It seems to be the annotate.py script that's running into issues recognising files within the supplied directory. Specifically I think this is the line that's failing:
cmd = "xargs --arg-file=/dev/stdin ln -s --target-directory=%s" % genome_directory
I've already made changes as suggested with Issue number #94, but it didn't seem to help.
These are the package versions I'm using on a Mac:
enrichM 0.5.0
hmmer 3.3.1
diamond 0.9.36 ( I can't seem to install version 0.9.22 as the installation instructions recommend)
prodigal 2.6.2
parallel 0200722
MMseqs2 11-e1a1c_1
R 4.0.2_1
mcl 14-137
Hi!
I've been trying to use this tool to annotate a prodigal output, and get the % of kegg module completeness.
Running this:
enrichm annotate --protein_directory Samples --ko --threads 2 --force
Leads to this:
It seems to be the annotate.py script that's running into issues recognising files within the supplied directory. Specifically I think this is the line that's failing:
cmd = "xargs --arg-file=/dev/stdin ln -s --target-directory=%s" % genome_directory
I've already made changes as suggested with Issue number #94, but it didn't seem to help.These are the package versions I'm using on a Mac: enrichM 0.5.0 hmmer 3.3.1 diamond 0.9.36 ( I can't seem to install version 0.9.22 as the installation instructions recommend) prodigal 2.6.2 parallel 0200722 MMseqs2 11-e1a1c_1 R 4.0.2_1 mcl 14-137