I'm running into an problem that after building 7.5.beta1 or 7.5.beta2,
building a branch based on 7.4.beta5 fails for two packages: cysignals-1.1.1
and mistune-0.7.3. The only way I've found around it so far is to run make
dist-clean && make but that takes more time than should be necessary.
Is this an error others have encountered? Is there a faster way to get past
it? Logs attached for these two packages.
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Found local metadata for cysignals-1.1.1
Using cached file
/Users/Masson/Downloads/GitHub/sage/upstream/cysignals-1.1.1.tar.bz2
cysignals-1.1.1
====================================================
Setting up build directory for cysignals-1.1.1
Finished extraction
****************************************************
Host system:
Darwin MacBook-Retina.local 15.6.0 Darwin Kernel Version 15.6.0: Thu Sep 1
15:01:16 PDT 2016; root:xnu-3248.60.11~2/RELEASE_X86_64 x86_64
****************************************************
C compiler: gcc
C compiler version:
Using built-in specs.
COLLECT_GCC=gcc
COLLECT_LTO_WRAPPER=/Users/Masson/Downloads/GitHub/sage/local/libexec/gcc/x86_64-apple-darwin15.6.0/4.9.3/lto-wrapper
Target: x86_64-apple-darwin15.6.0
Configured with: ../src/configure
--prefix=/Users/Masson/Downloads/GitHub/sage/local
--with-local-prefix=/Users/Masson/Downloads/GitHub/sage/local
--with-gmp=/Users/Masson/Downloads/GitHub/sage/local
--with-mpfr=/Users/Masson/Downloads/GitHub/sage/local
--with-mpc=/Users/Masson/Downloads/GitHub/sage/local --with-system-zlib
--disable-multilib --disable-nls --enable-languages=c,c++,fortran
--disable-libitm --with-build-config=bootstrap-debug --without-isl
--without-cloog
Thread model: posix
gcc version 4.9.3 (GCC)
****************************************************
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 for library containing pari_init... -lpari
checking how to run the C preprocessor... cpp
checking for grep that handles long lines and -e... /usr/bin/grep
checking for egrep... /usr/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 execinfo.h usability... yes
checking execinfo.h presence... yes
checking for execinfo.h... yes
checking sys/prctl.h usability... no
checking sys/prctl.h presence... no
checking for sys/prctl.h... no
checking for backtrace... yes
checking whether PARI_SIGINT_block is declared... yes
checking for emms instruction... yes
configure: creating ./config.status
config.status: creating build/src/config.h
config.status: executing build/src/config.pxd commands
python setup.py build
generating build/src/cysignals/__init__.pxd
Compiling src/cysignals/signals.pyx because it changed.
Compiling src/cysignals/alarm.pyx because it changed.
Compiling src/cysignals/tests.pyx because it changed.
[1/3] Cythonizing src/cysignals/alarm.pyx
[2/3] Cythonizing src/cysignals/signals.pyx
[3/3] Cythonizing src/cysignals/tests.pyx
running build
running build_py
creating build/lib.macosx-10.9-x86_64-2.7
creating build/lib.macosx-10.9-x86_64-2.7/cysignals
copying src/cysignals/__init__.py -> build/lib.macosx-10.9-x86_64-2.7/cysignals
copying src/cysignals/memory.pxi -> build/lib.macosx-10.9-x86_64-2.7/cysignals
copying src/cysignals/signals.pxi -> build/lib.macosx-10.9-x86_64-2.7/cysignals
copying src/cysignals/memory.pxd -> build/lib.macosx-10.9-x86_64-2.7/cysignals
copying src/cysignals/signals.pxd -> build/lib.macosx-10.9-x86_64-2.7/cysignals
copying src/cysignals/debug.h -> build/lib.macosx-10.9-x86_64-2.7/cysignals
copying src/cysignals/macros.h -> build/lib.macosx-10.9-x86_64-2.7/cysignals
copying src/cysignals/pxi.h -> build/lib.macosx-10.9-x86_64-2.7/cysignals
copying src/cysignals/struct_signals.h ->
build/lib.macosx-10.9-x86_64-2.7/cysignals
copying build/src/cysignals/__init__.pxd ->
build/lib.macosx-10.9-x86_64-2.7/cysignals
copying build/src/cysignals/signals.h ->
build/lib.macosx-10.9-x86_64-2.7/cysignals
copying build/src/cysignals/signals_api.h ->
build/lib.macosx-10.9-x86_64-2.7/cysignals
running build_ext
building 'cysignals.signals' extension
creating build/temp.macosx-10.9-x86_64-2.7
creating build/temp.macosx-10.9-x86_64-2.7/build
creating build/temp.macosx-10.9-x86_64-2.7/build/src
creating build/temp.macosx-10.9-x86_64-2.7/build/src/cysignals
gcc -fno-strict-aliasing
-I/Users/Masson/Downloads/GitHub/sage/local/var/tmp/sage/build/python2-2.7.10.p2/include
-DNDEBUG -g -fwrapv -O3 -Wall -Wno-unused -Isrc/cysignals -Ibuild/src
-Ibuild/src/cysignals
-I/Users/Masson/Downloads/GitHub/sage/local/include/python2.7 -c
build/src/cysignals/signals.c -o
build/temp.macosx-10.9-x86_64-2.7/build/src/cysignals/signals.o
gcc -bundle -undefined dynamic_lookup
-L/Users/Masson/Downloads/GitHub/sage/local/lib
-Wl,-rpath,/Users/Masson/Downloads/GitHub/sage/local/lib
-L/Users/Masson/Downloads/GitHub/sage/local/lib
-Wl,-rpath,/Users/Masson/Downloads/GitHub/sage/local/lib
build/temp.macosx-10.9-x86_64-2.7/build/src/cysignals/signals.o
-L/Users/Masson/Downloads/GitHub/sage/local/lib -o
build/lib.macosx-10.9-x86_64-2.7/cysignals/signals.so -lpari -Ddummy
building 'cysignals.alarm' extension
gcc -fno-strict-aliasing
-I/Users/Masson/Downloads/GitHub/sage/local/var/tmp/sage/build/python2-2.7.10.p2/include
-DNDEBUG -g -fwrapv -O3 -Wall -Wno-unused -Isrc/cysignals -Ibuild/src
-Ibuild/src/cysignals
-I/Users/Masson/Downloads/GitHub/sage/local/include/python2.7 -c
build/src/cysignals/alarm.c -o
build/temp.macosx-10.9-x86_64-2.7/build/src/cysignals/alarm.o
gcc -bundle -undefined dynamic_lookup
-L/Users/Masson/Downloads/GitHub/sage/local/lib
-Wl,-rpath,/Users/Masson/Downloads/GitHub/sage/local/lib
-L/Users/Masson/Downloads/GitHub/sage/local/lib
-Wl,-rpath,/Users/Masson/Downloads/GitHub/sage/local/lib
build/temp.macosx-10.9-x86_64-2.7/build/src/cysignals/alarm.o
-L/Users/Masson/Downloads/GitHub/sage/local/lib -o
build/lib.macosx-10.9-x86_64-2.7/cysignals/alarm.so
building 'cysignals.tests' extension
gcc -fno-strict-aliasing
-I/Users/Masson/Downloads/GitHub/sage/local/var/tmp/sage/build/python2-2.7.10.p2/include
-DNDEBUG -g -fwrapv -O3 -Wall -Wno-unused -Isrc/cysignals -Ibuild/src
-Ibuild/src/cysignals
-I/Users/Masson/Downloads/GitHub/sage/local/include/python2.7 -c
build/src/cysignals/tests.c -o
build/temp.macosx-10.9-x86_64-2.7/build/src/cysignals/tests.o
gcc -bundle -undefined dynamic_lookup
-L/Users/Masson/Downloads/GitHub/sage/local/lib
-Wl,-rpath,/Users/Masson/Downloads/GitHub/sage/local/lib
-L/Users/Masson/Downloads/GitHub/sage/local/lib
-Wl,-rpath,/Users/Masson/Downloads/GitHub/sage/local/lib
build/temp.macosx-10.9-x86_64-2.7/build/src/cysignals/tests.o
-L/Users/Masson/Downloads/GitHub/sage/local/lib -o
build/lib.macosx-10.9-x86_64-2.7/cysignals/tests.so -lpari -Ddummy
running build_scripts
creating build/scripts-2.7
copying and adjusting src/scripts/cysignals-CSI -> build/scripts-2.7
copying src/scripts/cysignals-CSI-helper.py -> build/scripts-2.7
changing mode of build/scripts-2.7/cysignals-CSI from 644 to 755
changing mode of build/scripts-2.7/cysignals-CSI-helper.py from 644 to 755
python setup.py install
running install
running build
running build_py
running build_ext
running build_scripts
running install_lib
creating
/Users/Masson/Downloads/GitHub/sage/local/lib/python2.7/site-packages/cysignals
copying build/lib.macosx-10.9-x86_64-2.7/cysignals/__init__.pxd ->
/Users/Masson/Downloads/GitHub/sage/local/lib/python2.7/site-packages/cysignals
copying build/lib.macosx-10.9-x86_64-2.7/cysignals/__init__.py ->
/Users/Masson/Downloads/GitHub/sage/local/lib/python2.7/site-packages/cysignals
copying build/lib.macosx-10.9-x86_64-2.7/cysignals/alarm.so ->
/Users/Masson/Downloads/GitHub/sage/local/lib/python2.7/site-packages/cysignals
copying build/lib.macosx-10.9-x86_64-2.7/cysignals/debug.h ->
/Users/Masson/Downloads/GitHub/sage/local/lib/python2.7/site-packages/cysignals
copying build/lib.macosx-10.9-x86_64-2.7/cysignals/macros.h ->
/Users/Masson/Downloads/GitHub/sage/local/lib/python2.7/site-packages/cysignals
copying build/lib.macosx-10.9-x86_64-2.7/cysignals/memory.pxd ->
/Users/Masson/Downloads/GitHub/sage/local/lib/python2.7/site-packages/cysignals
copying build/lib.macosx-10.9-x86_64-2.7/cysignals/memory.pxi ->
/Users/Masson/Downloads/GitHub/sage/local/lib/python2.7/site-packages/cysignals
copying build/lib.macosx-10.9-x86_64-2.7/cysignals/pxi.h ->
/Users/Masson/Downloads/GitHub/sage/local/lib/python2.7/site-packages/cysignals
copying build/lib.macosx-10.9-x86_64-2.7/cysignals/signals.h ->
/Users/Masson/Downloads/GitHub/sage/local/lib/python2.7/site-packages/cysignals
copying build/lib.macosx-10.9-x86_64-2.7/cysignals/signals.pxd ->
/Users/Masson/Downloads/GitHub/sage/local/lib/python2.7/site-packages/cysignals
copying build/lib.macosx-10.9-x86_64-2.7/cysignals/signals.pxi ->
/Users/Masson/Downloads/GitHub/sage/local/lib/python2.7/site-packages/cysignals
copying build/lib.macosx-10.9-x86_64-2.7/cysignals/signals.so ->
/Users/Masson/Downloads/GitHub/sage/local/lib/python2.7/site-packages/cysignals
copying build/lib.macosx-10.9-x86_64-2.7/cysignals/signals_api.h ->
/Users/Masson/Downloads/GitHub/sage/local/lib/python2.7/site-packages/cysignals
copying build/lib.macosx-10.9-x86_64-2.7/cysignals/struct_signals.h ->
/Users/Masson/Downloads/GitHub/sage/local/lib/python2.7/site-packages/cysignals
copying build/lib.macosx-10.9-x86_64-2.7/cysignals/tests.so ->
/Users/Masson/Downloads/GitHub/sage/local/lib/python2.7/site-packages/cysignals
byte-compiling
/Users/Masson/Downloads/GitHub/sage/local/lib/python2.7/site-packages/cysignals/__init__.py
to __init__.pyc
running install_scripts
copying build/scripts-2.7/cysignals-CSI ->
/Users/Masson/Downloads/GitHub/sage/local/bin
copying build/scripts-2.7/cysignals-CSI-helper.py ->
/Users/Masson/Downloads/GitHub/sage/local/bin
changing mode of /Users/Masson/Downloads/GitHub/sage/local/bin/cysignals-CSI to
755
changing mode of
/Users/Masson/Downloads/GitHub/sage/local/bin/cysignals-CSI-helper.py to 755
running install_egg_info
Writing
/Users/Masson/Downloads/GitHub/sage/local/lib/python2.7/site-packages/cysignals-1.1.1-py2.7.egg-info
real 1m9.998s
user 0m18.918s
sys 0m3.582s
Successfully installed cysignals-1.1.1
Deleting temporary build directory
/Users/Masson/Downloads/GitHub/sage/local/var/tmp/sage/build/cysignals-1.1.1
Finished installing cysignals-1.1.1.spkg
Found local metadata for cysignals-1.1.1
Using cached file
/Users/Masson/Downloads/GitHub/sage/upstream/cysignals-1.1.1.tar.bz2
cysignals-1.1.1
====================================================
Setting up build directory for cysignals-1.1.1
Finished extraction
****************************************************
Host system:
Darwin MacBook-Retina.local 15.6.0 Darwin Kernel Version 15.6.0: Thu Sep 1
15:01:16 PDT 2016; root:xnu-3248.60.11~2/RELEASE_X86_64 x86_64
****************************************************
C compiler: gcc
C compiler version:
Using built-in specs.
