wainberg / psyops Goto Github PK

Hello,

Thanks a lot for this interesting method. I tried it, but I keep getting assertion errors, even with your example file. Do you have any idea why?

home/testing tools/PsyOPS$ python PsyOPS.py --GWAS-hit-file Howard_102_MDD.tsv --output-file PsyOPS_Clust2_MDD.tsv
Loaded 102 autosomal GWAS hits from Howard_102_MDD.tsv
TypeError: unhashable type: 'set'

The above exception was the direct cause of the following exception:

Traceback (most recent call last):
File "PsyOPS.py", line 118, in
alias_to_gene = alias_to_gene[alias_to_gene.isin(genes.gene)]
File "/opt/conda/lib/python3.6/site-packages/pandas/core/series.py", line 4698, in isin
result = algorithms.isin(self, values)
File "/opt/conda/lib/python3.6/site-packages/pandas/core/algorithms.py", line 475, in isin
return f(comps, values)
File "pandas/_libs/hashtable_func_helper.pxi", line 454, in pandas._libs.hashtable.ismember_object
SystemError: <built-in method view of numpy.ndarray object at 0x7fb147995490> returned a result with an error set