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
An error occurred during the database download process, is there anyone know how to fix it?
/data5/baidefeng/miniconda3/envs/DRAM/lib/python3.10/site-packages/mag_annotator/database_handler.py:126: UserWarning: Database does not exist at path None
warnings.warn("Database does not exist at path %s" % description_loc)
2024-12-15 20:50:15,835 - Starting the process of downloading data
2024-12-15 20:50:15,835 - 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
2024-12-15 20:50:15,835 - 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
2024-12-15 20:50:15,835 - Database preparation started
2024-12-15 20:50:15,835 - Downloading kofam_hmm
2024-12-16 01:40:50,265 - Downloading kofam_ko_list
2024-12-16 01:40:54,414 - Downloading uniref
2024-12-17 06:53:56,976 - Downloading pfam
2024-12-17 11:54:54,661 - Downloading pfam_hmm
2024-12-17 11:54:57,444 - Downloading dbcan
2024-12-17 12:03:24,002 - Downloading dbcan_fam_activities
2024-12-17 12:03:24,002 - Downloading dbCAN family activities from : https://bcb.unl.edu/dbCAN2/download/Databases/V11/CAZyDB.08062022.fam-activities.txt
2024-12-17 12:03:25,573 - Downloading dbcan_subfam_ec
2024-12-17 12:03:25,573 - Downloading dbCAN sub-family encumber from : https://bcb.unl.edu/dbCAN2/download/Databases/V11/CAZyDB.08062022.fam.subfam.ec.txt
2024-12-17 12:03:29,276 - Downloading vogdb
2024-12-17 12:14:06,856 - Downloading vog_annotations
2024-12-17 12:14:09,575 - Downloading viral
2024-12-17 12:15:36,975 - Downloading peptidase
2024-12-17 12:24:04,223 - Downloading genome_summary_form
2024-12-17 12:24:04,290 - Something went wrong with the download of the url: https://raw.githubusercontent.com/WrightonLabCSU/DRAM/master/data/genome_summary_form.tsv
2024-12-17 12:24:04,291 - <urlopen error [Errno 111] Connection refused>
Traceback (most recent call last):
File "/data5/baidefeng/miniconda3/envs/DRAM/bin/DRAM-setup.py", line 187, in
args.func(**args_dict)
File "/data5/baidefeng/miniconda3/envs/DRAM/lib/python3.10/site-packages/mag_annotator/database_processing.py", line 595, in prepare_databases
locs[i] = download_functions[i](
File "/data5/baidefeng/miniconda3/envs/DRAM/lib/python3.10/site-packages/mag_annotator/database_processing.py", line 391, in download_genome_summary_form
download_file('https://raw.githubusercontent.com/WrightonLabCSU/DRAM/%s/data/genome_summary_form.tsv' % branch,
File "/data5/baidefeng/miniconda3/envs/DRAM/lib/python3.10/site-packages/mag_annotator/utils.py", line 33, in download_file
raise URLError("DRAM whas not able to download a key database, check the logg for details")
urllib.error.URLError: <urlopen error DRAM whas not able to download a key database, check the logg for details>
The text was updated successfully, but these errors were encountered:
An error occurred during the database download process, is there anyone know how to fix it?
/data5/baidefeng/miniconda3/envs/DRAM/lib/python3.10/site-packages/mag_annotator/database_handler.py:126: UserWarning: Database does not exist at path None
warnings.warn("Database does not exist at path %s" % description_loc)
2024-12-15 20:50:15,835 - Starting the process of downloading data
2024-12-15 20:50:15,835 - 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
2024-12-15 20:50:15,835 - 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
2024-12-15 20:50:15,835 - Database preparation started
2024-12-15 20:50:15,835 - Downloading kofam_hmm
2024-12-16 01:40:50,265 - Downloading kofam_ko_list
2024-12-16 01:40:54,414 - Downloading uniref
2024-12-17 06:53:56,976 - Downloading pfam
2024-12-17 11:54:54,661 - Downloading pfam_hmm
2024-12-17 11:54:57,444 - Downloading dbcan
2024-12-17 12:03:24,002 - Downloading dbcan_fam_activities
2024-12-17 12:03:24,002 - Downloading dbCAN family activities from : https://bcb.unl.edu/dbCAN2/download/Databases/V11/CAZyDB.08062022.fam-activities.txt
2024-12-17 12:03:25,573 - Downloading dbcan_subfam_ec
2024-12-17 12:03:25,573 - Downloading dbCAN sub-family encumber from : https://bcb.unl.edu/dbCAN2/download/Databases/V11/CAZyDB.08062022.fam.subfam.ec.txt
2024-12-17 12:03:29,276 - Downloading vogdb
2024-12-17 12:14:06,856 - Downloading vog_annotations
2024-12-17 12:14:09,575 - Downloading viral
2024-12-17 12:15:36,975 - Downloading peptidase
2024-12-17 12:24:04,223 - Downloading genome_summary_form
2024-12-17 12:24:04,290 - Something went wrong with the download of the url: https://raw.githubusercontent.com/WrightonLabCSU/DRAM/master/data/genome_summary_form.tsv
2024-12-17 12:24:04,291 - <urlopen error [Errno 111] Connection refused>
Traceback (most recent call last):
File "/data5/baidefeng/miniconda3/envs/DRAM/bin/DRAM-setup.py", line 187, in
args.func(**args_dict)
File "/data5/baidefeng/miniconda3/envs/DRAM/lib/python3.10/site-packages/mag_annotator/database_processing.py", line 595, in prepare_databases
locs[i] = download_functions[i](
File "/data5/baidefeng/miniconda3/envs/DRAM/lib/python3.10/site-packages/mag_annotator/database_processing.py", line 391, in download_genome_summary_form
download_file('https://raw.githubusercontent.com/WrightonLabCSU/DRAM/%s/data/genome_summary_form.tsv' % branch,
File "/data5/baidefeng/miniconda3/envs/DRAM/lib/python3.10/site-packages/mag_annotator/utils.py", line 33, in download_file
raise URLError("DRAM whas not able to download a key database, check the logg for details")
urllib.error.URLError: <urlopen error DRAM whas not able to download a key database, check the logg for details>
The text was updated successfully, but these errors were encountered: