Overview¶
Parameters¶
--hml
- HML file
- Required parameter
--output
- Output directory
- Required parameter
--imgtdir
- Location of where the BLAST IMGT database is located
- Default location is /opt/html on the docker container
--imgt
- IMGT database version
- Default is 3200
--report
- Binary flag for generating HTML validation report
- default is 1
Executing¶
./nextflow run nmdp-bioinformatics/flow-blast-hml -with-docker \
nmdpbioinformatics/docker-blast-hml \
--hml test_file.hml --outdir /path/to/output/dir
After running this command you should find a report and a validated file in the ouput directory you specified.