--2019-05-29 09:41:02--  https://repo.continuum.io/miniconda/Miniconda2-4.5.12-Linux-x86_64.sh
Loaded CA certificate '/etc/ssl/certs/ca-certificates.crt'
Resolving repo.continuum.io (repo.continuum.io)... 104.18.201.79, 104.18.200.79, 2606:4700::6812:c84f, ...
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Saving to: ‘miniconda.sh’

miniconda.sh                       100%[================================================================>]  42.78M  11.3MB/s    in 3.8s    

2019-05-29 09:41:06 (11.1 MB/s) - ‘miniconda.sh’ saved [44861818/44861818]

Python 2.7.15 :: Anaconda, Inc.
nomkl-3.0            | 48 KB     | ################################################################################################# | 100% 
ca-certificates-2019 | 126 KB    | ################################################################################################# | 100% 
openssl-1.1.1b       | 4.0 MB    | ################################################################################################# | 100% 
conda-4.6.14         | 2.1 MB    | ################################################################################################# | 100% 
certifi-2019.3.9     | 155 KB    | ################################################################################################# | 100% 
blas-1.0             | 48 KB     | ################################################################################################# | 100% 
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.
  ERROR: Complete output from command /opt/amber19/amber18/miniconda/bin/python -u -c 'import setuptools, tokenize;__file__='"'"'/tmp/pip-install-MZs_qe/subprocess32/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-p0WXVh --python-tag cp27:
  ERROR: running bdist_wheel
  running build
  running build_py
  creating build
  creating build/lib.linux-x86_64-2.7
  copying subprocess32.py -> build/lib.linux-x86_64-2.7
  running build_ext
  running build_configure
  checking for gcc... gcc
  checking whether the C compiler works... yes
  checking for C compiler default output file name... a.out
  checking for suffix of executables...
  checking whether we are cross compiling... no
  checking for suffix of object files... o
  checking whether we are using the GNU C compiler... yes
  checking whether gcc accepts -g... yes
  checking for gcc option to accept ISO C89... none needed
  checking how to run the C preprocessor... gcc -E
  checking for grep that handles long lines and -e... /bin/grep
  checking for egrep... /bin/grep -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 unistd.h... (cached) yes
  checking fcntl.h usability... yes
  checking fcntl.h presence... yes
  checking for fcntl.h... yes
  checking signal.h usability... yes
  checking signal.h presence... yes
  checking for signal.h... yes
  checking sys/cdefs.h usability... yes
  checking sys/cdefs.h presence... yes
  checking for sys/cdefs.h... yes
  checking for sys/types.h... (cached) yes
  checking for sys/stat.h... (cached) yes
  checking sys/syscall.h usability... yes
  checking sys/syscall.h presence... yes
  checking for sys/syscall.h... yes
  checking for dirent.h that defines DIR... yes
  checking for library containing opendir... none required
  checking for pipe2... yes
  checking for setsid... yes
  checking whether dirfd is declared... yes
  configure: creating ./config.status
  config.status: creating _posixsubprocess_config.h
  building '_posixsubprocess32' extension
  creating build/temp.linux-x86_64-2.7
  gcc -pthread -B /opt/amber19/amber18/miniconda/compiler_compat -Wl,--sysroot=/ -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC -I/opt/amber19/amber18/miniconda/include/python2.7 -c _posixsubprocess.c -o build/temp.linux-x86_64-2.7/_posixsubprocess.o
  In file included from /opt/amber19/amber18/miniconda/include/python2.7/Python.h:8,
                   from _posixsubprocess.c:16:
  /opt/amber19/amber18/miniconda/include/python2.7/pyconfig.h:1223: warning: "_POSIX_C_SOURCE" redefined
   #define _POSIX_C_SOURCE 200112L
  
  In file included from /usr/include/sys/cdefs.h:23,
                   from _posixsubprocess.c:12:
  /usr/include/features.h:266: note: this is the location of the previous definition
   # define _POSIX_C_SOURCE 200809L
  
  In file included from /opt/amber19/amber18/miniconda/include/python2.7/Python.h:8,
                   from _posixsubprocess.c:16:
  /opt/amber19/amber18/miniconda/include/python2.7/pyconfig.h:1245: warning: "_XOPEN_SOURCE" redefined
   #define _XOPEN_SOURCE 600
  
