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When testing some of the Somatem scripts, we recently installed lemur from bioconda and the recent pandas update to v3.0.1 has created
ValueError: You are trying to merge on int64 and str columns for key 'Target_ID'in theEM_stepfunction.See error here (partial copy from Somatem nextflow.log script):
lemur_pandas_error.txt
To fix this, I made both
self.P_rgs_df.reset_index()andself.Fkeys into strings before merging.Tested and works as before!