[MMTK] netCDF module is missing.

Ulderico uwanderlingh at unime.it
Tue Apr 8 07:07:46 UTC 2008


  hello,
we have tried to install Nmoldin, which rely on MMTK, on a AMD64 with  
Fedora7.
When xNmoldyn  is launched we get that horrible  output shown at the  
bottom.
The netcdf lib are were installe in /usr/lib as requested, and all the  
necessary packages were installed by source. Does anyone have  
suggestion??

many thanks Ulderico e Valeria




[Valeria at papa001169 ~]$ xMoldyn
Traceback (most recent call last):
   File "/usr/bin/xMoldyn", line 10, in <module>
     from nMoldyn.misc import getData, getTypes, getAtoms, saveText,  
getResidues,\
   File "/usr/lib/python2.5/site-packages/nMoldyn/misc.py", line 2, in  
<module>
     from calc import qVectorGenerator, qTrajectory, Quidam
   File "/usr/lib/python2.5/site-packages/nMoldyn/calc.py", line 4, in  
<module>
     from MMTK.Trajectory import Trajectory
   File "/usr/lib64/python2.5/site-packages/MMTK/Trajectory.py", line  
17, in <module>
     "because the netCDF module is missing.")
MMTK.Utility.MMTKError: Trajectories are not available because the  
netCDF module is missing.
*** glibc detected *** /usr/bin/python: double free or corruption  
(out): 0x00002aaaaaaf64e0 ***
======= Backtrace: =========
/lib64/libc.so.6[0x3633670412]
/lib64/libc.so.6(cfree+0x8c)[0x3633673b1c]
/usr/lib64/python2.5/site-packages/Numeric/RNG/RNG.so[0x2aaab176303e]
/usr/lib64/libpython2.5.so.1.0[0x3f070679c7]
/usr/lib64/libpython2.5.so.1.0(PyDict_SetItem+0x98)[0x3f07069628]
/usr/lib64/libpython2.5.so.1.0(_PyModule_Clear+0xbc)[0x3f0706b6ac]
/usr/lib64/libpython2.5.so.1.0(PyImport_Cleanup+0x4b9)[0x3f070c9519]
/usr/lib64/libpython2.5.so.1.0(Py_Finalize+0xbc)[0x3f070d089c]
/usr/lib64/libpython2.5.so.1.0(Py_Main+0x4c4)[0x3f070d9f94]
/lib64/libc.so.6(__libc_start_main+0xf4)[0x363361daa4]
/usr/bin/python[0x400629]
======= Memory map: ========
00400000-00401000 r-xp 00000000 fd:00  
9932207                            /usr/bin/python
00600000-00601000 rw-p 00000000 fd:00  
9932207                            /usr/bin/python
00601000-00b8a000 rw-p 00601000 00:00  
0                                  [heap]
40000000-40001000 ---p 40000000 00:00 0
40001000-40a01000 rw-p 40001000 00:00 0
3632600000-363261a000 r-xp 00000000 fd:00  
23035913                       /lib64/ld-2.6.so
3632819000-363281a000 r--p 00019000 fd:00  
23035913                       /lib64/ld-2.6.so
363281a000-363281b000 rw-p 0001a000 fd:00  
23035913                       /lib64/ld-2.6.so
3632e00000-3632e02000 r-xp 00000000 fd:00  
23035937                       /lib64/libutil-2.6.so
3632e02000-3633001000 ---p 00002000 fd:00  
23035937                       /lib64/libutil-2.6.so
3633001000-3633002000 r--p 00001000 fd:00  
23035937                       /lib64/libutil-2.6.so
3633002000-3633003000 rw-p 00002000 fd:00  
23035937                       /lib64/libutil-2.6.so
3633600000-3633747000 r-xp 00000000 fd:00  
23035917                       /lib64/libc-2.6.so
3633747000-3633946000 ---p 00147000 fd:00  
23035917                       /lib64/libc-2.6.so
3633946000-363394a000 r--p 00146000 fd:00  
23035917                       /lib64/libc-2.6.so
363394a000-363394b000 rw-p 0014a000 fd:00  
23035917                       /lib64/libc-2.6.so
363394b000-3633950000 rw-p 363394b000 00:00 0
3633a00000-3633a82000 r-xp 00000000 fd:00  
23035927                       /lib64/libm-2.6.so
3633a82000-3633c81000 ---p 00082000 fd:00  
23035927                       /lib64/libm-2.6.so
3633c81000-3633c82000 r--p 00081000 fd:00  
23035927                       /lib64/libm-2.6.so
3633c82000-3633c83000 rw-p 00082000 fd:00  
23035927                       /lib64/libm-2.6.so
3633e00000-3633e02000 r-xp 00000000 fd:00  
23035930                       /lib64/libdl-2.6.so
3633e02000-3634002000 ---p 00002000 fd:00  
23035930                       /lib64/libdl-2.6.so
3634002000-3634003000 r--p 00002000 fd:00  
23035930                       /lib64/libdl-2.6.so
3634003000-3634004000 rw-p 00003000 fd:00  
23035930                       /lib64/libdl-2.6.so
3634200000-3634214000 r-xp 00000000 fd:00  
23035929                       /lib64/libz.so.1.2.3
3634214000-3634413000 ---p 00014000 fd:00  
23035929                       /lib64/libz.so.1.2.3
3634413000-3634414000 rw-p 00013000 fd:00  
23035929                       /lib64/libz.so.1.2.3
3634600000-3634605000 r-xp 00000000 fd:00  
9931328                        /usr/lib64/libXdmcp.so.6.0.0
3634605000-3634804000 ---p 00005000 fd:00  
9931328                        /usr/lib64/libXdmcp.so.6.0.0
3634804000-3634805000 rw-p 00004000 fd:00  
9931328                        /usr/lib64/libXdmcp.so.6.0.0
3634a00000-3634a02000 r-xp 00000000 fd:00  
9929955                        /usr/lib64/libXau.so.6.0.0
3634a02000-3634c01000 ---p 00002000 fd:00  
9929955                        /usr/lib64/libXau.so.6.0.0
3634c01000-3634c02000 rw-p 00001000 fd:00  
9929955                        /usr/lib64/libXau.so.6.0.0
3634e00000-3634f04000 r-xp 00000000 fd:00  
9931329                        /usr/lib64/libX11.so.6.2.0
3634f04000-3635104000 ---p 00104000 fd:00  
9931329                        /usr/lib64/libX11.so.6.2.0
3635104000-363510b000 rw-p 00104000 fd:00 9931329              Aborted
[Valeria at papa001169 ~]$









-------------------------------------------------------
     Prof. Ulderico Wanderlingh
Dipt. di Fisica, Università di Messina
Salita Papardo, vill. S.Agata 98166 Messina
tel: +39 0906765023 - fax: +39 090395004
homepage http://ww2.unime.it/wanderlink



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