thouis
commented
12 years ago Comment in Trac by atmention:charris, 2011-04-30
Hi Alex,
Since this problem doesn't show up on most systems we to figure out what is different about your setup. So far I see
SPARC SUNOS -- ? python 3.1.2 -- 64 bit? gcc 3.4.6 -- bit old nose 1.0.0 -- looks like this version supports python 3, I haven't tried it.
There may have been some fixes for the string part, but I don't think that is the fundamental problem as there are other test failures shown in the output. It would be helpful to see what those were so could you run the tests as 'numpy.test(verbose=2)'?
I suspect library problems or possibly mixed g77 and gfortran compilers, but it is hard to say at the moment.
Original ticket http://projects.scipy.org/numpy/ticket/1815 Reported 2011-04-30 by trac user alex_lai, assigned to unknown.
Hi experts, I’m wondering if anyone would look into this issue. While testing numpy package, Python crashed with the following error:
sbtorsvr391:~ $ cd /home/dcottr/local/tests sbtorsvr391:~/local/tests $ export PYTHONPATH=$PYTHONPATH:~/local/lib/python3.1/site-packages
sbtorsvr391:~/local/tests $ /usr/local/bin/python3 -c "import numpy; numpy.test()" Running unit tests for numpy NumPy version 1.5.1 NumPy is installed in /home/dcottr/local/lib/python3.1/site-packages/numpy
Python version 3.1.2 (r312:79147, Mar 23 2010, 02:42:06) [GCC 3.4.6] nose version 1.0.0 ..S...............................................................................................................................................S........Warning: invalid value encountered in isfinite ............................................................................................................................................................................................Warning: invalid value encountered in isinf Warning: invalid value encountered in isinf ......................................................................................................SSS........................K...........................................................K.....................................................................................................................................................F.F....................K.............................................................................................K...SK.F.......S...........................................................................................Segmentation Fault (core dumped)
mdb core_sbtorsvr391_python3_10439_5000_1304101376_11246
Loading modules: [ libc.so.1 libavl.so.1 libuutil.so.1 ld.so.1 ]
The C library used by Python is as follows:
sbtorsvr391:~/local/tests $ ldd /usr/local/bin/python3|grep libc libc.so.1 => /lib/libc.so.1 /platform/SUNW,Sun-Fire-V490/lib/libc_psr.so.1
sbtorsvr391:~ $ ls -l /lib/libc.so.1 -rwxr-xr-x 1 root bin 1640776 Aug 10 2010 /lib/libc.so.1
sbtorsvr391:~ $ pkgchk -l -p /lib/libc.so.1 NOTE: Couldn't lock the package database. Pathname: /lib/libc.so.1 Type: regular file Expected mode: 0755 Expected owner: root Expected group: bin Expected file size (bytes): 1640776 Expected sum(1) of contents: 50250 Expected last modification: Aug 10 13:55:34 2010 Referenced by the following packages: SUNWcslr Current status: installed
sbtorsvr391:~ $ pkginfo -l SUNWcslr PKGINST: SUNWcslr NAME: Core Solaris Libraries (Root) CATEGORY: system ARCH: sparc VERSION: 11.10.0,REV=2005.01.21.15.53 BASEDIR: / VENDOR: Sun Microsystems, Inc. DESC: core software for a specific instruction-set architecture PSTAMP: on10-patch20100511083333 INSTDATE: Jan 22 2011 16:10 HOTLINE: Please contact your local service provider STATUS: completely installed FILES: 245 installed pathnames 2 shared pathnames 5 directories 133 executables 34303 blocks used (approx)
The same problem doesn't occur when the command is run as root.
I opened a ticket with Python support. they responsed with the comment:
The issue is actually in numpy. In numpy/f2py/src/fortranobject.c, function array_from_pyobj(), there is::
(In numpy headers, PyString_AsString is aliased to PyBytes_AsString.) Besides the reference leaks, this function will fail when given the unicode string returned by PyObject_Str(), and sprintf receives the null string...
Please report this to numpy.
I'm hoping I will find answer to this issue here...
Thanks in advance,
Alex