Hello all, I am trying to read in a VCF and write it out to a MatrixTable. However, I am getting this error:
Hail version: 0.2.81-edeb70bc789c
Error summary: NumberFormatException: For input string: "nan"
And this is a snippet of the error message:
GT:AD:AF:DP:GQ:PGT:PID:PL:PS 0|1:15,3:nan:18:81:0|1:2694593_A_C:81,0,610:2694593 0/0:3,0:nan:3:3:.:.:0,3,45 0/0:44,0:nan:44:99:.:.:0,100,1394 ./.:0,0:.:0:.:.:.:0,0,0 ./.:0,0:.:0:.:.:.:0,0,0 0/0:4,0:nan:4:0:.:.:0,0,70 ./.:0,0:.:0:.:.:.:0,0,0 0|1:1,2:nan:3:81:0|1:2694593_A_C:81,0,221:2694593 0|1:0,2:nan:2:99:0|1:2694593_A_C:123,0,185:2694593 0/0:37,0:nan:37:87:.:.:0,87,1177
For import_vcf, I have already changed the skip_invalid_loci to True and array_elements_required to False. Can I know if there are additional ways to get around this? Thank you!