William Stein wrote:
> On Thu, Nov 12, 2009 at 1:08 PM, Dr. David Kirkby
> <david.kir...@onetel.net> wrote:
>> William Stein wrote:
>>> Dave,
>>>
>>> I'm curious what happens if you try to install all optional spkg's on
>>> solaris.
>>> You could that in Sage by pasting this after the sage prompt:
<SNIP>
>> Since you do not want me to open tickets for the failures, what do you want
>> me
>> to do with them?
>
> Let's just discuss them a bit first. For starters, what happens here?
>
> sage: An error occurred while installing database_cremona_ellcurve-20071019
>
> I'm really surprised that this fails, given that it is just extracting
> and copying over a directory -- nothing gets built. Maybe it is a
> GNU-ism to copy, or a GNU-istic tarball? Could you try that one
> directly?
****************************************************
cp: illegal option -- v
Usage: cp [-f] [-i] [-p] [...@] f1 f2
cp [-f] [-i] [-p] [...@] f1 ... fn d1
cp -r|-R [-H|-L|-P] [-f] [-i] [-p] [...@] d1 ... dn-1 dn
real 0m0.029s
user 0m0.006s
sys 0m0.019s
sage: An error occurred while installing database_cremona_ellcurve-20071019
That's a GNUism - see
http://www.opengroup.org/onlinepubs/9699919799/utilities/cp.html
there is no -v option for 'cp' in POSIX. That should be easy to fix.
Here are the full results, along with a link to the log, and a quick check of
the log, to find the reasons for failure.
drkir...@kestrel:~/sage-4.2$ uname -a
SunOS kestrel 5.10 Generic_141444-09 sun4u sparc SUNW,UltraAX-i2
drkir...@kestrel:~/sage-4.2$ cat /etc/release
Solaris 10 3/05 s10_74L2a SPARC
Copyright 2005 Sun Microsystems, Inc. All Rights Reserved.
Use is subject to license terms.
Assembled 22 January 2005
drkir...@kestrel:~/sage-4.2$ ./sage -optional
Using SAGE Server http://www.sagemath.org//packages
http://www.sagemath.org//packages/optional/list -->
/export/home/drkirkby/sage-4.2/tmp/list
***********************************
*** optional Packages ***
***********************************
INSTALLED:
ace-5.0.p0
biopython-1.52.p0
boehm_gc-7.1.p0
cbc-2.3.p0
database_gap-4.4.10
database_jones_numfield-v4
database_kohel-20060803
database_odlyzko_zeta
database_sloane_oeis-2005-12
database_symbolic_data-20070206
gap_packages-4.4.10_6
gdbm-1.8.3
glpk-4.38.p1
guppy-0.1.8
java3d-20070901
jsmath-image-fonts-1.4.p2
kash3-2008-07-31
knoboo-20080411
lie-2.2.2.p3
lrs-4.2b.p0
mpc-0.5.p0
nzmath-0.6.0
openopt-0.24
openssl-0.9.8d.p1
pil-1.1.6
pyopenssl-0.8
pyx-0.10
sage-mode-0.6
sagetex-2.1.1
trac-0.11.5.p0
NOT INSTALLED:
database_cremona_ellcurve-20071019
database_stein_watkins_mini
extra_docs-20070208
fricas-1.0.3.p0
frobby-0.7.6
ginv-1.9-20080723
gmpy-1.0.1
gnuplotpy-1.7.p3
graphviz-2.16.1.p0
libcocoa-0.9930
mpi4py-0.3.1
nauty-24b7.p1
openmpi-1.1.4
p_group_cohomology-1.1
phc-2.3.39.p0
valgrind_3.3.1
>
> It's amazing how many spkg's fail...
It's amazing how many are so badly written!
Here's the full log of the build, along with a couple of notes
http://sage.math.washington.edu/home/kirkby/logs/buidling-optional-packages/
I need to go out now, but a VERY quick look shows
1) ./spkg-install: /export/home/drkirkby/sage-4.2/local/lib/gap-4.4.7/: does
not
exist
2) checking for noweave... no
axiom_build_bindir =
/export/home/drkirkby/sage-4.2/spkg/build/fricas-1.0.3.p0/build-dir/build/sparc-sun-solaris2.10/bin
checking compiled Lisp file extension... ../src/configure: line 4090: clisp:
command not found
configure: error: Could not determine extension for compiled Lisp files
***********************************************************
Failed to configure Axiom.
