write_fasta_from_gff.py error about biocode HOT 5 CLOSED

Is it possible for you to post your GFF anywhere? This is usually due to the GFF not following the specification (which also supports our need for a proper validator in biocode, already requested in issue #17)

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The paths to the input files are:
/local/scratch/ncpalmateer/silva_lab/p67/BV115/BV115.gff3
/local/scratch/ncpalmateer/silva_lab/p67/BV115/BV115.fasta

Also, the gff file was made from GMAP.

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This is caused by features in your input file which have an mRNA but no associated CDS. I've commited a fix for this in commit 9870938 but it will still write empty-length entries in FASTA (no good) until I also patch the write_fasta_from_gff3.py script. Looking at that now.

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Example of one of the problematic features: F42B2A9795D365B6F68334D3D403D376.path1

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As noted in commit ebb1688, the export script now prints a warning and skips any features which have 0-length.

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