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Unable to specify database locations #316

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lingrongjin opened this issue Nov 28, 2023 · 0 comments
Open

Unable to specify database locations #316

lingrongjin opened this issue Nov 28, 2023 · 0 comments

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@lingrongjin
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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

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