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.). GreetingsPS: 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?