COLLECT_GCC=gcc
COLLECT_LTO_WRAPPER=/Users/Masson/Downloads/GitHub/sage/local/libexec/gcc/x86_64-apple-darwin15.6.0/4.9.3/lto-wrapper
Target: x86_64-apple-darwin15.6.0
Configured with: ../src/configure
--prefix=/Users/Masson/Downloads/GitHub/sage/local
--with-local-prefix=/Users/Masson/Downloads/GitHub/sage/local
--with-gmp=/Users/Masson/Downloads/GitHub/sage/local
--with-mpfr=/Users/Masson/Downloads/GitHub/sage/local
--with-mpc=/Users/Masson/Downloads/GitHub/sage/local --with-system-zlib
--disable-multilib --disable-nls --enable-languages=c,c++,fortran
--disable-libitm --with-build-config=bootstrap-debug --without-isl
--without-cloog
Thread model: posix
gcc version 4.9.3 (GCC)
****************************************************
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 for library containing pari_init... -lpari
checking how to run the C preprocessor... cpp
checking for grep that handles long lines and -e... /usr/bin/grep
checking for egrep... /usr/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 execinfo.h usability... yes
checking execinfo.h presence... yes
checking for execinfo.h... yes
checking sys/prctl.h usability... no
checking sys/prctl.h presence... no
checking for sys/prctl.h... no
checking for backtrace... yes
checking whether PARI_SIGINT_block is declared... yes
checking for emms instruction... yes
configure: creating ./config.status
config.status: creating build/src/config.h
config.status: executing build/src/config.pxd commands
python setup.py build
generating build/src/cysignals/__init__.pxd
Compiling src/cysignals/signals.pyx because it changed.
Compiling src/cysignals/alarm.pyx because it changed.
Compiling src/cysignals/tests.pyx because it changed.
[1/3] Cythonizing src/cysignals/alarm.pyx
[2/3] Cythonizing src/cysignals/signals.pyx
[3/3] Cythonizing src/cysignals/tests.pyx
running build
running build_py
creating build/lib.macosx-10.9-x86_64-2.7
creating build/lib.macosx-10.9-x86_64-2.7/cysignals
copying src/cysignals/__init__.py -> build/lib.macosx-10.9-x86_64-2.7/cysignals
copying src/cysignals/memory.pxi -> build/lib.macosx-10.9-x86_64-2.7/cysignals
copying src/cysignals/signals.pxi -> build/lib.macosx-10.9-x86_64-2.7/cysignals
copying src/cysignals/memory.pxd -> build/lib.macosx-10.9-x86_64-2.7/cysignals
copying src/cysignals/signals.pxd -> build/lib.macosx-10.9-x86_64-2.7/cysignals
copying src/cysignals/debug.h -> build/lib.macosx-10.9-x86_64-2.7/cysignals
copying src/cysignals/macros.h -> build/lib.macosx-10.9-x86_64-2.7/cysignals
copying src/cysignals/pxi.h -> build/lib.macosx-10.9-x86_64-2.7/cysignals
copying src/cysignals/struct_signals.h ->
build/lib.macosx-10.9-x86_64-2.7/cysignals
copying build/src/cysignals/__init__.pxd ->
build/lib.macosx-10.9-x86_64-2.7/cysignals
copying build/src/cysignals/signals.h ->
build/lib.macosx-10.9-x86_64-2.7/cysignals
copying build/src/cysignals/signals_api.h ->
build/lib.macosx-10.9-x86_64-2.7/cysignals
running build_ext
building 'cysignals.signals' extension
creating build/temp.macosx-10.9-x86_64-2.7
creating build/temp.macosx-10.9-x86_64-2.7/build
creating build/temp.macosx-10.9-x86_64-2.7/build/src
creating build/temp.macosx-10.9-x86_64-2.7/build/src/cysignals
gcc -fno-strict-aliasing
-I/Users/Masson/Downloads/GitHub/sage/local/var/tmp/sage/build/python2-2.7.10.p3/include
-DNDEBUG -g -fwrapv -O3 -Wall -Wno-unused -Isrc/cysignals -Ibuild/src
-Ibuild/src/cysignals
-I/Users/Masson/Downloads/GitHub/sage/local/include/python2.7 -c
build/src/cysignals/signals.c -o
build/temp.macosx-10.9-x86_64-2.7/build/src/cysignals/signals.o
gcc -bundle -undefined dynamic_lookup
-L/Users/Masson/Downloads/GitHub/sage/local/lib
-Wl,-rpath,/Users/Masson/Downloads/GitHub/sage/local/lib
-L/Users/Masson/Downloads/GitHub/sage/local/lib
-Wl,-rpath,/Users/Masson/Downloads/GitHub/sage/local/lib
build/temp.macosx-10.9-x86_64-2.7/build/src/cysignals/signals.o
-L/Users/Masson/Downloads/GitHub/sage/local/lib -o
build/lib.macosx-10.9-x86_64-2.7/cysignals/signals.so -lpari -Ddummy
building 'cysignals.alarm' extension
gcc -fno-strict-aliasing
-I/Users/Masson/Downloads/GitHub/sage/local/var/tmp/sage/build/python2-2.7.10.p3/include
