#47 Problems with create-genewise-sync.pl

[Maria Cortazar Chinarro]

Hi,
I am currently running the "create-genewise-sync.pl" in order to do the annotations of the SNPs and it is failing all the time the script. First, it says that the gtf file did not have unique id but we solved the problem by extracting CDS from the annotated file avaiable in ensembl...but now it seems it ok, but It is still failing, the error message is the following:

the following line is not valid at /sw/apps/bioinfo/popoolation2/1201/rackham/create-genewise-sync.pl line 232, <$ifh> line 360233.
Parsing gtf file..

I hope anyone can help me,
Thank you!
Maria//

[Maria Cortazar Chinarro]

Please, does anyone have tried "create-genewise-sync.pl" command in order to do the annotation on a gtf file? Otherwise how do you do the annotation. This is a pity because I cannot finish the pipeline if this is not working properly.
I really appreciate if you could help me,
Kind regards,
Maria//