I'm in the process of upgrading Galaxy's GEMINI tool wrappers from v0.18.1 to 0.20.1 and our tool tests report a new failure with the new version of gemini dump. It looks as if the --genotypes option isn't working anymore.
The error boils down to:
File "lib/python2.7/site-packages/gemini/gemini_utils.py", line 51, in get_col_names_and_indices
inames = [x for x in inames if not (x[1].startswith("gt") and
File "lib/python2.7/site-packages/sqlalchemy/sql/elements.py", line 2993, in __bool__
raise TypeError("Boolean value of this clause is not defined")
TypeError: Boolean value of this clause is not defined
and if you could fix it, it would be awesome (otherwise we'll hide the corresponding select option from the Galaxy tool interface for now). Thanks a lot in advance!
I'm in the process of upgrading Galaxy's GEMINI tool wrappers from v0.18.1 to 0.20.1 and our tool tests report a new failure with the new version of
gemini dump. It looks as if the--genotypesoption isn't working anymore.The error boils down to:
and if you could fix it, it would be awesome (otherwise we'll hide the corresponding select option from the Galaxy tool interface for now). Thanks a lot in advance!