[maker-devel] Missing files for some contains

[Muriel Gros-Balthazard]

Hello,

After running Maker, I have many directories since I have many contigs.

Each directory contains these files :
.gff                                      
.maker.augustus.transcripts.fasta 
.maker.augustus_masked.proteins.fasta
.maker.augustus.proteins.fasta
.maker.augustus_masked.transcripts.fasta
.maker.transcripts.fasta
.maker.trnascan.transcripts.fasta
.maker.proteins.fasta
.maker.non_overlapping_ab_initio.transcripts.fasta  
.maker.non_overlapping_ab_initio.proteins.fasta
run.log
and the directory  theVoid.

However, for some contigs, one or several files are missing.
I have more than 50% of contig directory missing the trnascan file.
Some are missing also the two files « ..non overlapping.. »
Some miss even more.

However, for all these contigs for which files are missing, I have the gff file and it’s written FINISHED in the log file.
So, my questions are :
	- why are those files missing ?
	- is it problematic ? Does it mean something didn’t work well ?
	- should I rerun Maker on these contigs ?

Thank you !

Muriel
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