Is an empty file a valid reference?

[Jakob Nissen]

I currently have an issue where I, in my workflow, collect a series of references based on how well they match the reads, and the use that reference as a KMA index. However, kma index errors when given an empty file.

Is this intentional? I can see advantages to both errorring (what if the user accidentally passed in an empty file) and not erroring (what if an empty reference is valid)

[ptlcc]

Hi Jakob

I see your point. I think we found somewhere that an empty file was invalid fast format. But as the index can take multiple fasta files as input, I could adjust that part to give a warning and return exit code 1 to indicate that the user should be aware of possible erroneous input.

Best,
Philip