I got this error when trying to specify the location of dbcan_fam_activities: usage: DRAM-setup.py [-h]
{version,prepare_databases,set_database_locations,mv_db_folder,update_description_db,update_dram_forms,print_config,print_settings,import_config,export_config}
...
DRAM-setup.py: error: unrecognized arguments: --dbcan_fam_activities_loc /storage/jufengLab/jinlingrong/Database/dbCAN2/CAZyDB.08062022.fam-activities.txt
Here is the code I used for the prepare_databases step:
DRAM-setup.py prepare_databases --output_dir /storage/jufengLab/jinlingrong/Database/DRAM_data \
--kofam_hmm_loc /storage/jufengLab/jinlingrong/Database/kofamscan/profiles.tar.gz \
--kofam_ko_list_loc /storage/jufengLab/jinlingrong/Database/kofamscan/ko_list \
--skip_uniref \
--pfam_loc /storage/jufengLab/jinlingrong/Database/pfam-v36.0/Pfam-A.full.gz \
--pfam_hmm_loc /storage/jufengLab/jinlingrong/Database/pfam-v36.0/Pfam-A.hmm.dat.gz \
--dbcan_loc /storage/jufengLab/jinlingrong/Database/dbCAN2/dbCAN-HMMdb-V11.txt \
--threads 64 \
--dbcan_fam_activities_loc /storage/jufengLab/jinlingrong/Database/dbCAN2/CAZyDB.08062022.fam-activities.txt
I got this error when trying to specify the location of dbcan_fam_activities: usage: DRAM-setup.py [-h] {version,prepare_databases,set_database_locations,mv_db_folder,update_description_db,update_dram_forms,print_config,print_settings,import_config,export_config} ... DRAM-setup.py: error: unrecognized arguments: --dbcan_fam_activities_loc /storage/jufengLab/jinlingrong/Database/dbCAN2/CAZyDB.08062022.fam-activities.txt
Here is the code I used for the prepare_databases step: DRAM-setup.py prepare_databases --output_dir /storage/jufengLab/jinlingrong/Database/DRAM_data \ --kofam_hmm_loc /storage/jufengLab/jinlingrong/Database/kofamscan/profiles.tar.gz \ --kofam_ko_list_loc /storage/jufengLab/jinlingrong/Database/kofamscan/ko_list \ --skip_uniref \ --pfam_loc /storage/jufengLab/jinlingrong/Database/pfam-v36.0/Pfam-A.full.gz \ --pfam_hmm_loc /storage/jufengLab/jinlingrong/Database/pfam-v36.0/Pfam-A.hmm.dat.gz \ --dbcan_loc /storage/jufengLab/jinlingrong/Database/dbCAN2/dbCAN-HMMdb-V11.txt \ --threads 64 \ --dbcan_fam_activities_loc /storage/jufengLab/jinlingrong/Database/dbCAN2/CAZyDB.08062022.fam-activities.txt