3) src/main.cpp: In function 'int main(int, const char**)':
src/main.cpp:30: error: 'srand' was not declared in this scope
make: *** [bin/release/main.o] Error 1
Error building Frobby.
real 0m4.433s
user 0m3.000s
sys 0m0.253s
sage: An error occurred while installing frobby-0.7.6
4)
creating build/temp.solaris-2.10-sun4u-2.6/ginv/division
creating build/temp.solaris-2.10-sun4u-2.6/ginv/algorithm
creating build/temp.solaris-2.10-sun4u-2.6/ginv/gauss
creating build/temp.solaris-2.10-sun4u-2.6/modules
gcc -fno-strict-aliasing -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes
-fPIC
-DWORDS_BIGENDIAN -I/export/home/drkirkby/sage-4.2/local/include/python2.6 -c
ginv/util/iprime.cpp -o build/temp.solaris-2.10-sun4u-2.6/ginv/util/iprime.o
-O3
-pipe -mmmx -msse -m3dnow -fomit-frame-pointer
-I/export/home/drkirkby/sage-4.2/local/include
cc1plus: error: unrecognized command line option "-mmmx"
cc1plus: error: unrecognized command line option "-msse"
cc1plus: error: unrecognized command line option "-m3dnow"
cc1plus: warning: command line option "-Wstrict-prototypes" is valid for
Ada/C/ObjC but not for C++
error: command 'gcc' failed with exit status 1
Error building GINV.
real 0m0.795s
user 0m0.496s
sys 0m0.238s
sage: An error occurred while installing ginv-1.9-20080723
5) gmpy-1.0.1/doc/gmpydoc.txt
gmpy-1.0.1/doc/index.html
Finished extraction
****************************************************
Host system
uname -a:
SunOS kestrel 5.10 Generic_141444-09 sun4u sparc SUNW,UltraAX-i2
****************************************************
****************************************************
CC Version
gcc -v
Using built-in specs.
Target: sparc-sun-solaris2.10
Configured with: ../gcc-4.4.2/configure --prefix=/opt/kirkby/gcc-4.4.2/
--with-gmp=/usr/local/ --with-mpfr=/usr/local
--with-build-time-tools=/usr/ccs/bin --enable-languages=c,c++,fortran
Thread model: posix
gcc version 4.4.2 (GCC)
****************************************************
./spkg-install: CFLAGS=-I/export/home/drkirkby/sage-4.2/local/include: is not
an
identifier
real 0m0.021s
user 0m0.004s
sys 0m0.013s
sage: An error occurred while installing gmpy-1.0.1
6) gnuplotpy-1.7.p3/src/Gnuplot.html
gnuplotpy-1.7.p3/src/_Gnuplot.py
Finished extraction
****************************************************
Host system
uname -a:
SunOS kestrel 5.10 Generic_141444-09 sun4u sparc SUNW,UltraAX-i2
****************************************************
****************************************************
CC Version
gcc -v
Using built-in specs.
Target: sparc-sun-solaris2.10
Configured with: ../gcc-4.4.2/configure --prefix=/opt/kirkby/gcc-4.4.2/
--with-gmp=/usr/local/ --with-mpfr=/usr/local
--with-build-time-tools=/usr/ccs/bin --enable-languages=c,c++,fortran
Thread model: posix
gcc version 4.4.2 (GCC)
****************************************************
Traceback (most recent call last):
File "setup.py", line 17, in <module>
from __init__ import __version__
File
"/export/home/drkirkby/sage-4.2/spkg/build/gnuplotpy-1.7.p3/src/__init__.py",
line 167, in <module>
from PlotItems import PlotItem, Func, File, Data, GridData
File
"/export/home/drkirkby/sage-4.2/spkg/build/gnuplotpy-1.7.p3/src/PlotItems.py",
line 88
'with' : lambda self, with: self.set_string_option(
^
SyntaxError: invalid syntax
Error installing gnuplotpy.
