Error when setting up databases

[microbial-cookie]

Hi DRAM developers,

This is amazing tools, it will help me annotate MAGs function. But I encountered some problems when I set up database, could you help me to solve it? Thanks!

2023-09-18 03:42:49,148 - Downloading module_step_form 2023-09-18 03:42:49,713 - Downloading function_heatmap_form 2023-09-18 03:42:50,180 - Downloading amg_database 2023-09-18 03:42:50,454 - Downloading etc_module_database 2023-09-18 03:42:50,683 - All raw data files were downloaded successfully 2023-09-18 03:42:50,684 - Processing kofam_hmm 2023-09-18 03:54:33,232 - KOfam database processed 2023-09-18 03:54:33,743 - Moved kofam_hmm to final destination, configuration updated 2023-09-18 03:54:33,743 - Processing kofam_ko_list 2023-09-18 03:54:33,837 - KOfam ko list processed 2023-09-18 03:54:33,843 - Moved kofam_ko_list to final destination, configuration updated 2023-09-18 03:54:33,843 - Processing pfam 2023-09-18 05:17:41,090 - PFAM database processed 2023-09-18 05:17:41,256 - Moved pfam to final destination, configuration updated 2023-09-18 05:17:41,262 - Moved pfam_hmm to final destination, configuration updated 2023-09-18 05:17:41,262 - Processing dbcan 2023-09-18 05:17:44,779 - dbCAN database processed 2023-09-18 05:17:44,787 - Moved dbcan to final destination, configuration updated 2023-09-18 05:17:44,792 - Moved dbcan_fam_activities to final destination, configuration updated 2023-09-18 05:17:44,797 - Moved dbcan_subfam_ec to final destination, configuration updated 2023-09-18 05:17:44,798 - Processing vogdb 2023-09-18 05:23:42,771 - VOGdb database processed 2023-09-18 05:23:42,868 - Moved vogdb to final destination, configuration updated 2023-09-18 05:23:42,877 - Moved vog_annotations to final destination, configuration updated 2023-09-18 05:23:42,878 - Processing viral 2023-09-18 05:23:44,537 - The subcommand ['mmseqs', 'createdb', 'DRAM_data1/database_files/viral.merged.protein.faa.gz', 'DRAM_data1/refseq_viral.20230918.mmsdb'] experienced an error: Fasta entry 117637 is invalid

Traceback (most recent call last): File "/usr2/people/ruiwenhu/miniconda3/envs/DRAM/bin/DRAM-setup.py", line 184, in args.func(**args_dict) File "/usr2/people/ruiwenhu/miniconda3/envs/DRAM/lib/python3.10/site-packages/mag_annotator/database_processing.py", line 555, in prepare_databases processed_locs = process_functions[i](locs[i], output_dir, LOGGER, File "/usr2/people/ruiwenhu/miniconda3/envs/DRAM/lib/python3.10/site-packages/mag_annotator/database_processing.py", line 297, in process_viral make_mmseqs_db(merged_viral_faas, refseq_viral_mmseqs_db, logger, createindex=True, th  reads=threads, verbose=verbose) File "/usr2/people/ruiwenhu/miniconda3/envs/DRAM/lib/python3.10/site-packages/mag_annotator/utils.py", line 95, in make_mmseqs_db run_process(['mmseqs', 'createdb', fasta_loc, output_loc], logger, verbose=verbose) File "/usr2/people/ruiwenhu/miniconda3/envs/DRAM/lib/python3.10/site-packages/mag_annotator/utils.py", line 71, in run_process raise subprocess.SubprocessError(f"The subcommand {' '.join(command)} experienced an error, see the log for more info.") subprocess.SubprocessError: The subcommand mmseqs createdb DRAM_data1/database_files/viral.merged.protein.faa.gz DRAM_data1/refseq_viral.20230918.mmsdb experienced an error, see

Best, Ruiwen