SystemError: <built-in method values of pyBigWig.bigWigFile object at 0x14f4562ff0> returned a result with an error set

[Jingxian-Huang]

Hi, thanks for creating this excellent tool.

I encountered a error when runing step 2.2.2, this is the code I run: MotifRaptor snpfeature -wd step2_out -c ung" -cb step1_out/testcelltype/bedfiles

One thing may be related is that, I did not get any highlighted TF (significant one) from step 2.2.1, could this be the reason?

This is the error I got:

Namespace(cell_type='lung', command='snpfeature', snp_bed_files='step1_out/testcltype/bedfiles', workdir='step2_out')
Processing...UCE.bed!!!
Processing...phastCons.bw!!!
TypeError: argument 2 must be int, not numpy.int64

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

Traceback (most recent call last):
  File "/rds/general/user/jh622/home/anaconda3/envs/motifraptor_env/bin/MotifRapr", line 10, in <module>
    sys.exit(main())
  File "/rds/general/user/jh622/home/anaconda3/envs/motifraptor_env/lib/python3.site-packages/MotifRaptor/MotifRaptor.py", line 265, in main
    SNPfeatures.SNPfeatures_main(featurefolder, SNPbedfile, SNPfeaturedf_outfileSNPnormalize_list)
  File "/rds/general/user/jh622/home/anaconda3/envs/motifraptor_env/lib/python3.site-packages/MotifRaptor/SNPUtility/SNPfeatures.py", line 55, in SNPfeatures_ma
    feature_df=SNPExtractFeatureFromBigwig(featurefile,SNPbedfile)
  File "/rds/general/user/jh622/home/anaconda3/envs/motifraptor_env/lib/python3.site-packages/MotifRaptor/SNPUtility/SNPfeatures.py", line 19, in SNPExtractFeateFromBigwig
    vals = bw.values(cols0,cols1,cols2)[0]
SystemError: <built-in method values of pyBigWig.bigWigFile object at 0x14f4562ff0> returned a result with an error set

Thank you very much for your help.