real 0m0.369s
user 0m0.223s
sys 0m0.116s
sage: An error occurred while installing gnuplotpy-1.7.p3
7) gcc -DHAVE_CONFIG_H -I. -I../.. -I../../lib/common -I../../lib/gvc
-I../../lib/pathplan -I../../lib/graph -I../../lib/cdt
-I/export/home/drkirkby/sage-4.2/local/include
-I/export/home/drkirkby/sage-4.2/local/include -g -O2 -Wno-unknown-pragmas
-Wstrict-prototypes -Wpointer-arith -Wall -ffast-math -MT dot_builtins.o -MD
-MP
-MF .deps/dot_builtins.Tpo -c -o dot_builtins.o `test -f
'../../lib/gvc/dot_builtins.c' || echo './'`../../lib/gvc/dot_builtins.c
mv -f .deps/dot_builtins.Tpo .deps/dot_builtins.Po
gcc -DHAVE_CONFIG_H -I. -I../.. -I../../lib/common -I../../lib/gvc
-I../../lib/pathplan -I../../lib/graph -I../../lib/cdt
-I/export/home/drkirkby/sage-4.2/local/include
-I/export/home/drkirkby/sage-4.2/local/include -g -O2 -Wno-unknown-pragmas
-Wstrict-prototypes -Wpointer-arith -Wall -ffast-math -MT no_demand_loading.o
-MD -MP -MF .deps/no_demand_loading.Tpo -c -o no_demand_loading.o `test -f
'../../lib/gvc/no_demand_loading.c' || echo
'./'`../../lib/gvc/no_demand_loading.c
mv -f .deps/no_demand_loading.Tpo .deps/no_demand_loading.Po
make[3]: *** No rule to make target `../../plugin/pango/libgvplugin_pango.la',
needed by `dot_builtins'. Stop.
make[3]: Leaving directory
`/export/home/drkirkby/sage-4.2/spkg/build/graphviz-2.16.1.p0/src/cmd/dot'
make[2]: *** [all-recursive] Error 1
make[2]: Leaving directory
`/export/home/drkirkby/sage-4.2/spkg/build/graphviz-2.16.1.p0/src/cmd'
make[1]: *** [all-recursive] Error 1
make[1]: Leaving directory
`/export/home/drkirkby/sage-4.2/spkg/build/graphviz-2.16.1.p0/src'
make: *** [all] Error 2
Error building Graphviz
real 34m25.759s
user 14m3.062s
sys 17m49.031s
sage: An error occurred while installing graphviz-2.16.1.p0
8) Compiling ServerOp.o
Compiling RegisterServerOps.o
Compiling TmpFrobby.o
Compiling RegisterServerOpsFrobby.o
ar: bad option `S'
usage: ar -d[-vV] archive file ...
ar -m[-abivV] [posname] archive file ...
ar -p[-vV][-s] archive [file ...]
ar -q[-cuvV] [-abi] [posname] [file ...]
ar -r[-cuvV] [-abi] [posname] [file ...]
ar -t[-vV][-s] archive [file ...]
ar -x[-vV][-sCT] archive [file ...]
make[3]: *** [../../lib/libcocoa.a] Error 1
make[3]: Leaving directory
`/export/home/drkirkby/sage-4.2/local/lib/cocoa-0.9930/src/src/AlgebraicCore'
*****[[Compilation[failed[in[CoCoA[library[source[subdirectory[AlgebraicCore/[[*****
***** Compilation failed in CoCoA library source subdirectory AlgebraicCore/
*****
*****[[Compilation[failed[in[CoCoA[library[source[subdirectory[AlgebraicCore/[[*****
make[2]: *** [library] Error 1
make[2]: Leaving directory
`/export/home/drkirkby/sage-4.2/local/lib/cocoa-0.9930/src/src'
make[1]: *** [library] Error 2
make[1]: Leaving directory
`/export/home/drkirkby/sage-4.2/local/lib/cocoa-0.9930/src'
make: *** [default] Error 2
Doing the build in the following directory:
/export/home/drkirkby/sage-4.2/local/lib/cocoa-0.9930
./configure --with-libgmp=$SAGE_LOCAL/lib/libgmp.so
Now running Make
make
There are known test failures that should be listed above.
They are literally 'not yet implemented' errors from the
CoCOA library. I.e., CoCOA releases purposely don't pass
their own test suite at present.
Error libcocoa.a did not build.
real 9m29.719s
user 8m47.989s
sys 0m28.305s
sage: An error occurred while installing libcocoa-0.9930
9) mpi4py-0.3.1/licenses/openmpi.txt
mpi4py-0.3.1/licenses/mpich2.txt
mpi4py-0.3.1/licenses/mpich.txt
Finished extraction
****************************************************
Host system
uname -a:
SunOS kestrel 5.10 Generic_141444-09 sun4u sparc SUNW,UltraAX-i2
****************************************************
****************************************************
CC Version
gcc -v
Using built-in specs.
