[galaxy-dev] Failure to prepare job error


I'm running a Python/R tool from my Amazon Galaxy instance. To use R, I
import a package I've installed called PypeR. My tool works fine from the
command line, but when I try to run it on my Amazon instance, it gives me
this error:

Traceback (most recent call last):
File "/nfs/software/galaxy/lib/galaxy/jobs/runners/local.py", line
61, in run_job
File "/nfs/software/galaxy/lib/galaxy/jobs/__init__.py", line 371, in prepare
self.command_line = self.tool.build_command_line( param_dict )
File "/nfs/software/galaxy/lib/galaxy/tools/__init__.py", line 1543,
in build_command_line
command_line = fill_template( self.command, context=param_dict )
File "/nfs/software/galaxy/lib/galaxy/util/template.py", line 9, in
return str( Template( source=template_text, searchList=[context] ) )
line 1004, in __str__
return getattr(self, mainMethName)()
File "cheetah_DynamicallyCompiledCheetahTemplate_1311891781_86_41894.py",
line 83, in respond
EOFError: EOF when reading a line

With the additional caption "failure to prepare job".
I've been struggling with this for days, and I'm pretty sure I don't
have a typo in my .xml file. How can I solve this?

Kristen Eisenberg
Billige Flüge
Marketing GmbH
Emanuelstr. 3,
10317 Berlin
Telefon: +49 (33)
utebachmeier at gmail.com
http://flug.airego.de - Billige Flüge vergleichen
Please keep all replies on the list by using "reply all"
in your mail client.  To manage your subscriptions to this
and other Galaxy lists, please use the interface at:


Reply via email to