I wrote script to convert cross_match output into gff for use with ACT. Seems to work fine for ACT version 2 [beta] but the stable release of ACT version 2 does not display the gff information, nor is the gff listed under "Entries" after loading using "File:Read and Entry".
I presume something is non-standard in the gff I'm generating but I can't see what it would be. Here are the first 4 lines of a gff file that won't load:


5MCconcat fuzznuc RT5E 59441 59461 21.000 + . Sequence "5MCconcat.1"
5MCconcat fuzznuc RT5E 70888 70908 21.000 + . Sequence "5MCconcat.2"
5MCconcat fuzznuc RT_RNAseH 62560 62622 63.000 - . Sequence "5MCconcat.1"
5MCconcat fuzznuc RT_RNAseH 108752 108820 69.000 - . Sequence "5MCconcat.2"
5MCconcat fuzznuc CCHC 58125 58166 42.000 + . Sequence "5MCconcat.1"


The fields are all tab delimited, although my mail client converted the tabs to spaces.

Any suggestions on what might be wrong?

Phillip SanMiguel
Purdue Genomics Core Facility




Reply via email to