Target: sparc-sun-solaris2.10
Configured with: ../gcc-4.4.2/configure --prefix=/opt/kirkby/gcc-4.4.2/
--with-gmp=/usr/local/ --with-mpfr=/usr/local
--with-build-time-tools=/usr/ccs/bin --enable-languages=c,c++,fortran
Thread model: posix
gcc version 4.4.2 (GCC)
****************************************************
./spkg-install: ipython1: does not exist
real 0m0.021s
user 0m0.004s
sys 0m0.013s
sage: An error occurred while installing mpi4py-0.3.1
10) nauty-24b7.p1/SPKG.txt
nauty-24b7.p1/license.txt
Finished extraction
****************************************************
Host system
uname -a:
SunOS kestrel 5.10 Generic_141444-09 sun4u sparc SUNW,UltraAX-i2
****************************************************
****************************************************
CC Version
gcc -v
Using built-in specs.
Target: sparc-sun-solaris2.10
Configured with: ../gcc-4.4.2/configure --prefix=/opt/kirkby/gcc-4.4.2/
--with-gmp=/usr/local/ --with-mpfr=/usr/local
--with-build-time-tools=/usr/ccs/bin --enable-languages=c,c++,fortran
Thread model: posix
gcc version 4.4.2 (GCC)
****************************************************
./spkg-install:
top_level=/export/home/drkirkby/sage-4.2/spkg/build/nauty-24b7.p1: is not an
identifier
real 0m0.027s
user 0m0.005s
sys 0m0.017s
sage: An error occurred while installing nauty-24b7.p1
11) g++ -DHAVE_CONFIG_H -I. -I. -I../../../opal/include
-I../../../orte/include
-I../../../ompi/include -I../../../ompi/include -I../../.. -D_REENTRANT -O3
-DNDEBUG -finline-functions -MT intercepts.lo -MD -MP -MF .deps/intercepts.Tpo
-c intercepts.cc -fPIC -DPIC -o .libs/intercepts.o
In file included from mpicxx.h:150,
from intercepts.cc:22:
../../../ompi/mpi/cxx/request_inln.h: In static member function 'static
MPI::Grequest MPI::Grequest::Start(int (*)(void*, MPI::Status&), int
(*)(void*),
int (*)(void*, bool), void*)':
../../../ompi/mpi/cxx/request_inln.h:347: warning: declaration 'struct
MPI::Grequest_intercept_t' does not declare anything
depbase=`echo comm.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`; \
if /bin/bash ../../../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I.
-I. -I../../../opal/include -I../../../orte/include -I../../../ompi/include
-I../../../ompi/include -I../../.. -D_REENTRANT -O3 -DNDEBUG
-finline-functions -MT comm.lo -MD -MP -MF "$depbase.Tpo" -c -o comm.lo
comm.cc; \
then mv -f "$depbase.Tpo" "$depbase.Plo"; else rm -f "$depbase.Tpo"; exit 1; fi
g++ -DHAVE_CONFIG_H -I. -I. -I../../../opal/include -I../../../orte/include
-I../../../ompi/include -I../../../ompi/include -I../../.. -D_REENTRANT -O3
-DNDEBUG -finline-functions -MT comm.lo -MD -MP -MF .deps/comm.Tpo -c comm.cc
-fPIC -DPIC -o .libs/comm.o
In file included from ../../../ompi/mpi/cxx/mpicxx.h:150,
from ../../../ompi/include/mpi.h:1760,
from comm.cc:21:
../../../ompi/mpi/cxx/request_inln.h: In static member function 'static
MPI::Grequest MPI::Grequest::Start(int (*)(void*, MPI::Status&), int
(*)(void*),
int (*)(void*, bool), void*)':
../../../ompi/mpi/cxx/request_inln.h:347: warning: declaration 'struct
MPI::Grequest_intercept_t' does not declare anything
/bin/bash ../../../libtool --tag=CXX --mode=link g++ -O3 -DNDEBUG
-finline-functions -export-dynamic -o libmpi_cxx.la -rpath
/export/home/drkirkby/sage-4.2/local/lib mpicxx.lo intercepts.lo comm.lo
-lsocket -lnsl -lrt -lm -lthread
g++ -shared -nostdlib -export-dynamic
/opt/kirkby/gcc-4.4.2/bin/../lib/gcc/sparc-sun-solaris2.10/4.4.2/crti.o
/usr/ccs/lib/values-Xa.o
/opt/kirkby/gcc-4.4.2/bin/../lib/gcc/sparc-sun-solaris2.10/4.4.2/crtbegin.o
.libs/mpicxx.o .libs/intercepts.o .libs/comm.o -Wl,-R
-Wl,/opt/kirkby/gcc-4.4.2//lib -Wl,-R -Wl,/opt/kirkby/gcc-4.4.2//lib -lsocket
-lnsl -lrt -lthread
-L/opt/kirkby/gcc-4.4.2/bin/../lib/gcc/sparc-sun-solaris2.10/4.4.2
-L/opt/kirkby/gcc-4.4.2/bin/../lib/gcc
-L/export/home/drkirkby/sage-4.2/local/lib -L/usr/ccs/lib
-L/opt/kirkby/gcc-4.4.2/bin/../lib/gcc/sparc-sun-solaris2.10/4.4.2/../../..
