Hi there,
I’m having trouble downloading the biobakery databases. In this example, I’m using conda and generating the environment in the normal way. Here is the command I use and the error I receive. Note, I replace the actual directory path with a generic “$WKDIR” for discretion. I’ve tried downloading the databases in several ways, without success. Is anyone able to provide guidance?
Command:
biobakery_workflows_databases --install wmgx --location $WKDIR
Output:
Installing humann utility mapping database
Creating directory to install database: $WKDIR/humann
Creating subdirectory to install database: $WKDIR/humann/utility_mapping
Download URL: http://huttenhower.sph.harvard.edu/humann_data/full_mapping_v201901b.tar.gz
CRITICAL ERROR: Unable to download and extract from URL: http://huttenhower.sph.harvard.edu/humann_data/full_mapping_v201901b.tar.gz
WARNING: Unable to install database. Error running command: humann_databases --download utility_mapping full $WKDIR/humann
Unable to find strainphlan install.
Thanks in advance, let me know if you need more information.