:/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/bin:/global/apps/bioinf/galaxy/bin/Python-2.7.13/bin:/usr/local/ncurses/5.9-1/bin:/usr/local/openssl/1.0.2-1/usr/bin:/usr/local/sqlite/3.15.1-1/bin:/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/bin:/usr/local/git/2.10.1-1/bin:/usr/local/pcre/8.38-1/bin:/usr/local/expat/2.1.1-1/bin:/usr/local/curl/7.41.0-1/bin:/usr/local/tcl/8.6.1-2/bin:/usr/local/flex/2.6.0-1/bin:/usr/local/bison/3.0.4-1/bin:/usr/local/grid-engine-tools/0.8.0-1/bin:/usr/local/jdk/jdk1.8.0_74/bin:/usr/local/uge/8.5.5-1/bin/lx-amd64:/usr/local/bin:/bin:/usr/bin:/usr/local/sbin:/usr/sbin:/sbin:/usr/lpp/mmfs/bin:/usr/local/bzip2/1.0.6-3/bin:/sbin" ldconfig -n /tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/lib
----------------------------------------------------------------------
Libraries have been installed in:
/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/lib
If you ever happen to want to link against installed libraries
in a given directory, LIBDIR, you must either use libtool, and
specify the full pathname of the library, or use the `-LLIBDIR'
flag during linking and do at least one of the following:
- add LIBDIR to the `LD_LIBRARY_PATH' environment variable
during execution
- add LIBDIR to the `LD_RUN_PATH' environment variable
during linking
- use the `-Wl,-rpath -Wl,LIBDIR' linker flag
- have your system administrator add LIBDIR to `/etc/ld.so.conf'
See any operating system documentation about shared libraries for
more information, such as the ld(1) and ld.so(8) manual pages.
----------------------------------------------------------------------
test -z "/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include" || /bin/mkdir -p "/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include"
/usr/bin/install -c -m 644 oniguruma.h oniggnu.h onigposix.h '/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include'
test -z "/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/lib/pkgconfig" || /bin/mkdir -p "/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/lib/pkgconfig"
/usr/bin/install -c -m 644 oniguruma.pc '/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/lib/pkgconfig'
make[2]: Leaving directory `/tmp/pip-install-4BZXbj/jq/onig-5.9.6'
make[1]: Leaving directory `/tmp/pip-install-4BZXbj/jq/onig-5.9.6'
Making install in sample
make[1]: Entering directory `/tmp/pip-install-4BZXbj/jq/onig-5.9.6/sample'
make[2]: Entering directory `/tmp/pip-install-4BZXbj/jq/onig-5.9.6/sample'
make[2]: Nothing to be done for `install-exec-am'.
make[2]: Nothing to be done for `install-data-am'.
make[2]: Leaving directory `/tmp/pip-install-4BZXbj/jq/onig-5.9.6/sample'
make[1]: Leaving directory `/tmp/pip-install-4BZXbj/jq/onig-5.9.6/sample'
Executing: autoreconf -i
configure.ac:14: warning: macro `AM_PROG_AR' not found in library
fatal: Not a git repository (or any of the parent directories): .git
fatal: Not a git repository (or any of the parent directories): .git
libtoolize: putting auxiliary files in AC_CONFIG_AUX_DIR, 'config'.
libtoolize: copying file 'config/ltmain.sh'
libtoolize: putting macros in AC_CONFIG_MACRO_DIRS, 'config/m4'.
libtoolize: copying file 'config/m4/libtool.m4'
libtoolize: copying file 'config/m4/ltoptions.m4'
libtoolize: copying file 'config/m4/ltversion.m4'
configure.ac:14: warning: macro `AM_PROG_AR' not found in library
fatal: Not a git repository (or any of the parent directories): .git
fatal: Not a git repository (or any of the parent directories): .git
configure.ac:14: error: possibly undefined macro: AM_PROG_AR
If this token and others are legitimate, please use m4_pattern_allow.