/opt/kirkby/gcc-4.4.2//lib/libstdc++.so -lm -lgcc_s
/opt/kirkby/gcc-4.4.2/bin/../lib/gcc/sparc-sun-solaris2.10/4.4.2/crtend.o
/opt/kirkby/gcc-4.4.2/bin/../lib/gcc/sparc-sun-solaris2.10/4.4.2/crtn.o -Wl,-h
-Wl,libmpi_cxx.so.0 -o .libs/libmpi_cxx.so.0.0.0
collect2: ld returned 1 exit status
make[3]: *** [libmpi_cxx.la] Error 1
make[3]: Leaving directory
`/export/home/drkirkby/sage-4.2/spkg/build/openmpi-1.1.4/ompi/mpi/cxx'
make[2]: *** [all-recursive] Error 1
make[2]: Leaving directory
`/export/home/drkirkby/sage-4.2/spkg/build/openmpi-1.1.4/ompi/mpi'
make[1]: *** [all-recursive] Error 1
make[1]: Leaving directory
`/export/home/drkirkby/sage-4.2/spkg/build/openmpi-1.1.4/ompi'
make: *** [all-recursive] Error 1
Error building
real 64m37.134s
user 24m1.867s
sys 35m30.485s
sage: An error occurred while installing openmpi-1.1.4
12) p_group_cohomology-1.1/.hg/store/fncache
p_group_cohomology-1.1/.hg/store/00manifest.i
p_group_cohomology-1.1/.hg/requires
Finished extraction
****************************************************
Host system
uname -a:
SunOS kestrel 5.10 Generic_141444-09 sun4u sparc SUNW,UltraAX-i2
****************************************************
****************************************************
CC Version
gcc -v
Using built-in specs.
Target: sparc-sun-solaris2.10
Configured with: ../gcc-4.4.2/configure --prefix=/opt/kirkby/gcc-4.4.2/
--with-gmp=/usr/local/ --with-mpfr=/usr/local
--with-build-time-tools=/usr/ccs/bin --enable-languages=c,c++,fortran
Thread model: posix
gcc version 4.4.2 (GCC)
****************************************************
Failed to find SmallGroups library. Please install the database_gap spkg
real 0m0.108s
user 0m0.027s
sys 0m0.069s
sage: An error occurred while installing p_group_cohomology-1.1
13) phc-2.3.39.p0/SPKG.txt
Finished extraction
****************************************************
Host system
uname -a:
SunOS kestrel 5.10 Generic_141444-09 sun4u sparc SUNW,UltraAX-i2
****************************************************
****************************************************
CC Version
gcc -v
Using built-in specs.
Target: sparc-sun-solaris2.10
Configured with: ../gcc-4.4.2/configure --prefix=/opt/kirkby/gcc-4.4.2/
--with-gmp=/usr/local/ --with-mpfr=/usr/local
--with-build-time-tools=/usr/ccs/bin --enable-languages=c,c++,fortran
Thread model: posix
gcc version 4.4.2 (GCC)
****************************************************
('SunOS', 'kestrel', '5.10', 'Generic_141444-09', 'sun4u') SunOS sun4u
/export/home/drkirkby/sage-4.2/local
Traceback (most recent call last):
File "./spkg-install", line 22, in <module>
os.system('mv ' + 'binaries/phc_' + ARCH + ' ' + sage_local + '/bin/phc')
NameError: name 'ARCH' is not defined
real 0m0.181s
user 0m0.103s
sys 0m0.069s
sage: An error occurred while installing phc-2.3.39.p0
14) Valgring does not work on non-Linux yet
real 0m0.061s
user 0m0.017s
sys 0m0.040s
sage: An error occurred while installing valgrind_3.3.1
> William
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