Comments (2)
same question
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Thank you, user @namho4577 for your report!
As I said in a different ticket, this is incorrect: -g $HOME/.pgap/non/input.yaml
, -g argument requires FASTA files, not YAML file.
YAML file is old school. You can still use it, but then -g and -s parameters should not be specified. Hope this helps
As for user @asd1864714 : I am afraid I need a little bit more information. Did you also specify YAML file with -g parameter?
If not, I anticipate the issue would be quite different and I recommend to open a new Issue for this.
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Related Issues (20)
- [BUG] A YAML file argument cannot be used in combination with either the -s/--organism or -g/--genome arguments HOT 8
- [BUG] -c flag not received: /mnt/shared/scratch/theaven/uncompressed/hogenhout/pgap-s7 HOT 1
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- [BUG] Genus species requirement HOT 8
- [BUG] PGAP fails on test genome when PGAP_INPUT_DIR set to other than default HOT 4
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