See the Autoconf documentation.
autoreconf: /usr/local/autoconf/2.69-2_CentOS6/bin/autoconf failed with exit status: 1
Traceback (most recent call last):
File "<string>", line 1, in <module>
File "/tmp/pip-install-4BZXbj/jq/setup.py", line 123, in <module>
'Programming Language :: Python :: 3.5',
File "/gpfs1/data/galaxy_server/galaxy-dev/.venv/lib/python2.7/site-packages/setuptools/__init__.py", line 129, in setup
return distutils.core.setup(**attrs)
File "/global/apps/bioinf/galaxy/bin/Python-2.7.13/lib/python2.7/distutils/core.py", line 151, in setup
dist.run_commands()
File "/global/apps/bioinf/galaxy/bin/Python-2.7.13/lib/python2.7/distutils/dist.py", line 953, in run_commands
self.run_command(cmd)
File "/global/apps/bioinf/galaxy/bin/Python-2.7.13/lib/python2.7/distutils/dist.py", line 972, in run_command
cmd_obj.run()
File "/gpfs1/data/galaxy_server/galaxy-dev/.venv/lib/python2.7/site-packages/wheel/bdist_wheel.py", line 204, in run
self.run_command('build')
File "/global/apps/bioinf/galaxy/bin/Python-2.7.13/lib/python2.7/distutils/cmd.py", line 326, in run_command
self.distribution.run_command(command)
File "/global/apps/bioinf/galaxy/bin/Python-2.7.13/lib/python2.7/distutils/dist.py", line 972, in run_command
cmd_obj.run()
File "/global/apps/bioinf/galaxy/bin/Python-2.7.13/lib/python2.7/distutils/command/build.py", line 127, in run
self.run_command(cmd_name)
File "/global/apps/bioinf/galaxy/bin/Python-2.7.13/lib/python2.7/distutils/cmd.py", line 326, in run_command
self.distribution.run_command(command)
File "/global/apps/bioinf/galaxy/bin/Python-2.7.13/lib/python2.7/distutils/dist.py", line 972, in run_command
cmd_obj.run()
File "/tmp/pip-install-4BZXbj/jq/setup.py", line 41, in run
self._build_libjq()
File "/tmp/pip-install-4BZXbj/jq/setup.py", line 64, in _build_libjq
["make"],
File "/tmp/pip-install-4BZXbj/jq/setup.py", line 79, in _build_lib
run_command(command)
File "/tmp/pip-install-4BZXbj/jq/setup.py", line 76, in run_command
subprocess.check_call(args, cwd=lib_dir)
File "/global/apps/bioinf/galaxy/bin/Python-2.7.13/lib/python2.7/subprocess.py", line 186, in check_call
raise CalledProcessError(retcode, cmd)
subprocess.CalledProcessError: Command '['autoreconf', '-i']' returned non-zero exit status 1
----------------------------------------
Failed building wheel for jq
Running setup.py clean for jq
Failed to build jq
Installing collected packages: jq
Running setup.py install for jq ... error
Complete output from command /gpfs1/data/galaxy_server/galaxy-dev/.venv/bin/python -u -c "import setuptools, tokenize;__file__='/tmp/pip-install-4BZXbj/jq/setup.py';f=getattr(tokenize, 'open', open)(__file__);code=f.read().replace('\r\n', '\n');f.close();exec(compile(code, __file__, 'exec'))" install --record /tmp/pip-record-Ei_g_y/install-record.txt --single-version-externally-managed --compile --install-headers /gpfs1/data/galaxy_server/galaxy-dev/.venv/include/site/python2.7/jq:
running install
running build
running build_ext
Executing: ./configure CFLAGS=-fPIC --prefix=/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6
checking for a BSD-compatible install... /usr/bin/install -c
checking whether build environment is sane... yes
checking for a thread-safe mkdir -p... /bin/mkdir -p
checking for gawk... gawk
checking whether make sets $(MAKE)... yes
checking for gcc... /usr/local/gcc/5.2.0-1/bin/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 /usr/local/gcc/5.2.0-1/bin/gcc accepts -g... yes
checking for /usr/local/gcc/5.2.0-1/bin/gcc option to accept ISO C89... none needed
