Stringtie error message
0
0
Entering edit mode
6.4 years ago
saj98 ▴ 140

Hello everyone

I am using the following command which already explained in the nature protocol paper

stringtie –e –B -p 8 -G stringtie_merged.gtf -o ballgown/WS021/WS021.gtf Bam/WS021.bam

The issue it gave me the following error

Error: input file –e cannot be found!

However, when I delete -e and -B options, it run fine. Can anyone explain for me the problem? I appreciate your time and help

software error • 2.5k views
ADD COMMENT
1
Entering edit mode
stringtie –e –B -p 8 -G stringtie_merged.gtf -o ballgown/WS021/WS021.gtf Bam/WS021.bam

Has the above command line been copy / pasted from your scripts? Note that –e and –B (with dash) are different from -e and -B (with hyphen), and command line parameters are indicated by hyphens, not dashes.

ADD REPLY
0
Entering edit mode

This looks like a positional parameters/named parameters error. Maybe the program is not equipped to handle -e in the position you're passing it in?

ADD REPLY
0
Entering edit mode

Try putting the -e and -B at the end of the command, maybe.

ADD REPLY

Login before adding your answer.

Traffic: 1741 users visited in the last hour
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6