-DNDEBUG -g -fwrapv -O3 -Wall -Wno-unused -Isrc/cysignals -Ibuild/src
-Ibuild/src/cysignals
-I/Users/Masson/Downloads/GitHub/sage/local/include/python2.7 -c
build/src/cysignals/alarm.c -o
build/temp.macosx-10.9-x86_64-2.7/build/src/cysignals/alarm.o
gcc -bundle -undefined dynamic_lookup
-L/Users/Masson/Downloads/GitHub/sage/local/lib
-Wl,-rpath,/Users/Masson/Downloads/GitHub/sage/local/lib
-L/Users/Masson/Downloads/GitHub/sage/local/lib
-Wl,-rpath,/Users/Masson/Downloads/GitHub/sage/local/lib
build/temp.macosx-10.9-x86_64-2.7/build/src/cysignals/alarm.o
-L/Users/Masson/Downloads/GitHub/sage/local/lib -o
build/lib.macosx-10.9-x86_64-2.7/cysignals/alarm.so
building 'cysignals.tests' extension
gcc -fno-strict-aliasing
-I/Users/Masson/Downloads/GitHub/sage/local/var/tmp/sage/build/python2-2.7.10.p3/include
-DNDEBUG -g -fwrapv -O3 -Wall -Wno-unused -Isrc/cysignals -Ibuild/src
-Ibuild/src/cysignals
-I/Users/Masson/Downloads/GitHub/sage/local/include/python2.7 -c
build/src/cysignals/tests.c -o
build/temp.macosx-10.9-x86_64-2.7/build/src/cysignals/tests.o
gcc -bundle -undefined dynamic_lookup
-L/Users/Masson/Downloads/GitHub/sage/local/lib
-Wl,-rpath,/Users/Masson/Downloads/GitHub/sage/local/lib
-L/Users/Masson/Downloads/GitHub/sage/local/lib
-Wl,-rpath,/Users/Masson/Downloads/GitHub/sage/local/lib
build/temp.macosx-10.9-x86_64-2.7/build/src/cysignals/tests.o
-L/Users/Masson/Downloads/GitHub/sage/local/lib -o
build/lib.macosx-10.9-x86_64-2.7/cysignals/tests.so -lpari -Ddummy
running build_scripts
creating build/scripts-2.7
copying and adjusting src/scripts/cysignals-CSI -> build/scripts-2.7
copying src/scripts/cysignals-CSI-helper.py -> build/scripts-2.7
changing mode of build/scripts-2.7/cysignals-CSI from 644 to 755
changing mode of build/scripts-2.7/cysignals-CSI-helper.py from 644 to 755
python setup.py install
running install
running build
running build_py
running build_ext
running build_scripts
running install_lib
copying build/lib.macosx-10.9-x86_64-2.7/cysignals/__init__.pxd ->
/Users/Masson/Downloads/GitHub/sage/local/lib/python2.7/site-packages/cysignals
copying build/lib.macosx-10.9-x86_64-2.7/cysignals/alarm.so ->
/Users/Masson/Downloads/GitHub/sage/local/lib/python2.7/site-packages/cysignals
copying build/lib.macosx-10.9-x86_64-2.7/cysignals/signals.h ->
/Users/Masson/Downloads/GitHub/sage/local/lib/python2.7/site-packages/cysignals
copying build/lib.macosx-10.9-x86_64-2.7/cysignals/signals.so ->
/Users/Masson/Downloads/GitHub/sage/local/lib/python2.7/site-packages/cysignals
copying build/lib.macosx-10.9-x86_64-2.7/cysignals/signals_api.h ->
/Users/Masson/Downloads/GitHub/sage/local/lib/python2.7/site-packages/cysignals
copying build/lib.macosx-10.9-x86_64-2.7/cysignals/tests.so ->
/Users/Masson/Downloads/GitHub/sage/local/lib/python2.7/site-packages/cysignals
running install_scripts
copying build/scripts-2.7/cysignals-CSI ->
/Users/Masson/Downloads/GitHub/sage/local/bin
changing mode of /Users/Masson/Downloads/GitHub/sage/local/bin/cysignals-CSI to
755
changing mode of
/Users/Masson/Downloads/GitHub/sage/local/bin/cysignals-CSI-helper.py to 755
running install_egg_info
Removing
/Users/Masson/Downloads/GitHub/sage/local/lib/python2.7/site-packages/cysignals-1.1.1-py2.7.egg-info
Writing
/Users/Masson/Downloads/GitHub/sage/local/lib/python2.7/site-packages/cysignals-1.1.1-py2.7.egg-info
real 0m36.329s
user 0m14.517s
sys 0m3.139s
Successfully installed cysignals-1.1.1
Deleting temporary build directory
/Users/Masson/Downloads/GitHub/sage/local/var/tmp/sage/build/cysignals-1.1.1
Finished installing cysignals-1.1.1.spkg
Found local metadata for cysignals-1.1.1
Using cached file
/Users/Masson/Downloads/GitHub/sage/upstream/cysignals-1.1.1.tar.bz2
cysignals-1.1.1
====================================================
Setting up build directory for cysignals-1.1.1
Finished extraction
****************************************************
Host system:
Darwin MacBook-Retina.local 15.6.0 Darwin Kernel Version 15.6.0: Thu Sep 1
15:01:16 PDT 2016; root:xnu-3248.60.11~2/RELEASE_X86_64 x86_64
****************************************************
C compiler: gcc
C compiler version:
Using built-in specs.
