hmmsearch/scan does not recognize *.hmm database

[B10inform]

HI,

I am getting issues with the asterisk on the database path while using hmmscan.

hmmscan/hmmsearch works: hmmsearch --domtblout SAMPLE ./motifs/*/PF002.hmm XP_526.fasta > log

hmmscan/hmmsearch does not work: hmmsearch --domtblout SAMPLE ./motifs/ /.hmm XP_526.fasta > log

Error message: Incorrect number of command line arguments. Usage: hmmsearch [options]

where most common options are: -h : show brief help on version and usage

To see more help on available options, do hmmsearch -h

Any help Please??

Thanks

[cryptogenomicon]

You're not providing a single file as an argument (which is what these programs take, as the documentation says), which is why your command with * expansions isn't working. If you want to use a command line glob * expansion to search many individual HMM files in a single command line, use something like xargs. If you want to treat many HMM files as a "database" (as in Pfam files), concatenate individual HMM files together with cat.