Skip to content

Allowed process substitution as input #128

New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

Sign up for GitHub

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

Open
wants to merge 1 commit into
base: master
Choose a base branch
from
Open

Allowed process substitution as input #128

Changes from all commits
Commits
Show all changes
1 commit
Select commit
File filter

Filter by extension

Filter by extension
Conversations
Failed to load comments.
Loading
Jump to
Jump to file
Failed to load files.
Loading
Diff view
Diff view
2 changes: 1 addition & 1 deletion bin/prokka
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -398,7 +398,7 @@ msg("Using genetic code table $gcode.");
# read in sequences; remove small contigs; replace ambig with N

my $in = shift @ARGV or err("Please supply a contig FASTA file on the command line.");
(-r $in and !-d _ and -s _) or err("'$in' is not a readable non-empty FASTA file");
(-r $in and !-d _ and (-s _ or -p _)) or err("'$in' is not a readable non-empty FASTA file");
msg("Loading and checking input file: $in");
my $fin = Bio::SeqIO->new(-file=>$in, -format=>'fasta');
my $fout = Bio::SeqIO->new(-file=>">$outdir/$prefix.fna", -format=>'fasta');
Expand Down