Hi,
When I use the --outseq argument (barrnap --outseq bacteria.fna examples/bacteria.fna), the following command line is invoked within barrnap :
bedtools getfasta -s -name+ -fo 'bacteria.fna' -fi 'examples/bacteria.fna' -bed '/tmp/ka24159v9M
Obviously, -name+ option is not implemented in bedtools so it exits with the following message :
*****ERROR: Unrecognized parameter: -name+ *****
Deleting the '+' would surely fix the issue. By then, I have to implement some bash workaround to extract the sequences.
Hi, When I use the --outseq argument (
barrnap --outseq bacteria.fna examples/bacteria.fna), the following command line is invoked within barrnap :bedtools getfasta -s -name+ -fo 'bacteria.fna' -fi 'examples/bacteria.fna' -bed '/tmp/ka24159v9MObviously, -name+ option is not implemented in bedtools so it exits with the following message :*****ERROR: Unrecognized parameter: -name+ *****Deleting the '+' would surely fix the issue. By then, I have to implement some bash workaround to extract the sequences.Kindly