COLLECT_GCC=gcc
COLLECT_LTO_WRAPPER=/Users/Masson/Downloads/GitHub/sage/local/libexec/gcc/x86_64-apple-darwin15.6.0/4.9.3/lto-wrapper
Target: x86_64-apple-darwin15.6.0
Configured with: ../src/configure
--prefix=/Users/Masson/Downloads/GitHub/sage/local
--with-local-prefix=/Users/Masson/Downloads/GitHub/sage/local
--with-gmp=/Users/Masson/Downloads/GitHub/sage/local
--with-mpfr=/Users/Masson/Downloads/GitHub/sage/local
--with-mpc=/Users/Masson/Downloads/GitHub/sage/local --with-system-zlib
--disable-multilib --disable-nls --enable-languages=c,c++,fortran
--disable-libitm --with-build-config=bootstrap-debug --without-isl
--without-cloog
Thread model: posix
gcc version 4.9.3 (GCC)
****************************************************
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 for library containing pari_init... -lpari
checking how to run the C preprocessor... cpp
checking for grep that handles long lines and -e... /usr/bin/grep
checking for egrep... /usr/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 execinfo.h usability... yes
checking execinfo.h presence... yes
checking for execinfo.h... yes
checking sys/prctl.h usability... no
checking sys/prctl.h presence... no
checking for sys/prctl.h... no
checking for backtrace... yes
checking whether PARI_SIGINT_block is declared... yes
checking for emms instruction... yes
configure: creating ./config.status
config.status: creating build/src/config.h
config.status: executing build/src/config.pxd commands
python setup.py build
generating build/src/cysignals/__init__.pxd
Compiling src/cysignals/signals.pyx because it changed.
Traceback (most recent call last):
File "setup.py", line 75, in <module>
include_path=["src", opj(cythonize_dir, "src")])
File
"/Users/Masson/Downloads/GitHub/sage/local/lib/python2.7/site-packages/Cython/Build/Dependencies.py",
line 865, in cythonize
if not force and options.cache:
AttributeError: 'CompilationOptions' object has no attribute 'cache'
make[3]: *** [build] Error 1
Error installing cysignals ... exiting
real 0m12.397s
user 0m3.969s
sys 0m2.953s
************************************************************************
Error installing package cysignals-1.1.1
************************************************************************
Please email sage-devel (http://groups.google.com/group/sage-devel)
explaining the problem and including the relevant part of the log file
/Users/Masson/Downloads/GitHub/sage/logs/pkgs/cysignals-1.1.1.log
Describe your computer, operating system, etc.
If you want to try to fix the problem yourself, *don't* just cd to
/Users/Masson/Downloads/GitHub/sage/local/var/tmp/sage/build/cysignals-1.1.1
and type 'make' or whatever is appropriate.
Instead, the following commands setup all environment variables
correctly and load a subshell for you to debug the error:
(cd
'/Users/Masson/Downloads/GitHub/sage/local/var/tmp/sage/build/cysignals-1.1.1'
&& '/Users/Masson/Downloads/GitHub/sage/sage' --sh)
When you are done debugging, you can type "exit" to leave the subshell.
************************************************************************
Found local metadata for mistune-0.7.3
Using cached file
/Users/Masson/Downloads/GitHub/sage/upstream/mistune-0.7.3.tar.gz
mistune-0.7.3
====================================================
Setting up build directory for mistune-0.7.3
Finished extraction
****************************************************
Host system:
Darwin MacBook-Retina.local 15.6.0 Darwin Kernel Version 15.6.0: Thu Sep 1
15:01:16 PDT 2016; root:xnu-3248.60.11~2/RELEASE_X86_64 x86_64
****************************************************
C compiler: gcc
C compiler version:
Using built-in specs.
COLLECT_GCC=gcc
COLLECT_LTO_WRAPPER=/Users/Masson/Downloads/GitHub/sage/local/libexec/gcc/x86_64-apple-darwin15.6.0/4.9.3/lto-wrapper
Target: x86_64-apple-darwin15.6.0
Configured with: ../src/configure
--prefix=/Users/Masson/Downloads/GitHub/sage/local
--with-local-prefix=/Users/Masson/Downloads/GitHub/sage/local
--with-gmp=/Users/Masson/Downloads/GitHub/sage/local
--with-mpfr=/Users/Masson/Downloads/GitHub/sage/local
--with-mpc=/Users/Masson/Downloads/GitHub/sage/local --with-system-zlib
--disable-multilib --disable-nls --enable-languages=c,c++,fortran
--disable-libitm --with-build-config=bootstrap-debug --without-isl
--without-cloog
Thread model: posix
gcc version 4.9.3 (GCC)
****************************************************
Ignoring indexes: https://pypi.python.org/simple
Processing
/Users/Masson/Downloads/GitHub/sage/local/var/tmp/sage/build/mistune-0.7.3/src
Running setup.py
(path:/var/folders/np/_r579ck92g1f9x1tzcvdhy5m0000gn/T/pip-BV0hM9-build/setup.py)
egg_info for package from
file:///Users/Masson/Downloads/GitHub/sage/local/var/tmp/sage/build/mistune-0.7.3/src
