Chris Fields

Likely tied somewhat to #234

@moldach Try gunzipping the FASTA file and running it again. I suspect the compression is the issue.

Yep I agree with @hyphaltip , maybe try that @moldach ? This can happen if there is a system or perl-specific upgrade (and can also be tricky if you mix...

Relevant feature in the GenBank file is: ``` ... gene complement(2628722..2629917) /locus_tag="NCLIV_047911" /pseudo CDS complement(join(2628722..2629792,2629795..2629917)) /locus_tag="NCLIV_047911" /pseudo /codon_start=1 /product="hypothetical protein" /db_xref="PSEUDO:CBZ54361.1" ... ``` not sure why it has changed, @cmungall...

May try running `git bisect` to see where this changed. My feeling is a conversion to add the `pseudo` tag to the feature, though it's doing the right thing, actually...

`git bisect` indicates the change occurred way back in 2004 in 3a404dfbc73fec21247022d27d29a5c64ac428aa from @cmungall I'll open a branch for testing fixes.

We have failing Travis-CI at the moment, so hold off on a merge. We're planning on a new point release of BioPerl 1.6.x in about 1 month, we might want...

Jun, after a long long wait I'm finally getting around to reviewing these. I've pulled them into a separate branch from master and will merge back in after checking tests.

I saw the errors. Do you recall whether these are failing b/c the implementation details changed, or where the tests erroneous to begin with?

@heikkil just came here to add the same thing 😄