[KeyError] arcasHLA `convert` - using "group"
jinhys opened this issue · comments
Hi, I'm getting KeyErrors when I run arcasHLA convert using the -r parameter like the commands as follows:
./arcasHLA convert -r p-group <genotypes.tsv> <outfile.tsv>
./arcasHLA convert -r g-group <genotypes.tsv> <outfile.tsv>
1. error message from running -r p-group:
Traceback (most recent call last):
File "/home/user/tool/arcasHLA/arcasHLA_master/scripts/convert.py", line 196, in <module>
genotypes[subject][gene] = convert_allele(allele, resolution)
File "/home/user/tool/arcasHLA/arcasHLA_master/scripts/convert.py", line 98, in convert_allele
if allele in p_group[i]:
KeyError: 3
2. error message from running -r g-group:
Traceback (most recent call last):
File "/home/user/tool/arcasHLA/arcasHLA_master/scripts/convert.py", line 196, in <module>
genotypes[subject][gene] = convert_allele(allele, resolution)
File "/home/user/tool/arcasHLA/arcasHLA_master/scripts/convert.py", line 90, in convert_allele
if allele in g_group[i]:
KeyError: 3
*For your reference, these commands work well without any errors:
./arcasHLA convert -r 1 <genotypes.tsv> <outfile.tsv>
./arcasHLA convert -r 2 <genotypes.tsv> <outfile.tsv>
./arcasHLA convert -r 3 <genotypes.tsv> <outfile.tsv>
It would be greatly appreciated if you could fix these KeyErrors! - Please let me know if you need further details.
Hi @abuendia - If you're available, could you please take a look at these KeyErrors? Thank you!
