[maker-devel] Continuing problems

[Steven L. Miller]

I just ran Maker on my 75,507 unitig database.  The maker_opts.ctl file included EST Evidence in the form of a large transcript rna file from Arabidopsis thaliana (GenBank) for est=, and protein= files from Arabidopsis thaliana and a uniprot file from a closely related plant to my organism.  All contigs started and finished.  Looking at the SLURM output some of them ran the #Widget:: RepeatMasker only.

Other contigs (e.g. tig00000004) ran 111 pages of RepeatMasker, blastx repeats, formater, running blast search, blastx, setting up GFF3 output and fast chunks, formatting database, etc. on the Arabidopsis rna file, then on the two protein files.

However, when I look at the location of that particular contig  ptero.unitigs_datastore/C3/F2/tig00000004/ in the _master_datastor_index.log file

I get only this:

.././theVoid.tig00000004/run.logtig00000004.gff.swp
There is no maker.proteins.fasta or maker.transcripts.fasta file.
When I look at the tig00000004.gff file, it is empty.
Am I even on the right track?
Thanks for any help you can provide.Sincerely,Steve MillerBotanyUniversity of Wyoming