checking for style of include used by make... GNU
checking dependency style of /usr/local/gcc/5.2.0-1/bin/gcc... gcc3
checking build system type... x86_64-unknown-linux-gnu
checking host system type... x86_64-unknown-linux-gnu
checking how to print strings... printf
checking for a sed that does not truncate output... /bin/sed
checking for grep that handles long lines and -e... /bin/grep
checking for egrep... /bin/grep -E
checking for fgrep... /bin/grep -F
checking for ld used by /usr/local/gcc/5.2.0-1/bin/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... 3458764513820540925
checking whether the shell understands some XSI constructs... yes
checking whether the shell understands "+="... yes
checking how to convert x86_64-unknown-linux-gnu file names to x86_64-unknown-linux-gnu format... func_convert_file_noop
checking how to convert x86_64-unknown-linux-gnu file names to toolchain format... func_convert_file_noop
checking for /usr/bin/ld option to reload object files... -r
checking for objdump... objdump
checking how to recognize dependent libraries... pass_all
checking for dlltool... no
checking how to associate runtime and link libraries... printf %s\n
checking for ar... ar
checking for archiver @FILE support... @
checking for strip... strip
checking for ranlib... ranlib
checking command to parse /usr/bin/nm -B output from /usr/local/gcc/5.2.0-1/bin/gcc object... ok
checking for sysroot... no
checking for mt... no
checking if : is a manifest tool... no
checking how to run the C preprocessor... /usr/local/gcc/5.2.0-1/bin/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 /usr/local/gcc/5.2.0-1/bin/gcc supports -fno-rtti -fno-exceptions... no
checking for /usr/local/gcc/5.2.0-1/bin/gcc option to produce PIC... -fPIC -DPIC
checking if /usr/local/gcc/5.2.0-1/bin/gcc PIC flag -fPIC -DPIC works... yes
checking if /usr/local/gcc/5.2.0-1/bin/gcc static flag -static works... no
checking if /usr/local/gcc/5.2.0-1/bin/gcc supports -c -o file.o... yes
checking if /usr/local/gcc/5.2.0-1/bin/gcc supports -c -o file.o... (cached) yes
checking whether the /usr/local/gcc/5.2.0-1/bin/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 whether make sets $(MAKE)... (cached) yes
checking for ANSI C header files... (cached) yes
checking for stdlib.h... (cached) yes
checking for string.h... (cached) yes
checking for strings.h... (cached) yes
checking sys/time.h usability... yes
checking sys/time.h presence... yes
checking for sys/time.h... yes
checking for unistd.h... (cached) yes
checking sys/times.h usability... yes
checking sys/times.h presence... yes
checking for sys/times.h... yes
checking size of int... 4
checking size of short... 2
checking size of long... 8
checking for an ANSI C-conforming const... yes
checking whether time.h and sys/time.h may both be included... yes
checking for size_t... yes
checking for working alloca.h... yes
checking for alloca... yes
checking for working memcmp... yes
checking for prototypes... yes
checking for variable length prototypes and stdarg.h... yes
configure: creating ./config.status
config.status: creating Makefile
config.status: creating onig-config
config.status: creating sample/Makefile
config.status: creating config.h
config.status: config.h is unchanged
config.status: executing depfiles commands
config.status: executing libtool commands
config.status: executing default commands
Executing: make
make all-recursive
make[1]: Entering directory `/tmp/pip-install-4BZXbj/jq/onig-5.9.6'
Making all in .
