Description
so, trying to run example1.py, didn't setup my MATLABPATH to point to spm, so it is not available... running example simply stalls after puking little error which is barely detectable among the other output lines
$> python example1.py
PE: checking connections:
PE: finished checking connections
No clients found. running serially
Executing: Realign.spm H: c49a2f44ee83424c23f90790042e55b0
directory /home/yoh/proj/nipy/nipype.gitsvn/doc/examples/test3/Realign.spm exists
continuing to execute
copying /home/yoh/proj/nipy/nipype.gitsvn/doc/examples/data/s1/f3.nii to /home/yoh/proj/nipy/nipype.gitsvn/doc/examples/test3/Realign.spm/f3.nii
option cwd not supported
doing quick look:
$> strace -p 27588
Process 27588 attached - interrupt to quit
select(6, [3 5], [], [], NULL
C <unfinished ...>
Process 27588 detached
$> ls -l /proc/27588/fd/6
lr-x------ 1 yoh yoh 64 2009-10-07 09:43 /proc/27588/fd/6 -> pipe:[2800813]
So it waits for input which would never come? ;)
Here is a traceback I got after hitting Ctrl-C
Traceback (most recent call last):
File "example1.py", line 37, in <module>
pipeline.run()
File "/home/yoh/proj/nipy/nipype.gitsvn/install/lib/python2.5/site-packages/nipype/pipeline/engine.py", line 221, in run
self.run_in_series()
File "/home/yoh/proj/nipy/nipype.gitsvn/install/lib/python2.5/site-packages/nipype/pipeline/engine.py", line 252, in run_in_series
node.run()
File "/home/yoh/proj/nipy/nipype.gitsvn/install/lib/python2.5/site-packages/nipype/pipeline/node_wrapper.py", line 135, in run
self._run_interface(execute=True)
File "/home/yoh/proj/nipy/nipype.gitsvn/install/lib/python2.5/site-packages/nipype/pipeline/node_wrapper.py", line 214, in _run_interface
self._result = self._interface.run()
File "/home/yoh/proj/nipy/nipype.gitsvn/install/lib/python2.5/site-packages/nipype/interfaces/spm.py", line 125, in run
results = super(SpmMatlabCommandLine?,self).run()
File "/home/yoh/proj/nipy/nipype.gitsvn/install/lib/python2.5/site-packages/nipype/interfaces/matlab.py", line 66, in run
results = self._runner()
File "/home/yoh/proj/nipy/nipype.gitsvn/install/lib/python2.5/site-packages/nipype/interfaces/base.py", line 273, in _runner
runtime.stdout, runtime.stderr = proc.communicate()
File "/usr/lib/python2.5/subprocess.py", line 670, in communicate
return self._communicate(input)
File "/usr/lib/python2.5/subprocess.py", line 1213, in _communicate
rlist, wlist, xlist = select.select(read_set, write_set, [])