Never mind, I figured it out. I deleted all instances of the job and the temp dataset. Thanks R On Apr 4, 2014, at 2:29 PM, Ravi Alla <ravi.alla@berkeley.edu> wrote:

Anyone please?? I cannot even start the galaxy server. Makes me wonder if something in the database got messed up. On Apr 4, 2014, at 11:16 AM, Ravi Alla <ravi.alla@berkeley.edu> wrote:

...

Hi devs, I deleted a tool called upload_local_file and tried to restart galaxy server but I keep getting the following error. Any idea how to solve this?

File "/srv/www/galaxy/source/galaxy-dist/lib/galaxy/webapps/galaxy/buildapp.py", line 39, in app_factory app = UniverseApplication( global_conf = global_conf, **kwargs ) File "/srv/www/galaxy/source/galaxy-dist/lib/galaxy/app.py", line 130, in __init__ self.job_manager = manager.JobManager( self ) File "/srv/www/galaxy/source/galaxy-dist/lib/galaxy/jobs/manager.py", line 37, in __init__ self.job_handler.start() File "/srv/www/galaxy/source/galaxy-dist/lib/galaxy/jobs/handler.py", line 35, in start self.job_queue.start() File "/srv/www/galaxy/source/galaxy-dist/lib/galaxy/jobs/handler.py", line 78, in start self.__check_jobs_at_startup() File "/srv/www/galaxy/source/galaxy-dist/lib/galaxy/jobs/handler.py", line 109, in __check_jobs_at_startup JobWrapper( job, self ).fail( 'This tool was disabled before the job completed. Please contact your Galaxy administrator.' ) File "/srv/www/galaxy/source/galaxy-dist/lib/galaxy/jobs/__init__.py", line 761, in fail self.app.object_store.update_from_file(dataset.dataset, create=True) File "/srv/www/galaxy/source/galaxy-dist/lib/galaxy/objectstore/__init__.py", line 349, in update_from_file self.create(obj, **kwargs) File "/srv/www/galaxy/source/galaxy-dist/lib/galaxy/objectstore/__init__.py", line 298, in create open(path, 'w').close() # Should be rb? IOError: [Errno 2] No such file or directory: '/global/scratch/galaxy/webapp/files/000/dataset_194.dat'

Thanks Ravi