Hello!
I'm trying to compile Sage(7.2) source code locally on a cluster called
Euler (http://www.clusterwiki.ethz.ch/brutus/Brutus_wiki). I getting an
error for the package brial-0.8.4.3. I'm attaching the log-file. Any ideas
or suggestions?
/Axel Dahlberg
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Found local metadata for brial-0.8.4.3
Using cached file
/cluster/home/axeld/sage/sage-7.2/upstream/brial-0.8.4.3.tar.bz2
brial-0.8.4.3
====================================================
Setting up build directory for brial-0.8.4.3
Finished set up
****************************************************
Host system:
Linux euler05 2.6.32-504.1.3.el6.euler.x86_64 #1 SMP Tue Nov 18 14:25:50 CET
2014 x86_64 x86_64 x86_64 GNU/Linux
****************************************************
C compiler: gcc
C compiler version:
Using built-in specs.
COLLECT_GCC=gcc
COLLECT_LTO_WRAPPER=/cluster/apps/gcc/4.8.2/libexec/gcc/x86_64-unknown-linux-gnu/4.8.2/lto-wrapper
Target: x86_64-unknown-linux-gnu
Configured with: ../gcc-4.8.2/configure --prefix=/cluster/apps/gcc/4.8.2
--enable-threads --with-arch=corei7-avx --with-tune=corei7-avx
--with-fpmath=sse --enable-languages=all --with-isl --with-cloog
--enable-objc-gc --with-system-zlib --enable-__cxa_atexit --with-gnu-ld
--enable-checking=release --enable-bootstrap --disable-multilib
Thread model: posix
gcc version 4.8.2 (GCC)
****************************************************
Cleaning out old PolyBoRi and BRiAl installations
patching file Cudd/cudd/Makefile.in
patching file common.mk
patching file groebner/src/Makefile.in
patching file libpolybori/src/Makefile.in
patching file Makefile.am
patching file Makefile.in
patching file groebner/src/Makefile.am
patching file groebner/src/Makefile.in
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 whether make supports nested variables... yes
checking whether UID '138258' is supported by ustar format... yes
checking whether GID '36457' is supported by ustar format... yes
checking how to create a ustar tar archive... gnutar
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 whether gcc understands -c and -o together... yes
checking for style of include used by make... GNU
checking dependency style of gcc... gcc3
checking whether we are using the GNU C++ compiler... yes
checking whether g++ accepts -g... yes
checking dependency style of g++... gcc3
checking the archiver (ar) interface... ar
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 gcc... ld
checking if the linker (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... 1966080
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 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 archiver @FILE support... @
checking for strip... strip
checking for ranlib... ranlib
checking command to parse /usr/bin/nm -B output from gcc object... ok
checking for sysroot... no
checking for a working dd... /bin/dd
checking how to truncate binary pipes... /bin/dd bs=4096 count=1
checking for mt... no
checking if : is a manifest tool... no
checking how to run the C preprocessor... gcc -E
checking for ANSI C header files... yes
checking for sys/types.h... yes
checking for sys/stat.h... yes
checking for stdlib.h... yes
checking for string.h... yes
checking for memory.h... yes
checking for strings.h... yes
checking for inttypes.h... yes
checking for stdint.h... yes
checking for unistd.h... yes
checking for dlfcn.h... yes
checking for objdir... .libs
checking if gcc supports -fno-rtti -fno-exceptions... no
checking for gcc option to produce PIC... -fPIC -DPIC
checking if gcc PIC flag -fPIC -DPIC works... yes
checking if gcc static flag -static works... yes
checking if gcc supports -c -o file.o... yes
checking if gcc supports -c -o file.o... (cached) yes
checking whether the gcc linker (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... no
checking how to run the C++ preprocessor... g++ -E
checking for ld used by g++... ld -m elf_x86_64
checking if the linker (ld -m elf_x86_64) is GNU ld... yes
checking whether the g++ linker (ld -m elf_x86_64) supports shared libraries...
yes
checking for g++ option to produce PIC... -fPIC -DPIC
checking if g++ PIC flag -fPIC -DPIC works... yes
checking if g++ static flag -static works... yes
checking if g++ supports -c -o file.o... yes
checking if g++ supports -c -o file.o... (cached) yes
checking whether the g++ linker (ld -m elf_x86_64) supports shared libraries...
yes
checking dynamic linker characteristics... (cached) GNU/Linux ld.so
checking how to hardcode library paths into programs... immediate
checking for a Python interpreter with version >= 2.7... python
checking for python... /cluster/home/axeld/sage/sage-7.2/local/bin/python
checking for python version... 2.7
checking for python platform... linux2
checking for python script directory... ${prefix}/lib/python2.7/site-packages
checking for python extension module directory...
${exec_prefix}/lib/python2.7/site-packages
checking for long long... yes
checking size of void *... 8
checking size of int... 4
checking size of long... 8
checking unordered_map usability... no
checking unordered_map presence... no
checking for unordered_map... no
checking tr1/unordered_map usability... yes
checking tr1/unordered_map presence... yes
checking for tr1/unordered_map... yes
checking for pkg-config...
/cluster/home/axeld/sage/sage-7.2/local/bin/pkg-config
checking pkg-config is at least version 0.9.0... yes
checking for M4RI... yes
checking for M4RI CFLAGS... -mmmx -msse -msse2 -msse3
checking for PNG... yes
checking that generated files are newer than configure... done
configure: creating ./config.status
config.status: creating Makefile
config.status: creating Cudd/cudd/Makefile
config.status: creating groebner/Makefile
config.status: creating groebner/include/Makefile
config.status: creating groebner/src/Makefile
config.status: creating libpolybori/Makefile
config.status: creating libpolybori/include/Makefile
config.status: creating libpolybori/src/Makefile
config.status: creating pyroot/Makefile
config.status: creating libpolybori/include/polybori/config.h
config.status: libpolybori/include/polybori/config.h is unchanged
config.status: executing depfiles commands
config.status: executing libtool commands
make[3]: Entering directory
`/cluster/home/axeld/sage/sage-7.2/local/var/tmp/sage/build/brial-0.8.4.3/src'
Making all in Cudd/cudd
make[4]: Entering directory
`/cluster/home/axeld/sage/sage-7.2/local/var/tmp/sage/build/brial-0.8.4.3/src/Cudd/cudd'
cd ../.. && /bin/sh
/cluster/home/axeld/sage/sage-7.2/local/var/tmp/sage/build/brial-0.8.4.3/src/missing
automake-1.15 --foreign Cudd/cudd/Makefile
/cluster/home/axeld/sage/sage-7.2/local/var/tmp/sage/build/brial-0.8.4.3/src/missing:
line 81: automake-1.15: command not found
WARNING: 'automake-1.15' is missing on your system.
You should only need it if you modified 'Makefile.am' or
'configure.ac' or m4 files included by 'configure.ac'.
The 'automake' program is part of the GNU Automake package:
<http://www.gnu.org/software/automake>
It also requires GNU Autoconf, GNU m4 and Perl in order to run:
<http://www.gnu.org/software/autoconf>
<http://www.gnu.org/software/m4/>
<http://www.perl.org/>
make[4]: *** [Makefile.in] Error 127
make[4]: Leaving directory
`/cluster/home/axeld/sage/sage-7.2/local/var/tmp/sage/build/brial-0.8.4.3/src/Cudd/cudd'
make[3]: *** [all-recursive] Error 1
make[3]: Leaving directory
`/cluster/home/axeld/sage/sage-7.2/local/var/tmp/sage/build/brial-0.8.4.3/src'
Error building BRiAl
real 0m6.548s
user 0m1.010s
sys 0m0.790s
************************************************************************
Error installing package brial-0.8.4.3
************************************************************************
Please email sage-devel (http://groups.google.com/group/sage-devel)
explaining the problem and including the relevant part of the log file
/cluster/home/axeld/sage/sage-7.2/logs/pkgs/brial-0.8.4.3.log
Describe your computer, operating system, etc.
If you want to try to fix the problem yourself, *don't* just cd to
/cluster/home/axeld/sage/sage-7.2/local/var/tmp/sage/build/brial-0.8.4.3 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
'/cluster/home/axeld/sage/sage-7.2/local/var/tmp/sage/build/brial-0.8.4.3' &&
'/cluster/home/axeld/sage/sage-7.2/sage' --sh)
When you are done debugging, you can type "exit" to leave the subshell.
************************************************************************
