Question: Error ensuing while running Augustus gene prediction using hints file
0
gravatar for ngs_new_user
22 months ago by
ngs_new_user0 wrote:

Hello everyone, I am trying to predict genes for a eukaryotic non model organism using the gene predicting software augustus, with the help of a hintsfile. I followed the tutorial as it is explained on http://www.vcru.wisc.edu/simonlab/bioinformatics/programs/augustus/docs/readme.rnaseq.html to create the hints files. I modified the extrinsic file as is described in http://bioinf.uni-greifswald.de/augustus/binaries/tutorial/prediction.html#extr.

However whenever I submit the augustus run: augustus --species=fly --UTR=on afly2.fa --strand=both --introns=on --protein=on --codingseq=on --exonnames=on --genemodel=complete --extrinsicCfgFile=extrinsic.bug.cfg --hintsfile=hintsafly2.gff --outfile=afly2cmpl.gff

I get the following error:

FeatureCollection::esource: invalid source key: X
augustus: ERROR
       FeatureCollection::esource: invalid source key: X

Kindly assist. Any and all suggestions will be highly appreciated.

ADD COMMENTlink written 22 months ago by ngs_new_user0
Please log in to add an answer.

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 1174 users visited in the last hour