Hi all,
I've recently updated my local instance of Galaxy from bitbucket to git. It seems to work fine. No error when we run galaxy. But I've been tried to cleanup datasets and when I ran this command :
python scripts/cleanup_datasets/cleanup_datasets_Redirection.py universe_wsgi.ini -d 0 -1 -r $@
I have error in python module like this : Traceback (most recent call last): File "scripts/cleanup_datasets/cleanup_datasets_Redirection.py", line 23, in <module> import galaxy.model.mapping File "/data/galaxy-dist/lib/galaxy/model/mapping.py", line 19, in <module> from galaxy.model.custom_types import JSONType, MetadataType, TrimmedString, UUIDType File "/data/galaxy-dist/lib/galaxy/model/custom_types.py", line 13, in <module> from galaxy import app File "/data/galaxy-dist/lib/galaxy/app.py", line 16, in <module> from galaxy.visualization.data_providers.registry import DataProviderRegistry File "/data/galaxy-dist/lib/galaxy/visualization/data_providers/registry.py", line 4, in <module> from galaxy.visualization.data_providers import genome File "/data/galaxy-dist/lib/galaxy/visualization/data_providers/genome.py", line 15, in <module> from bx.bbi.bigbed_file import BigBedFile ImportError: No module named bigbed_file
I've already reinstall in galaxy virtual env lot of modules required as bx-python , pyyaml, pysam, webhelpers... But it's infinite and I don't understand why all python modules are not retrieve while the galaxy instance works fine and I've had no problem when I've updated the galaxy version.
How can I manage this problem and eventually re-install python, python modules in virtual env ?
Thanks a lot.
Julie