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You need to install 'signalp' to use the --gram option.

Open abrozzi opened this issue 9 months ago • 0 comments

Dear,

I am on my MacOS (Ventura 13.6)

prokka does not find signalp with --gram option on

[10:32:32] Determined tbl2asn version is 025008 from 'tbl2asn 25.8   arguments:'
[10:32:32] You need to install 'signalp' to use the --gram option.

but

(base) ab@alessandros-iMac ~ % which signalp
signalp: aliased to /Users/ab/Applications/signalp-5.0b/bin/signalp

and

(base) ab@alessandros-iMac ~ % signalp
  -batch int
    	Number of sequences that the tool will run simultaneously. Decrease or increase size depending on your system memory. (default 10000)
  -fasta string
    	Input file in fasta format.
  -format string
    	Output format. 'long' for generating the predictions with plots, 'short' for the predictions without plots. (default "short")
  -gff3
    	Make gff3 file of processed sequences.
  -mature

Can you help me in letting prokka finding correctly signalp?

Thank you

abrozzi avatar Oct 04 '23 08:10 abrozzi