Thank you Greg, I added start+1 and stop+1 to all my gtf entries and now I don’t get that error.
Abi On 1/25/12 3:10 PM, "Greg Roe" <[email protected]> wrote: Hi Abi, Negative one is an illegal value for a chromStart. GTF files are 1-relative coordinates where the first base of a chromosome is 1, the equivalent chromStart value is 0. See also: http://genome.ucsc.edu/FAQ/FAQformat.html#format4 Please let us know if you have any additional questions: [email protected] - Greg Roe UCSC Genome Bioinformatics Group On 1/23/12 12:58 PM, Lakshmanan, Abirami wrote: Hi, I am trying to upload a gtf file (output from cufflinks/cuffmerge of ucsc refseq zv9 and ucsc ensembl gene zv9) as a custom track to the UCSC site and I keep getting this following error. Error track load error (track name='ct_UserTrack_3545'): start -1, end 3618 out of range in findBin (max is 512M) I tried removing the entries which start at 1, 0 and are on the negative strand and still I get the same error. Has anyone encountered this before? Thanks for the help. Abi _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