Running command python setup.py egg_info
running egg_info
creating pip-egg-info/mistune.egg-info
writing pip-egg-info/mistune.egg-info/PKG-INFO
writing top-level names to pip-egg-info/mistune.egg-info/top_level.txt
writing dependency_links to
pip-egg-info/mistune.egg-info/dependency_links.txt
writing manifest file 'pip-egg-info/mistune.egg-info/SOURCES.txt'
warning: manifest_maker: standard file '-c' not found
reading manifest file 'pip-egg-info/mistune.egg-info/SOURCES.txt'
reading manifest template 'MANIFEST.in'
warning: no previously-included files found matching 'mistune.c'
warning: no previously-included files matching '*.pyc' found under
directory 'tests'
warning: no previously-included files matching '*.pyo' found under
directory 'tests'
writing manifest file 'pip-egg-info/mistune.egg-info/SOURCES.txt'
Source in /var/folders/np/_r579ck92g1f9x1tzcvdhy5m0000gn/T/pip-BV0hM9-build
has version 0.7.3, which satisfies requirement mistune==0.7.3 from
file:///Users/Masson/Downloads/GitHub/sage/local/var/tmp/sage/build/mistune-0.7.3/src
Installing collected packages: mistune
Running setup.py install for mistune: started
Running command /Users/Masson/Downloads/GitHub/sage/local/bin/python -u -c
"import setuptools,
tokenize;__file__='/var/folders/np/_r579ck92g1f9x1tzcvdhy5m0000gn/T/pip-BV0hM9-build/setup.py';exec(compile(getattr(tokenize,
'open', open)(__file__).read().replace('\r\n', '\n'), __file__, 'exec'))"
install --record
/var/folders/np/_r579ck92g1f9x1tzcvdhy5m0000gn/T/pip-bjzDsj-record/install-record.txt
--single-version-externally-managed --compile
running install
running build
running build_py
creating build
creating build/lib.macosx-10.9-x86_64-2.7
copying mistune.py -> build/lib.macosx-10.9-x86_64-2.7
running build_ext
cythoning mistune.py to mistune.c
building 'mistune' extension
creating build/temp.macosx-10.9-x86_64-2.7
gcc -fno-strict-aliasing
-I/Users/Masson/Downloads/GitHub/sage/local/var/tmp/sage/build/python2-2.7.10.p2/include
-DNDEBUG -g -fwrapv -O3 -Wall -Wno-unused
-I/Users/Masson/Downloads/GitHub/sage/local/include/python2.7 -c mistune.c -o
build/temp.macosx-10.9-x86_64-2.7/mistune.o
gcc -bundle -undefined dynamic_lookup
-L/Users/Masson/Downloads/GitHub/sage/local/lib
-Wl,-rpath,/Users/Masson/Downloads/GitHub/sage/local/lib
-L/Users/Masson/Downloads/GitHub/sage/local/lib
-Wl,-rpath,/Users/Masson/Downloads/GitHub/sage/local/lib
build/temp.macosx-10.9-x86_64-2.7/mistune.o
-L/Users/Masson/Downloads/GitHub/sage/local/lib -o
build/lib.macosx-10.9-x86_64-2.7/mistune.so
running install_lib
copying build/lib.macosx-10.9-x86_64-2.7/mistune.py ->
/Users/Masson/Downloads/GitHub/sage/local/lib/python2.7/site-packages
copying build/lib.macosx-10.9-x86_64-2.7/mistune.so ->
/Users/Masson/Downloads/GitHub/sage/local/lib/python2.7/site-packages
byte-compiling
/Users/Masson/Downloads/GitHub/sage/local/lib/python2.7/site-packages/mistune.py
to mistune.pyc
running install_egg_info
running egg_info
writing mistune.egg-info/PKG-INFO
writing top-level names to mistune.egg-info/top_level.txt
writing dependency_links to mistune.egg-info/dependency_links.txt
warning: manifest_maker: standard file '-c' not found
reading manifest file 'mistune.egg-info/SOURCES.txt'
reading manifest template 'MANIFEST.in'
warning: no previously-included files matching '*.pyc' found under
directory 'tests'
warning: no previously-included files matching '*.pyo' found under
directory 'tests'
writing manifest file 'mistune.egg-info/SOURCES.txt'
Copying mistune.egg-info to
/Users/Masson/Downloads/GitHub/sage/local/lib/python2.7/site-packages/mistune-0.7.3-py2.7.egg-info
running install_scripts
writing list of installed files to
'/var/folders/np/_r579ck92g1f9x1tzcvdhy5m0000gn/T/pip-bjzDsj-record/install-record.txt'
Running setup.py install for mistune: finished with status 'done'
Removing source in
/var/folders/np/_r579ck92g1f9x1tzcvdhy5m0000gn/T/pip-BV0hM9-build
Successfully installed mistune-0.7.3
Cleaning up...
real 2m44.721s
user 0m43.420s
sys 0m1.608s
Successfully installed mistune-0.7.3
Deleting temporary build directory
/Users/Masson/Downloads/GitHub/sage/local/var/tmp/sage/build/mistune-0.7.3
Finished installing mistune-0.7.3.spkg
Found local metadata for mistune-0.7.3
Using cached file
/Users/Masson/Downloads/GitHub/sage/upstream/mistune-0.7.3.tar.gz
mistune-0.7.3
====================================================
Setting up build directory for mistune-0.7.3
Finished extraction
****************************************************
Host system:
Darwin MacBook-Retina.local 15.6.0 Darwin Kernel Version 15.6.0: Thu Sep 1
15:01:16 PDT 2016; root:xnu-3248.60.11~2/RELEASE_X86_64 x86_64
****************************************************
C compiler: gcc
C compiler version:
Using built-in specs.
