Dear All,
I am running the example_watcher_folder.py API script and it
intermittently fails to run a workflow on a file dropped into the import
directory (the file is imported and the workflow starts running, but its
jobs hang or fail). Galaxy uses a condor dramaa job runner. When I look
at the galaxy script being run by condor, it sets the PYTHONPATH and
then executes the following command, which also fails at the command line.
galaxy@vm-debian:~/galaxy-dist$ python
/home/galaxy/galaxy-dist/tools/filters/sorter.py
--input=/tmp/galaxy/datafiles/000/dataset_105.dat
--out_file1=/tmp/galaxy/datafiles/000/dataset_106.dat
--column=7 --style=num --order=DESC
Traceback (most recent call last):
File "/home/galaxy/galaxy-dist/tools/filters/sorter.py", line 15, in
<module>
from galaxy import eggs
ImportError: No module named galaxy
How can I resolve this error? I would like to be able to test such
commands at the command line, as well as ensure that galaxy workflows
run reliably.
Thanks,
Oren
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