Yes, you do not have a url like http://some_path or ssh://some_path defined in your config file. Look at the command-line options for your routines and figure out how it is finding your config file. It could be looking in the wrong place or you could have an error in the config file (missing piece or undefined variable which would default to False (a boolean).
On 4/11/12, Klaus Metzeler <m...@klaus-metzeler.de> wrote: > > Dear all, > > I have a problem with the cleanup scripts on my local galaxy instance. > I am using the updated cleanup_datasets.py, as per Nate's earlier reply > here > http://gmod.827538.n3.nabble.com/Problem-running-purge-datasets-sh-cleanup-scripts-td3688016.html#none. > <http://gmod.827538.n3.nabble.com/Problem-running-purge-datasets-sh-cleanup-scripts-td3688016.html#none> > > This is the output I get when running cleanup_datasets.py: > > ~/ngs-bin/galaxy-dist $ scripts/cleanup_datasets/cleanup_datasets.py > -d 2 -6 -r > Traceback (most recent call last): > File "scripts/cleanup_datasets/cleanup_datasets.py", line 524, in > <module> > if __name__ == "__main__": main() > File "scripts/cleanup_datasets/cleanup_datasets.py", line 82, in main > ini_file = args[0] > IndexError: list index out of range > > ... and this if I call it via the shell script cleanup_datasets.sh > > ~/ngs-bin/galaxy-dist $ scripts/cleanup_datasets/delete_datasets.sh > Traceback (most recent call last): > File "./scripts/cleanup_datasets/cleanup_datasets.py", line 524, in > <module> > if __name__ == "__main__": main() > File "./scripts/cleanup_datasets/cleanup_datasets.py", line 101, in main > app = CleanupDatasetsApplication( config ) > File "./scripts/cleanup_datasets/cleanup_datasets.py", line 512, in > __init__ > self.model = galaxy.model.mapping.init( config.file_path, > config.database_connection, engine_options={}, create_tables=False, > object_store=self.object_store ) > File > "/home/klausmetzeler/ngs-bin/galaxy-dist/lib/galaxy/model/mapping.py", > line 1818, in init > load_egg_for_url( url ) > File > "/home/klausmetzeler/ngs-bin/galaxy-dist/lib/galaxy/model/mapping.py", > line 1798, in load_egg_for_url > dialect = guess_dialect_for_url( url ) > File > "/home/klausmetzeler/ngs-bin/galaxy-dist/lib/galaxy/model/mapping.py", > line 1794, in guess_dialect_for_url > return (url.split(':', 1))[0] > AttributeError: 'bool' object has no attribute 'split' > > > Any idea what might be wrong? > Thanks a lot for your support, > Klaus > > > ___________________________________________________________ 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: http://lists.bx.psu.edu/
