IMP-specific prokka conda recipe needed
prokka
comes by default with tbl2asn
.
While this makes sense when using prokka for isolate genomes, the use of this step for metagenomes is less apparent.
In particular, this step is very time-consuming, i.e., can take 10 hours or more.
Moreover, the output is currently not used at all by the IMP pipeline.
Hence, creating a dedicated recipe for prokka is suggested. A dedicated recipe would allow us to apply a patch to prokka's perl script to disable the tbl2asn step. While it could also be described in the installation instructions of IMP to comment-out the respective line when using the prokka bioconda recipe, having a dedicated recipe seems to be the cleaner solution.