Remove/replace references to GUNZIP_NCBI_FLU_FASTA

peterk87 · Jul 7, 2023 · d36b980 · d36b980
1 parent dfab8f5
commit d36b980
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Showing 2 changed files with 1 addition and 2 deletions.
diff --git a/workflows/illumina.nf b/workflows/illumina.nf
@@ -16,7 +16,6 @@ ch_influenza_metadata = file(params.ncbi_influenza_metadata)
 include { IRMA } from '../modules/local/irma'
 include { CHECK_SAMPLE_SHEET } from '../modules/local/check_sample_sheet'
 include { SUBTYPING_REPORT } from '../modules/local/subtyping_report'
-include { GUNZIP_NCBI_FLU_FASTA } from '../modules/local/misc'
 include { BLAST_MAKEBLASTDB } from '../modules/local/blast_makeblastdb'
 include { BLAST_BLASTN } from '../modules/local/blastn'
 include { CAT_ILLUMINA_FASTQ } from '../modules/local/cat_illumina_fastq'

diff --git a/workflows/nanopore.nf b/workflows/nanopore.nf
@@ -142,7 +142,7 @@ workflow NANOPORE {
  ch_ref_fasta = file(params.ref_db, type: 'file')
  CHECK_REF_FASTA(ch_ref_fasta)
  ch_versions = ch_versions.mix(CHECK_REF_FASTA.out.versions)
- CAT_DB(GUNZIP_NCBI_FLU_FASTA.out.fna, CHECK_REF_FASTA.out.fasta)
+ CAT_DB(ZSTD_DECOMPRESS_FASTA.out.file, CHECK_REF_FASTA.out.fasta)
  ch_input_ref_db = CAT_DB.out.fasta
  }