support for torque 4.2

[stijn.deweirdt@…]

although pbs_python code compiles, one cannot load the _pbs.so

>>> import pbs
Traceback (most recent call last):
  File "<stdin>", line 1, in <module>
  File "/usr/lib64/python2.6/site-packages/pbs/pbs.py", line 25, in <module>
    _pbs = swig_import_helper()
  File "/usr/lib64/python2.6/site-packages/pbs/pbs.py", line 21, in swig_import_helper
    _mod = imp.load_module('_pbs', fp, pathname, description)
ImportError: /usr/lib64/python2.6/site-packages/pbs/_pbs.so: undefined symbol: log_record

a lots has changed codewise in torque 4.2, i assume a new swig interface file has to be generated.

[bas]

That is correct. In our environment we only use 2.4.X and 2.5.X. On the list i read a lot problems with the 4.X versions. you can check ticket #34. He left out some functions and it worked for Glenn.

[stijn.deweirdt@…]

pbs_wrap for 4.2

[stijn.deweirdt@…]

support for 4.2 in setup.py

[anonymous]

the above attachements adds support for 4.2.

pbs_wrap_4.2 is based on the wrap for 2.4 setup.py.in now uses Looseversion to compare versions; it also assumes that you have torque include files installed somewhere (eg /usr/include/torque).

warning: current torque releases do not package log.h; get it from somewhere and add it to the inlcude/torque dir. i opened ​https://github.com/adaptivecomputing/torque/issues/166 to have this fixed in later versions.

[anonymous]

these 3 steps worked for me, but I had to set os.environCC?=os.environCXX? instead of hardcoding 'g++' in setup.py.in

[bas]

Thanks for the info. I have to make some time to port it. Actually these file are generated by swig.

[cjfields@…]

I can confirm that this patch works as well (using it for our local Galaxy installation).

[keberflores@…]

I tried these patches, but I'm getting another error message after that:

>>> import pbs
Traceback (most recent call last):
  File "<stdin>", line 1, in <module>
  File "/usr/lib/pymodules/python2.7/pbs/pbs.py", line 25, in <module>
    _pbs = swig_import_helper()
  File "/usr/lib/pymodules/python2.7/pbs/pbs.py", line 21, in swig_import_helper
    _mod = imp.load_module('_pbs', fp, pathname, description)
ImportError: /usr/lib/pymodules/python2.7/pbs/_pbs.so: undefined symbol: _Z9log_eventiiPKcPc

Over Ubuntu 12.04, torque 4.2.16.

What I've done:

• Download current stable pbs-python.tar.gz from Installation Wiki (4.3.5)
• Download files pbs_wrap_4.2.c and setup.py.in and placed in src/ and ./ respectively
• dpkg-buildpackage -d
• dpkg --install pbs-python-4.3.5-1_amd64.deb (generated in the previous step)

Same results when using make install.

Any hints? Thanks.

[bas]

As today i have just installed 4.2-dev on a test node and succeeded in porting pbs_python to this torque release. I will release an updated pbs_python version shortly.

[bas]

In 300:

C directory is used for Torque version 2.X.
rewrite setup.py inspired by stijn de weirdt (University Gent), see #36

[bas]

support is added in the trunk version that will shortly be released as version 4.4.0

[bas]

Version 4.4.0 is released