When running python3 VIBRANT_setup.py I noticed, that in the log file contains the following line (multiple times):
VIBRANT Error: HMMER3 is not installed or not in $PATH. Please install HMMER3.
hmmer is however installed, in the path (it's one of my favorite tools) and even in the conda envirnoment. In fact I guess it's pressing the profiles ( Pressed and indexed 17929 HMMs (17929 names and 17929 accessions).).
Still, at the end of the story, the setup is not working because of KEGG that cannot be pressed ( VIBRANT Error: it looks like the KEGG HMM profiles were not downloaded/pressed correctly. Try re-running the VIBRANT_setup.py script.).
Greetings
PS: since it's pretty much all hard coded, would it not be useful and easy to implement a check of the availability of the required files?
When running
python3 VIBRANT_setup.pyI noticed, that in the log file contains the following line (multiple times):hmmer is however installed, in the path (it's one of my favorite tools) and even in the conda envirnoment. In fact I guess it's pressing the profiles (
Pressed and indexed 17929 HMMs (17929 names and 17929 accessions).).Still, at the end of the story, the setup is not working because of KEGG that cannot be pressed (
VIBRANT Error: it looks like the KEGG HMM profiles were not downloaded/pressed correctly. Try re-running the VIBRANT_setup.py script.).Greetings
PS: since it's pretty much all hard coded, would it not be useful and easy to implement a check of the availability of the required files?