Long processing time during DRAM annotate, step "Merging ORF annotations"

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2025-07-28 14:29:21,521 - The log file is created at drtam_annotation/annotate.log.
2025-07-28 14:29:21,521 - 1 FASTAs found
2025-07-28 14:29:21,533 - Starting the Annotation of Bins with database configuration:

KOfam db:
Citation: T. Aramaki, R. Blanc-Mathieu, H. Endo, K. Ohkubo, M. Kanehisa, S. Goto, and H. Ogata, "Kofamkoala: Kegg ortholog assignment based on profile hmm and adaptive score threshold," Bioinformatics, vol. 36, no. 7, pp. 2251–2252, 2020.
KOfam KO list:
Citation: T. Aramaki, R. Blanc-Mathieu, H. Endo, K. Ohkubo, M. Kanehisa, S. Goto, and H. Ogata, "Kofamkoala: Kegg ortholog assignment based on profile hmm and adaptive score threshold," Bioinformatics, vol. 36, no. 7, pp. 2251–2252, 2020.
Pfam db:
Citation: J. Mistry, S. Chuguransky, L. Williams, M. Qureshi, G. A. Salazar, E. L. Sonnhammer, S. C. Tosatto, L. Paladin, S. Raj, L. J. Richardson et al., "Pfam: The protein families database in 2021," Nucleic acids research, vol. 49, no. D1, pp. D412–D419, 2021.
Description_Db_Updated: 06/15/2025, 03:22:51
dbCAN db:
Citation: Y. Yin, X. Mao, J. Yang, X. Chen, F. Mao, and Y. Xu, "dbcan: a web resource for automated carbohydrate-active enzyme annotation," Nucleic acids research, vol. 40, no. W1, pp. W445–W451, 2012.
Version: 11
Description_Db_Updated: 06/15/2025, 03:22:51
MEROPS peptidase db:
Description_Db_Updated: 06/15/2025, 03:22:50
Citation: N. D. Rawlings, A. J. Barrett, P. D. Thomas, X. Huang, A. Bateman, and R. D. Finn, "The merops database of proteolytic enzymes, their substrates and inhibitors in 2017 and a comparison with peptidases in the panther database," Nucleic acids research, vol. 46, no. D1, pp. D624–D632, 2018.

Pfam hmm dat:
Description_Db_Updated: Unknown, or Never
Citation: J. Mistry, S. Chuguransky, L. Williams, M. Qureshi, G. A. Salazar, E. L. Sonnhammer, S. C. Tosatto, L. Paladin, S. Raj, L. J. Richardson et al., "Pfam: The protein families database in 2021," Nucleic acids research, vol. 49, no. D1, pp. D412–D419, 2021.
dbCAN family activities:
Citation: Y. Yin, X. Mao, J. Yang, X. Chen, F. Mao, and Y. Xu, "dbcan: a web resource for automated carbohydrate-active enzyme annotation," Nucleic acids research, vol. 40, no. W1, pp. W445–W451, 2012.
Version: 11
Upload_Date: 08062022
Download Time: 06/14/2025, 22:50:26
Origin: Downloaded by DRAM
dbCAN subfamily EC numbers:
Citation: Y. Yin, X. Mao, J. Yang, X. Chen, F. Mao, and Y. Xu, "dbcan: a web resource for automated carbohydrate-active enzyme annotation," Nucleic acids research, vol. 40, no. W1, pp. W445–W451, 2012.
Version: 11
Upload_Date: 08062022
Download Time: 06/14/2025, 22:50:29
Origin: Downloaded by DRAM
VOG annotations:
Description_Db_Updated: Unknown, or Never
Citation: J. Thannesberger, H.-J. Hellinger, I. Klymiuk, M.-T. Kastner, F. J. Rieder, M. Schneider, S. Fister, T. Lion, K. Kosulin, J. Laengle et al., "Viruses comprise an extensive pool of mobile genetic elements in eukaryote cell cultures and human clinical samples," The FASEB Journal, vol. 31, no. 5, pp. 1987–2000, 2017.
Version: latest
Download Time: 06/14/2025, 22:51:34
Origin: Downloaded by DRAM

Genome summary form:
Branch: master
Module step form:
Branch: master
ETC module database:
Branch: master
Function heatmap form:
Branch: master
AMG database:
Branch: master
2025-07-28 14:29:21,533 - Retrieved database locations and descriptions
2025-07-28 14:29:21,533 - Annotating all_vMAGs
2025-07-28 15:09:56,145 - Turning genes from prodigal to mmseqs2 db
2025-07-28 15:10:02,640 - Getting hits from kofam
2025-07-29 03:05:31,917 - No KEGG source provided so distillation will be of limited use.
2025-07-29 03:05:31,917 - Getting forward best hits from peptidase
2025-07-29 03:08:47,232 - Getting reverse best hits from peptidase
2025-07-29 03:08:50,639 - Getting descriptions of hits from peptidase
2025-07-29 03:08:51,228 - Getting hits from pfam
2025-07-29 03:10:19,661 - Getting hits from dbCAN
2025-07-29 03:29:21,181 - Merging ORF annotations

It has run this step "Merging ORF annotations" ｏｖｅｒ　２４ｈ，　ｍｙ　ｆａｓｔａ　ｉｓ　４７７　ｍｂ