make[2]: Entering directory `/tmp/pip-install-4BZXbj/jq/onig-5.9.6'
sed -e 's,[@]datadir[@],/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/share,g' -e 's,[@]datarootdir[@],/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/share,g' -e 's,[@]PACKAGE_VERSION[@],5.9.6,g' -e 's,[@]prefix[@],/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6,g' -e 's,[@]exec_prefix[@],/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6,g' -e 's,[@]libdir[@],/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/lib,g' -e 's,[@]includedir[@],/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include,g' < oniguruma.pc.in > oniguruma.pc
make[2]: Leaving directory `/tmp/pip-install-4BZXbj/jq/onig-5.9.6'
Making all in sample
make[2]: Entering directory `/tmp/pip-install-4BZXbj/jq/onig-5.9.6/sample'
make[2]: Nothing to be done for `all'.
make[2]: Leaving directory `/tmp/pip-install-4BZXbj/jq/onig-5.9.6/sample'
make[1]: Leaving directory `/tmp/pip-install-4BZXbj/jq/onig-5.9.6'
Executing: make install
Making install in .
make[1]: Entering directory `/tmp/pip-install-4BZXbj/jq/onig-5.9.6'
make[2]: Entering directory `/tmp/pip-install-4BZXbj/jq/onig-5.9.6'
test -z "/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/bin" || /bin/mkdir -p "/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/bin"
/usr/bin/install -c onig-config '/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/bin'
test -z "/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/lib" || /bin/mkdir -p "/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/lib"
/bin/sh ./libtool --mode=install /usr/bin/install -c libonig.la '/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/lib'
libtool: install: /usr/bin/install -c .libs/libonig.so.2.0.0 /tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/lib/libonig.so.2.0.0
libtool: install: (cd /tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/lib && { ln -s -f libonig.so.2.0.0 libonig.so.2 || { rm -f libonig.so.2 && ln -s libonig.so.2.0.0 libonig.so.2; }; })
libtool: install: (cd /tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/lib && { ln -s -f libonig.so.2.0.0 libonig.so || { rm -f libonig.so && ln -s libonig.so.2.0.0 libonig.so; }; })
libtool: install: /usr/bin/install -c .libs/libonig.lai /tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/lib/libonig.la
libtool: install: /usr/bin/install -c .libs/libonig.a /tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/lib/libonig.a
libtool: install: chmod 644 /tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/lib/libonig.a
libtool: install: ranlib /tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/lib/libonig.a
libtool: finish: PATH="/usr/local/libtool/2.4.6-1/bin:/usr/local/gcc/5.2.0-1/bin:/usr/local/autoconf/2.69-2_CentOS6/bin:/gpfs1/data/galaxy_server/galaxy-dev/.venv/lib/node_modules/.bin:/gpfs1/data/galaxy_server/galaxy-dev/.venv/bin:/global/apps/bioinf/galaxy/bin/openldap-2.4.45/bin:/global/apps/bioinf/galaxy/bin/cyrus-sasl-2.1.25/bin:/global/apps/bioinf/galaxy/bin/Python-2.7.13/bin:/usr/local/ncurses/5.9-1/bin:/usr/local/openssl/1.0.2-1/usr/bin:/usr/local/sqlite/3.15.1-1/bin:/global/apps/bioinf/galaxy/bin/postgresql-9.6.2/bin:/usr/local/git/2.10.1-1/bin:/usr/local/pcre/8.38-1/bin:/usr/local/expat/2.1.1-1/bin:/usr/local/curl/7.41.0-1/bin:/usr/local/tcl/8.6.1-2/bin:/usr/local/flex/2.6.0-1/bin:/usr/local/bison/3.0.4-1/bin:/usr/local/grid-engine-tools/0.8.0-1/bin:/usr/local/jdk/jdk1.8.0_74/bin:/usr/local/uge/8.5.5-1/bin/lx-amd64:/usr/local/bin:/bin:/usr/bin:/usr/local/sbin:/usr/sbin:/sbin:/usr/lpp/mmfs/bin:/usr/local/bzip2/1.0.6-3/bin:/sbin" ldconfig -n /tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/lib
----------------------------------------------------------------------
Libraries have been installed in:
/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/lib
If you ever happen to want to link against installed libraries
in a given directory, LIBDIR, you must either use libtool, and
specify the full pathname of the library, or use the `-LLIBDIR'
flag during linking and do at least one of the following:
- add LIBDIR to the `LD_LIBRARY_PATH' environment variable
during execution
- add LIBDIR to the `LD_RUN_PATH' environment variable
during linking
- use the `-Wl,-rpath -Wl,LIBDIR' linker flag
- have your system administrator add LIBDIR to `/etc/ld.so.conf'
See any operating system documentation about shared libraries for
more information, such as the ld(1) and ld.so(8) manual pages.