COLLECT_GCC=gcc
COLLECT_LTO_WRAPPER=/Users/Masson/Downloads/GitHub/sage/local/libexec/gcc/x86_64-apple-darwin15.6.0/4.9.3/lto-wrapper
Target: x86_64-apple-darwin15.6.0
Configured with: ../src/configure
--prefix=/Users/Masson/Downloads/GitHub/sage/local
--with-local-prefix=/Users/Masson/Downloads/GitHub/sage/local
--with-gmp=/Users/Masson/Downloads/GitHub/sage/local
--with-mpfr=/Users/Masson/Downloads/GitHub/sage/local
--with-mpc=/Users/Masson/Downloads/GitHub/sage/local --with-system-zlib
--disable-multilib --disable-nls --enable-languages=c,c++,fortran
--disable-libitm --with-build-config=bootstrap-debug --without-isl
--without-cloog
Thread model: posix
gcc version 4.9.3 (GCC)
****************************************************
Ignoring indexes: https://pypi.python.org/simple
Processing
/Users/Masson/Downloads/GitHub/sage/local/var/tmp/sage/build/mistune-0.7.3/src
Running setup.py
(path:/var/folders/np/_r579ck92g1f9x1tzcvdhy5m0000gn/T/pip-oRb4Ld-build/setup.py)
egg_info for package from
file:///Users/Masson/Downloads/GitHub/sage/local/var/tmp/sage/build/mistune-0.7.3/src
Running command python setup.py egg_info
running egg_info
creating pip-egg-info/mistune.egg-info
writing pip-egg-info/mistune.egg-info/PKG-INFO
writing top-level names to pip-egg-info/mistune.egg-info/top_level.txt
writing dependency_links to
pip-egg-info/mistune.egg-info/dependency_links.txt
writing manifest file 'pip-egg-info/mistune.egg-info/SOURCES.txt'
warning: manifest_maker: standard file '-c' not found
reading manifest file 'pip-egg-info/mistune.egg-info/SOURCES.txt'
reading manifest template 'MANIFEST.in'
warning: no previously-included files found matching 'mistune.c'
warning: no previously-included files matching '*.pyc' found under
directory 'tests'
warning: no previously-included files matching '*.pyo' found under
directory 'tests'
writing manifest file 'pip-egg-info/mistune.egg-info/SOURCES.txt'
Source in /var/folders/np/_r579ck92g1f9x1tzcvdhy5m0000gn/T/pip-oRb4Ld-build
has version 0.7.3, which satisfies requirement mistune==0.7.3 from
file:///Users/Masson/Downloads/GitHub/sage/local/var/tmp/sage/build/mistune-0.7.3/src
Installing collected packages: mistune
Running setup.py install for mistune: started
Running command /Users/Masson/Downloads/GitHub/sage/local/bin/python -u -c
"import setuptools,
tokenize;__file__='/var/folders/np/_r579ck92g1f9x1tzcvdhy5m0000gn/T/pip-oRb4Ld-build/setup.py';exec(compile(getattr(tokenize,
'open', open)(__file__).read().replace('\r\n', '\n'), __file__, 'exec'))"
install --record
/var/folders/np/_r579ck92g1f9x1tzcvdhy5m0000gn/T/pip-6O5Y2t-record/install-record.txt
--single-version-externally-managed --compile
running install
running build
running build_py
creating build
creating build/lib.macosx-10.9-x86_64-2.7
copying mistune.py -> build/lib.macosx-10.9-x86_64-2.7
running build_ext
cythoning mistune.py to mistune.c
Traceback (most recent call last):
File "<string>", line 1, in <module>
File
"/var/folders/np/_r579ck92g1f9x1tzcvdhy5m0000gn/T/pip-oRb4Ld-build/setup.py",
line 148, in <module>
try_building_extension()
File
"/var/folders/np/_r579ck92g1f9x1tzcvdhy5m0000gn/T/pip-oRb4Ld-build/setup.py",
line 130, in try_building_extension
run_setup(True)
File
"/var/folders/np/_r579ck92g1f9x1tzcvdhy5m0000gn/T/pip-oRb4Ld-build/setup.py",
line 123, in run_setup
'Topic :: Software Development :: Libraries :: Python Modules'
File
"/Users/Masson/Downloads/GitHub/sage/local/lib/python/distutils/core.py", line
151, in setup
dist.run_commands()
File
"/Users/Masson/Downloads/GitHub/sage/local/lib/python/distutils/dist.py", line
953, in run_commands
self.run_command(cmd)
File
"/Users/Masson/Downloads/GitHub/sage/local/lib/python/distutils/dist.py", line
972, in run_command
cmd_obj.run()
File
"/Users/Masson/Downloads/GitHub/sage/local/lib/python2.7/site-packages/setuptools/command/install.py",
line 61, in run
return orig.install.run(self)
File
"/Users/Masson/Downloads/GitHub/sage/local/lib/python/distutils/command/install.py",
line 563, in run
self.run_command('build')
File
"/Users/Masson/Downloads/GitHub/sage/local/lib/python/distutils/cmd.py", line
326, in run_command
self.distribution.run_command(command)
File
"/Users/Masson/Downloads/GitHub/sage/local/lib/python/distutils/dist.py", line
972, in run_command
cmd_obj.run()
File
"/Users/Masson/Downloads/GitHub/sage/local/lib/python/distutils/command/build.py",
line 127, in run
self.run_command(cmd_name)
File
"/Users/Masson/Downloads/GitHub/sage/local/lib/python/distutils/cmd.py", line
326, in run_command
self.distribution.run_command(command)
File
"/Users/Masson/Downloads/GitHub/sage/local/lib/python/distutils/dist.py", line
972, in run_command
cmd_obj.run()
File
"/var/folders/np/_r579ck92g1f9x1tzcvdhy5m0000gn/T/pip-oRb4Ld-build/setup.py",
line 45, in run
build_ext.run(self)
File
"/Users/Masson/Downloads/GitHub/sage/local/lib/python2.7/site-packages/Cython/Distutils/old_build_ext.py",
line 179, in run
_build_ext.build_ext.run(self)
File
"/Users/Masson/Downloads/GitHub/sage/local/lib/python/distutils/command/build_ext.py",
line 337, in run
self.build_extensions()
File
"/Users/Masson/Downloads/GitHub/sage/local/lib/python2.7/site-packages/Cython/Distutils/old_build_ext.py",
line 186, in build_extensions
ext.sources = self.cython_sources(ext.sources, ext)
File