  In file included from /usr/include/sys/cdefs.h:23,
                   from _posixsubprocess.c:12:
  /usr/include/features.h:203: note: this is the location of the previous definition
   # define _XOPEN_SOURCE 700
  
  gcc -pthread -shared -B /opt/amber19/amber18/miniconda/compiler_compat -L/opt/amber19/amber18/miniconda/lib -Wl,-rpath=/opt/amber19/amber18/miniconda/lib -Wl,--no-as-needed -Wl,--sysroot=/ build/temp.linux-x86_64-2.7/_posixsubprocess.o -L/opt/amber19/amber18/miniconda/lib -lpython2.7 -o build/lib.linux-x86_64-2.7/_posixsubprocess32.so
  /opt/amber19/amber18/miniconda/compiler_compat/ld: build/temp.linux-x86_64-2.7/_posixsubprocess.o: unable to initialize decompress status for section .debug_info
  /opt/amber19/amber18/miniconda/compiler_compat/ld: build/temp.linux-x86_64-2.7/_posixsubprocess.o: unable to initialize decompress status for section .debug_info
  /opt/amber19/amber18/miniconda/compiler_compat/ld: build/temp.linux-x86_64-2.7/_posixsubprocess.o: unable to initialize decompress status for section .debug_info
  /opt/amber19/amber18/miniconda/compiler_compat/ld: build/temp.linux-x86_64-2.7/_posixsubprocess.o: unable to initialize decompress status for section .debug_info
  build/temp.linux-x86_64-2.7/_posixsubprocess.o: file not recognized: file format not recognized
  collect2: error: ld returned 1 exit status
  error: command 'gcc' failed with exit status 1
  ----------------------------------------
  ERROR: Failed building wheel for subprocess32
    ERROR: Complete output from command /opt/amber19/amber18/miniconda/bin/python -u -c 'import setuptools, tokenize;__file__='"'"'/tmp/pip-install-MZs_qe/subprocess32/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-ISr5Ao/install-record.txt --single-version-externally-managed --compile:
    ERROR: running install
    running build
    running build_py
    creating build
    creating build/lib.linux-x86_64-2.7
    copying subprocess32.py -> build/lib.linux-x86_64-2.7
    running build_ext
    running build_configure
     _posixsubprocess_config.h is already up to date.
    building '_posixsubprocess32' extension
    creating build/temp.linux-x86_64-2.7
    gcc -pthread -B /opt/amber19/amber18/miniconda/compiler_compat -Wl,--sysroot=/ -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC -I/opt/amber19/amber18/miniconda/include/python2.7 -c _posixsubprocess.c -o build/temp.linux-x86_64-2.7/_posixsubprocess.o
    In file included from /opt/amber19/amber18/miniconda/include/python2.7/Python.h:8,
                     from _posixsubprocess.c:16:
    /opt/amber19/amber18/miniconda/include/python2.7/pyconfig.h:1223: warning: "_POSIX_C_SOURCE" redefined
     #define _POSIX_C_SOURCE 200112L
    
    In file included from /usr/include/sys/cdefs.h:23,
                     from _posixsubprocess.c:12:
    /usr/include/features.h:266: note: this is the location of the previous definition
     # define _POSIX_C_SOURCE 200809L
    
    In file included from /opt/amber19/amber18/miniconda/include/python2.7/Python.h:8,
                     from _posixsubprocess.c:16:
    /opt/amber19/amber18/miniconda/include/python2.7/pyconfig.h:1245: warning: "_XOPEN_SOURCE" redefined
     #define _XOPEN_SOURCE 600
    
    In file included from /usr/include/sys/cdefs.h:23,
                     from _posixsubprocess.c:12:
    /usr/include/features.h:203: note: this is the location of the previous definition
     # define _XOPEN_SOURCE 700
    
    gcc -pthread -shared -B /opt/amber19/amber18/miniconda/compiler_compat -L/opt/amber19/amber18/miniconda/lib -Wl,-rpath=/opt/amber19/amber18/miniconda/lib -Wl,--no-as-needed -Wl,--sysroot=/ build/temp.linux-x86_64-2.7/_posixsubprocess.o -L/opt/amber19/amber18/miniconda/lib -lpython2.7 -o build/lib.linux-x86_64-2.7/_posixsubprocess32.so
    /opt/amber19/amber18/miniconda/compiler_compat/ld: build/temp.linux-x86_64-2.7/_posixsubprocess.o: unable to initialize decompress status for section .debug_info
    /opt/amber19/amber18/miniconda/compiler_compat/ld: build/temp.linux-x86_64-2.7/_posixsubprocess.o: unable to initialize decompress status for section .debug_info
    /opt/amber19/amber18/miniconda/compiler_compat/ld: build/temp.linux-x86_64-2.7/_posixsubprocess.o: unable to initialize decompress status for section .debug_info
    /opt/amber19/amber18/miniconda/compiler_compat/ld: build/temp.linux-x86_64-2.7/_posixsubprocess.o: unable to initialize decompress status for section .debug_info
    build/temp.linux-x86_64-2.7/_posixsubprocess.o: file not recognized: file format not recognized
    collect2: error: ld returned 1 exit status
    error: command 'gcc' failed with exit status 1
    ----------------------------------------
ERROR: Command "/opt/amber19/amber18/miniconda/bin/python -u -c 'import setuptools, tokenize;__file__='"'"'/tmp/pip-install-MZs_qe/subprocess32/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-ISr5Ao/install-record.txt --single-version-externally-managed --compile" failed with error code 1 in /tmp/pip-install-MZs_qe/subprocess32/
