BRAKER
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Gaius-Augustus
An issue with the key?
Hello,
I keep getting this error:
ERROR in file BRAKER-2.1.6/scripts/braker.pl at line 6586 Failed to execute: perl /home/diya/project/gmes_linux_64/gmes_petap.pl --verbose --cores=1 --ES --gc_donor 0.001 --sequence=/home/diya/project/braker/genome.fa --soft_mask auto 1>/home/diya/project/braker/GeneMark-ES.stdout 2>/home/diya/project/braker/errors/GeneMark-ES.stderr
The most common problem is an expired or not present file ~/.gm_key!
The gm_key file is hidden in my home directory. I even tried re-installing GeneMark to make sure I have the right key but that didn't work either. Could there be another reason why this is happening?
Here's the command I used for reference:
BRAKER-2.1.6/scripts/braker.pl --genome=genome.fa --prot_seq=proteins.fa --softmasking --GENEMARK_PATH=/home/diya/project/gmes_linux_64/ --DIAMOND_PATH=/home/diya/project/ --PROTHINT_PATH=/home/diya/project/ProtHint-2.6.0/bin/
Cheers, Diya
Just an update:
I checked if GeneMark was installed correctly by running the check_install.bash script and this is the message I get:
Checking GeneMark-ES installation Checking Perl setup All required Perl modules were found Checking GeneMark.hmm setup GeneMark.hmm was found GeneMark.hmm is set Error, unexpected condition was detected
I've installed GeneMark exactly the way I was supposed to. Could this be a licensing issue?
HI @DiyaPrabhuram,
are there any more error messages related to the check_install.bash test? One common issue is that the default GeneMark binary does not work on new Debian-based systems. You can fix that by downloading a version for "LINUX 64 kernel 4 - 5" from http://exon.gatech.edu/GeneMark/license_download.cgi.
Tomas
have you solve this error , I GOT the sam
it show the error of key
but it could run and down in single command ,but its error when run braker.lp
Are there any error or other messages in .../braker/errors/GeneMark-ET.stderr or in .../braker/GeneMark-ET.stdout?