"/Users/Masson/Downloads/GitHub/sage/local/lib/python2.7/site-packages/Cython/Distutils/old_build_ext.py",
line 339, in cython_sources
full_module_name=module_name)
File
"/Users/Masson/Downloads/GitHub/sage/local/lib/python2.7/site-packages/Cython/Compiler/Main.py",
line 688, in compile
return compile_single(source, options, full_module_name)
File
"/Users/Masson/Downloads/GitHub/sage/local/lib/python2.7/site-packages/Cython/Compiler/Main.py",
line 638, in compile_single
return run_pipeline(source, options, full_module_name)
File
"/Users/Masson/Downloads/GitHub/sage/local/lib/python2.7/site-packages/Cython/Compiler/Main.py",
line 495, in run_pipeline
err, enddata = Pipeline.run_pipeline(pipeline, source)
File
"/Users/Masson/Downloads/GitHub/sage/local/lib/python2.7/site-packages/Cython/Compiler/Pipeline.py",
line 340, in run_pipeline
data = phase(data)
File
"/Users/Masson/Downloads/GitHub/sage/local/lib/python2.7/site-packages/Cython/Compiler/Pipeline.py",
line 53, in generate_pyx_code_stage
module_node.process_implementation(options, result)
File
"/Users/Masson/Downloads/GitHub/sage/local/lib/python2.7/site-packages/Cython/Compiler/ModuleNode.py",
line 137, in process_implementation
self.generate_c_code(env, options, result)
File
"/Users/Masson/Downloads/GitHub/sage/local/lib/python2.7/site-packages/Cython/Compiler/ModuleNode.py",
line 365, in generate_c_code
self.body.generate_function_definitions(env, code)
File
"/Users/Masson/Downloads/GitHub/sage/local/lib/python2.7/site-packages/Cython/Compiler/Nodes.py",
line 436, in generate_function_definitions
stat.generate_function_definitions(env, code)
File
"/Users/Masson/Downloads/GitHub/sage/local/lib/python2.7/site-packages/Cython/Compiler/Nodes.py",
line 436, in generate_function_definitions
stat.generate_function_definitions(env, code)
File
"/Users/Masson/Downloads/GitHub/sage/local/lib/python2.7/site-packages/Cython/Compiler/Nodes.py",
line 3059, in generate_function_definitions
self.py_wrapper.generate_function_definitions(env, code)
File
"/Users/Masson/Downloads/GitHub/sage/local/lib/python2.7/site-packages/Cython/Compiler/Nodes.py",
line 3215, in generate_function_definitions
code.enter_cfunc_scope(lenv)
TypeError: enter_cfunc_scope() takes exactly one argument (2 given)
Running setup.py install for mistune: finished with status 'error'
Cleaning up...
Removing source in
/var/folders/np/_r579ck92g1f9x1tzcvdhy5m0000gn/T/pip-oRb4Ld-build
Command "/Users/Masson/Downloads/GitHub/sage/local/bin/python -u -c "import
setuptools,
tokenize;__file__='/var/folders/np/_r579ck92g1f9x1tzcvdhy5m0000gn/T/pip-oRb4Ld-build/setup.py';exec(compile(getattr(tokenize,
'open', open)(__file__).read().replace('\r\n', '\n'), __file__, 'exec'))"
install --record
/var/folders/np/_r579ck92g1f9x1tzcvdhy5m0000gn/T/pip-6O5Y2t-record/install-record.txt
--single-version-externally-managed --compile" failed with error code 1 in
/var/folders/np/_r579ck92g1f9x1tzcvdhy5m0000gn/T/pip-oRb4Ld-build/
Exception information:
Traceback (most recent call last):
File
"/Users/Masson/Downloads/GitHub/sage/local/lib/python2.7/site-packages/pip/basecommand.py",
line 215, in main
status = self.run(options, args)
File
"/Users/Masson/Downloads/GitHub/sage/local/lib/python2.7/site-packages/pip/commands/install.py",
line 317, in run
prefix=options.prefix_path,
File
"/Users/Masson/Downloads/GitHub/sage/local/lib/python2.7/site-packages/pip/req/req_set.py",
line 742, in install
**kwargs
File
"/Users/Masson/Downloads/GitHub/sage/local/lib/python2.7/site-packages/pip/req/req_install.py",
line 880, in install
spinner=spinner,
File
"/Users/Masson/Downloads/GitHub/sage/local/lib/python2.7/site-packages/pip/utils/__init__.py",
line 718, in call_subprocess
% (command_desc, proc.returncode, cwd))
InstallationError: Command
"/Users/Masson/Downloads/GitHub/sage/local/bin/python -u -c "import setuptools,
tokenize;__file__='/var/folders/np/_r579ck92g1f9x1tzcvdhy5m0000gn/T/pip-oRb4Ld-build/setup.py';exec(compile(getattr(tokenize,
'open', open)(__file__).read().replace('\r\n', '\n'), __file__, 'exec'))"
install --record
/var/folders/np/_r579ck92g1f9x1tzcvdhy5m0000gn/T/pip-6O5Y2t-record/install-record.txt
--single-version-externally-managed --compile" failed with error code 1 in
/var/folders/np/_r579ck92g1f9x1tzcvdhy5m0000gn/T/pip-oRb4Ld-build/
Error installing mistune ... exiting
real 0m15.387s
user 0m3.740s
sys 0m0.697s
************************************************************************
Error installing package mistune-0.7.3
************************************************************************
Please email sage-devel (http://groups.google.com/group/sage-devel)
explaining the problem and including the relevant part of the log file
/Users/Masson/Downloads/GitHub/sage/logs/pkgs/mistune-0.7.3.log
Describe your computer, operating system, etc.
If you want to try to fix the problem yourself, *don't* just cd to
/Users/Masson/Downloads/GitHub/sage/local/var/tmp/sage/build/mistune-0.7.3 and
type 'make' or whatever is appropriate.
Instead, the following commands setup all environment variables
correctly and load a subshell for you to debug the error:
(cd
'/Users/Masson/Downloads/GitHub/sage/local/var/tmp/sage/build/mistune-0.7.3' &&
'/Users/Masson/Downloads/GitHub/sage/sage' --sh)
When you are done debugging, you can type "exit" to leave the subshell.
************************************************************************