----------------------------------------------------------------------
test -z "/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include" || /bin/mkdir -p "/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include"
/usr/bin/install -c -m 644 oniguruma.h oniggnu.h onigposix.h '/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/include'
test -z "/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/lib/pkgconfig" || /bin/mkdir -p "/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/lib/pkgconfig"
/usr/bin/install -c -m 644 oniguruma.pc '/tmp/pip-install-4BZXbj/jq/onig-install-5.9.6/lib/pkgconfig'
make[2]: Leaving directory `/tmp/pip-install-4BZXbj/jq/onig-5.9.6'
make[1]: Leaving directory `/tmp/pip-install-4BZXbj/jq/onig-5.9.6'
Making install in sample
make[1]: Entering directory `/tmp/pip-install-4BZXbj/jq/onig-5.9.6/sample'
make[2]: Entering directory `/tmp/pip-install-4BZXbj/jq/onig-5.9.6/sample'
make[2]: Nothing to be done for `install-exec-am'.
make[2]: Nothing to be done for `install-data-am'.
make[2]: Leaving directory `/tmp/pip-install-4BZXbj/jq/onig-5.9.6/sample'
make[1]: Leaving directory `/tmp/pip-install-4BZXbj/jq/onig-5.9.6/sample'
Executing: autoreconf -i
configure.ac:14: warning: macro `AM_PROG_AR' not found in library
fatal: Not a git repository (or any of the parent directories): .git
fatal: Not a git repository (or any of the parent directories): .git
libtoolize: putting auxiliary files in AC_CONFIG_AUX_DIR, 'config'.
libtoolize: copying file 'config/ltmain.sh'
libtoolize: putting macros in AC_CONFIG_MACRO_DIRS, 'config/m4'.
libtoolize: copying file 'config/m4/libtool.m4'
libtoolize: copying file 'config/m4/ltoptions.m4'
libtoolize: copying file 'config/m4/ltversion.m4'
configure.ac:14: warning: macro `AM_PROG_AR' not found in library
fatal: Not a git repository (or any of the parent directories): .git
fatal: Not a git repository (or any of the parent directories): .git
configure.ac:14: error: possibly undefined macro: AM_PROG_AR
If this token and others are legitimate, please use m4_pattern_allow.
See the Autoconf documentation.
