Error when running with non-plant refseq database

[ko0000]

Description of the bug

When I was running the EnTAP-nf with my nematode sequence, I replaced the plant refseq dataset with invertebrate refseq dataset from NCBI. The following error occurred.

No such file: /weka/data/lab/usr/05_entap/refseq/refseq_plant.protein.dmnd

 -- Check script '/home/usr/.nextflow/assets/systemsgenetics/entapnf/workflows/entapnf.nf' at line: 219 or see '.nextflow.log' file for more details

The Error was solved when I change my invertebrate refseq dataset fasta file name to “refseq_plant.protein.dmnd”. In the nextflow script at line: 219, It should replace “db = [ file(params.data_refseq + "/refseq_plant.protein.dmnd", checkIfExists: true) ]” to ```db = [ file(params.data_refseq + "/*.dmnd", checkIfExists: true) ] ‘''

Best,

Ko

Command used and terminal output

nextflow run systemsgenetics/entapnf \
  -resume \
  -profile kamiak,singularity \
  --batch_size 100 \
  --input 05_entap/m_chitwoodi_clean.faa \
  --data_sprot 01-input_data/functional_data/uniprot_sprot \
  --data_refseq 05_entap/refseq \
  --data_ipr 01-input_data/functional_data/interproscan/interproscan-5.36-75.0/data \
  --enzyme_dat 01-input_data/functional_data/uniprot_sprot/enzyme.dat \
  --max_cpus 100

##Output##

No such file: /weka/data/lab/usr/05_entap/refseq/refseq_plant.protein.dmnd

 -- Check script '/home/usr/.nextflow/assets/systemsgenetics/entapnf/workflows/entapnf.nf' at line: 219 or see '.nextflow.log' file for more details

Relevant files

No response

System information

N E X T F L O W ~ version 21.10.6 systemsgenetics/entapnf v0.1.0

[juliayork]

note that this is still a bug