Usage: mixcr buildLibrary --species <species_name> --chain <chain> [--taxon-id <taxon_id>]
                          [--do-not-infer-points] [--keep-intermediate] [--debug]
                          [--force-overwrite] [--no-warnings] [--verbose] [--help]
                          (--v-genes-from-species <species> | [--v-genes-from-fasta <v.fasta>
                          --v-gene-feature <gene_feature>]) (--j-genes-from-species <species> |
                          [--j-genes-from-fasta <j.fasta> [--j-gene-feature <gene_feature>]])
                          [--d-genes-from-species <species> | [--d-genes-from-fasta <j.fasta>
                          [--d-gene-feature <gene_feature>]]] [--c-genes-from-species <species> |
                          [--c-genes-from-fasta <j.fasta> [--c-gene-feature <gene_feature>]]]
                          library.json[.gz]
Build custom reference library
      library.json[.gz]     Output library.
      --species <species_name>
                            Species name
      --chain <chain>       Immunological chain
      --v-genes-from-fasta <v.fasta>
                            FASTA file with Variable genes
      --v-gene-feature <gene_feature>
                            Gene feature corresponding to Variable gene sequences in FASTA (e.g.
                              VRegion or VGene)
      --v-genes-from-species <species>
                            Species to take Variable genes from it (human, mmu, lamaGlama, alpaca,
                              rat, spalax)
      --j-genes-from-fasta <j.fasta>
                            FASTA file with Joining genes
      --j-gene-feature <gene_feature>
                            Gene feature corresponding to Joining gene sequences in FASTA (JRegion
                              by default)
      --j-genes-from-species <species>
                            Species to take Joining genes from it (human, mmu, lamaGlama, alpaca,
                              rat, spalax)
      --d-genes-from-fasta <j.fasta>
                            FASTA file with Diversity genes
      --d-gene-feature <gene_feature>
                            Gene feature corresponding to Diversity gene sequences in FASTA
                              (DRegion by default)
      --d-genes-from-species <species>
                            Species to take Diversity genes from it (human, mmu, lamaGlama, alpaca,
                              rat, spalax)
      --c-genes-from-fasta <j.fasta>
                            FASTA file with Constant genes
      --c-gene-feature <gene_feature>
                            Gene feature corresponding to Constant gene sequences in FASTA (CExon1
                              by default)
      --c-genes-from-species <species>
                            Species to take Constant genes from it (human, mmu, lamaGlama, alpaca,
                              rat, spalax)
      --taxon-id <taxon_id> Taxon ID
      --do-not-infer-points Do not infer reference points
      --keep-intermediate   Keep intermediate files
      --debug               Print library debugging information
  -f, --force-overwrite     Force overwrite of output file(s).
      -nw, --no-warnings    Suppress all warning messages.
      --verbose             Verbose messages.
  -h, --help                Show this help message and exit.
