Error: no compatible reference specifications

DiltheyLab / HLA-LA

Fast HLA type inference from whole-genome data

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Error: no compatible reference specifications #100

Open pablosoro opened 1 year ago

pablosoro commented 1 year ago

I'm facing this error:

Have found no compatible reference specifications in /nemo/stp/babs/working/barriop/.conda/envs/HLA_typing/opt/hla-la/src/../graphs/PRG_MHC_GRCh38_withIMGT/knownReferences - create a file for this BAM file and try again. at /camp/stp/babs/working/barriop/.conda/envs/HLA_typing/bin/HLA-LA.pl line 364.

idxstats.txt

My idxstat file is attached. Many thanks in advance.

Best, Pablo

AlexanderDilthey commented 1 year ago

Hi @pablosoro,

I added a reference specification file that should match your idxstats (https://github.com/DiltheyLab/HLA-LA/blob/master/additionalReferences/PRG_MHC_GRCh38_withIMGT/chm13_3.txt) - do a fresh pull from GitHub and your input files should work!

Best wishes

Alex