[galaxy-dev] history export tool loading panic

[Louise-Amélie Schmitt]

Le 03/06/2011 15:19, Peter Cock a écrit :
> 2011/6/3 Louise-Amélie Schmitt<louise-amelie.schmitt at embl.de>:
>> Hi
>>
>> I just blew everything up, I have no idea why. Galaxy doesn't start anymore.
>> When I run the run.sh script, it stops after loading the converters and just
>> crashes. Here's the traceback:
>>
>> Traceback (most recent call last):
>>   File "/home/galaxy/galaxy-dev/lib/galaxy/web/buildapp.py", line 82, in
>> app_factory
>>     app = UniverseApplication( global_conf = global_conf, **kwargs )
>>   File "/home/galaxy/galaxy-dev/lib/galaxy/app.py", line 52, in __init__
>>     load_history_imp_exp_tools( self.toolbox )
>>   File "/home/galaxy/galaxy-dev/lib/galaxy/tools/imp_exp/__init__.py", line
>> 34, in load_history_imp_exp_tools
>>     history_exp_tool = toolbox.load_tool( tmp_name.name )
>>   File "/home/galaxy/galaxy-dev/lib/galaxy/tools/__init__.py", line 131, in
>> load_tool
>>     tree = util.parse_xml( config_file )
>>   File "/home/galaxy/galaxy-dev/lib/galaxy/util/__init__.py", line 104, in
>> parse_xml
>>     tree = ElementTree.parse(fname)
>>   File
>> "/home/galaxy/galaxy-dev/eggs/elementtree-1.2.6_20050316-py2.6.egg/elementtree/ElementTree.py",
>> line 859, in parse
>>     tree.parse(source, parser)
>>   File
>> "/home/galaxy/galaxy-dev/eggs/elementtree-1.2.6_20050316-py2.6.egg/elementtree/ElementTree.py",
>> line 584, in parse
>>     self._root = parser.close()
>>   File
>> "/home/galaxy/galaxy-dev/eggs/elementtree-1.2.6_20050316-py2.6.egg/elementtree/ElementTree.py",
>> line 1251, in close
>>     self._parser.Parse("", 1) # end of data
>> ExpatError: no element found: line 1, column 0
>> Exception IOError: (28, 'No space left on device') in<bound method
>> _TemporaryFileWrapper.__del__ of<closed file '<fdopen>', mode 'w+b' at
>> 0x8539a50>>  ignored
>>
>> Since the message is not really self-explanatory, I have no idea as to
>> what's gone wrong. The only thing I know is that the file referred by
>> tmp_name.name is empty. Do you have an idea where I should be looking?
>>
>> I really can't relate that to anything I did recently, I just modified some
>> parameter labels in two tools, which should be really harmless, and the
>> display name of a reference genome, which shouldn't make any difference
>> either.
> The message looks self explanatory to me, 'No space left on device'
> means the disk is full. The fact that this is from a temporary file suggests
> it might not be the partition/disk where Galaxy is installed, but the system
> temp folder which is often a different partition. So check both, and also
> if you have any user disk quote in place, check that.
>
> Peter

Yes you're right, I kinda misread this part in the panic... Sorry for 
being an idiot again :)

Thanks a lot!
L-A