autoreconf: /usr/local/autoconf/2.69-2_CentOS6/bin/autoconf failed with exit status: 1
Traceback (most recent call last):
File "<string>", line 1, in <module>
File "/tmp/pip-install-4BZXbj/jq/setup.py", line 123, in <module>
'Programming Language :: Python :: 3.5',
File "/gpfs1/data/galaxy_server/galaxy-dev/.venv/lib/python2.7/site-packages/setuptools/__init__.py", line 129, in setup
return distutils.core.setup(**attrs)
File "/global/apps/bioinf/galaxy/bin/Python-2.7.13/lib/python2.7/distutils/core.py", line 151, in setup
dist.run_commands()
File "/global/apps/bioinf/galaxy/bin/Python-2.7.13/lib/python2.7/distutils/dist.py", line 953, in run_commands
self.run_command(cmd)
File "/global/apps/bioinf/galaxy/bin/Python-2.7.13/lib/python2.7/distutils/dist.py", line 972, in run_command
cmd_obj.run()
File "/gpfs1/data/galaxy_server/galaxy-dev/.venv/lib/python2.7/site-packages/setuptools/command/install.py", line 61, in run
return orig.install.run(self)
File "/global/apps/bioinf/galaxy/bin/Python-2.7.13/lib/python2.7/distutils/command/install.py", line 563, in run
self.run_command('build')
File "/global/apps/bioinf/galaxy/bin/Python-2.7.13/lib/python2.7/distutils/cmd.py", line 326, in run_command
self.distribution.run_command(command)
File "/global/apps/bioinf/galaxy/bin/Python-2.7.13/lib/python2.7/distutils/dist.py", line 972, in run_command
cmd_obj.run()
File "/global/apps/bioinf/galaxy/bin/Python-2.7.13/lib/python2.7/distutils/command/build.py", line 127, in run
self.run_command(cmd_name)
File "/global/apps/bioinf/galaxy/bin/Python-2.7.13/lib/python2.7/distutils/cmd.py", line 326, in run_command
self.distribution.run_command(command)
File "/global/apps/bioinf/galaxy/bin/Python-2.7.13/lib/python2.7/distutils/dist.py", line 972, in run_command
cmd_obj.run()
File "/tmp/pip-install-4BZXbj/jq/setup.py", line 41, in run
self._build_libjq()
File "/tmp/pip-install-4BZXbj/jq/setup.py", line 64, in _build_libjq
["make"],
File "/tmp/pip-install-4BZXbj/jq/setup.py", line 79, in _build_lib
run_command(command)
File "/tmp/pip-install-4BZXbj/jq/setup.py", line 76, in run_command
subprocess.check_call(args, cwd=lib_dir)
File "/global/apps/bioinf/galaxy/bin/Python-2.7.13/lib/python2.7/subprocess.py", line 186, in check_call
raise CalledProcessError(retcode, cmd)
subprocess.CalledProcessError: Command '['autoreconf', '-i']' returned non-zero exit status 1
----------------------------------------
Command "/gpfs1/data/galaxy_server/galaxy-dev/.venv/bin/python -u -c "import setuptools, tokenize;__file__='/tmp/pip-install-4BZXbj/jq/setup.py';f=getattr(tokenize, 'open', open)(__file__);code=f.read().replace('\r\n', '\n');f.close();exec(compile(code, __file__, 'exec'))" install --record /tmp/pip-record-Ei_g_y/install-record.txt --single-version-externally-managed --compile --install-headers /gpfs1/data/galaxy_server/galaxy-dev/.venv/include/site/python2.7/jq" failed with error code 1 in /tmp/pip-install-4BZXbj/jq/
Issue Analytics
- State:
- Created 5 years ago
- Comments:7 (3 by maintainers)
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Sorry to comment on a closed issue, but I have run into this problem as well on CentOS 7 and think I found the source (and the solution) in case others encounter this problem. The symptom I have is the same as the original reporter -
autoreconf -ifails as reported bysubprocess.check_call()when trying to build from source using pip.The issue I found is jq 1.6 seems to require automake 1.14 or later and the default for CentOS 7 (and likely others) is 1.13.4 (or older). I found this by doing
pip wheel --no-clean --global-option build_ext jq==1.0.2and then cd’ing to the build directory created by pip, going into _deps and simply tryingautoreconf -iin both jq-* and onig-* directories to see what happened. The error printed when in _deps/jq-1.6 wasInstalling automake 1.14 fixes the problem for me - I can do
pip wheel --global-option build_ext jq==1.0.2with no problems for both py37 and py36 (only two I tested).It may be worth pointing out in README.rst that automake >=1.14 is required in order to build from source.
Cool. Thanks a lot.