HLA option error
judell-nmdp opened this issue · 2 comments
Specifying either --hla_table or --hla results in error: "Unknown option". Documentation isn't clear on which is correct, and --help doesn't list it in the options. This is a really exciting feature and I hope it gets fixed!
--hla works for me
Hi, I have the same problem. Entering the --hla option will cause unknown to be returned.
It running without a problem?
....
./gliph-group-discovery.pl --tcr gliph_input.txt --hla hlaTypesAll_gliph.txt
....
Unknown option: hla
loading reference db ../GLIPH/gliph/db/tcrab-naive-refdb-pseudovdjfasta.fa
Establishing global convergence significance cutoff
Evaluating depth of input sample in determining distance cutoff
Preparing local convergence motifs (3mers,4mers,xx.x,x.xx)
simulated stochastic resampling of depth 31563 from reference db
loading kmers from sample...
kmers obtained: 38856
mindepth>=3 kmers obtained: 15570
reference db has already been loaded
Subsampling (depth 31563): ##################################################