Using temp option breaks MFannot

[Adamtaranto]

Using the MFannot docker container.

If the --T option is set then step 1 fails even though Masterfile_copy is created in the correct location.

mfannot -g 4 -l data/test_mito.log -o data/test_outfile --T data/tmp examples/allomyces.fna

Error:

----------------------------------
         Gene Annotation          
----------------------------------
Parsing masterfile examples/allomyces.fna...

1) Translate (flip)...
Cannot read from masterfile 'data/Masterfile_copy': No such file or directory

[NilaBlueshirt]

Hello,

The --T flag is the temp working directory, so it should be a folder path. I found this info by running mfannot -h.

Regards, Nil