I have locally installed galaxy on a linux(ubuntu) machine. I have not
installed all the tools on the local galaxy server. I am not able to
integrate MACS peak calling tool with galaxy. I have followed all the
instructions for installation of MACS and it is running fine on the
commandline(standalone is fine).But with galaxy it is giving the following
"An error occurred running this job: /bin/sh: macs: not found"
I have tried executing the macs_wrapper.py in the commandline and I have
got the following error:
   "Traceback (most recent call last):
   File "macs_wrapper.py", line 135, in <module>
    if __name__ == "__main__": main()
   File "macs_wrapper.py", line 45, in main
    options = simplejson.load( open( sys.argv[1] ) )
    IndexError: list index out of range"

I have set the PYTHONPATH(i.e PYTHONPATH=~/galaxy-dist/lib) and I have
macs in PATH. I am not a technical/computer expert as well, hence I would
appreciate if any one could help me resolve this problem & tell me where I
am going wrong

Thanks in advance


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