You signed in with another tab or window. Reload to refresh your session.You signed out in another tab or window. Reload to refresh your session.You switched accounts on another tab or window. Reload to refresh your session.Dismiss alert
I aim to set up the database, but the network connection issue stops the process. Is there a way to continue the "prepare_databases" process without starting everything over?
2024-02-21 17:58:27,555 - Starting the process of downloading data
2024-02-21 17:58:27,555 - The kegg_loc argument was not used to specify a downloaded kegg file, and dram can not download it its self. So it is assumed that the user wants to set up DRAM without it
2024-02-21 17:58:27,555 - The gene_ko_link_loc argument was not used to specify a downloaded gene_ko_link file, and dram can not download it its self. So it is assumed that the user wants to set up DRAM without it
2024-02-21 17:58:27,555 - Database preparation started
2024-02-21 17:58:27,555 - Downloading kofam_hmm
2024-02-21 23:40:49,402 - Downloading kofam_ko_list
2024-02-21 23:41:01,398 - Downloading uniref
2024-02-22 12:48:47,083 - Downloading pfam
2024-02-23 03:51:14,104 - Downloading pfam_hmm
2024-02-23 03:51:17,102 - Downloading dbcan
2024-02-23 04:09:15,738 - Downloading dbcan_fam_activities
2024-02-23 04:09:15,738 - Downloading dbCAN family activities from : https://bcb.unl.edu/dbCAN2/download/Databases/V11/CAZyDB.08062022.fam-activities.txt
2024-02-23 04:09:17,025 - Downloading dbcan_subfam_ec
2024-02-23 04:09:17,025 - Downloading dbCAN sub-family encumber from : https://bcb.unl.edu/dbCAN2/download/Databases/V11/CAZyDB.08062022.fam.subfam.ec.txt
2024-02-23 04:09:27,129 - Downloading vogdb
2024-02-23 04:12:58,907 - Downloading vog_annotations
2024-02-23 04:13:00,947 - Downloading viral
2024-02-23 04:14:00,457 - Downloading peptidase
2024-02-23 04:17:19,469 - Downloading genome_summary_form
2024-02-23 04:17:19,476 - Something went wrong with the download of the url: https://raw.githubusercontent.com/WrightonLabCSU/DRAM/master/data/genome_summary_form.tsv
2024-02-23 04:17:19,476 - <urlopen error [Errno 111] Connection refused>
Please see below the DRAM database folder:
Best,
Yongjian
The text was updated successfully, but these errors were encountered:
Hi developer,
I aim to set up the database, but the network connection issue stops the process. Is there a way to continue the "prepare_databases" process without starting everything over?
My command is:
DRAM-setup.py prepare_databases --threads 10 --output_dir /groups/chenyj/db/dram/
Please see below the log file:
2024-02-21 17:58:27,555 - Starting the process of downloading data
2024-02-21 17:58:27,555 - The kegg_loc argument was not used to specify a downloaded kegg file, and dram can not download it its self. So it is assumed that the user wants to set up DRAM without it
2024-02-21 17:58:27,555 - The gene_ko_link_loc argument was not used to specify a downloaded gene_ko_link file, and dram can not download it its self. So it is assumed that the user wants to set up DRAM without it
2024-02-21 17:58:27,555 - Database preparation started
2024-02-21 17:58:27,555 - Downloading kofam_hmm
2024-02-21 23:40:49,402 - Downloading kofam_ko_list
2024-02-21 23:41:01,398 - Downloading uniref
2024-02-22 12:48:47,083 - Downloading pfam
2024-02-23 03:51:14,104 - Downloading pfam_hmm
2024-02-23 03:51:17,102 - Downloading dbcan
2024-02-23 04:09:15,738 - Downloading dbcan_fam_activities
2024-02-23 04:09:15,738 - Downloading dbCAN family activities from : https://bcb.unl.edu/dbCAN2/download/Databases/V11/CAZyDB.08062022.fam-activities.txt
2024-02-23 04:09:17,025 - Downloading dbcan_subfam_ec
2024-02-23 04:09:17,025 - Downloading dbCAN sub-family encumber from : https://bcb.unl.edu/dbCAN2/download/Databases/V11/CAZyDB.08062022.fam.subfam.ec.txt
2024-02-23 04:09:27,129 - Downloading vogdb
2024-02-23 04:12:58,907 - Downloading vog_annotations
2024-02-23 04:13:00,947 - Downloading viral
2024-02-23 04:14:00,457 - Downloading peptidase
2024-02-23 04:17:19,469 - Downloading genome_summary_form
2024-02-23 04:17:19,476 - Something went wrong with the download of the url: https://raw.githubusercontent.com/WrightonLabCSU/DRAM/master/data/genome_summary_form.tsv
2024-02-23 04:17:19,476 - <urlopen error [Errno 111] Connection refused>
Please see below the DRAM database folder:
Best,
Yongjian
The text was updated successfully, but these errors were encountered: