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GTDB R202
Pierre Chaumeil edited this page Nov 23, 2022
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- Assembly summary files downloaded on the 23th of Sept 2020
- Assembly summary files downloaded on the 23th of Sept 2020
- LPSN data downloaded on the 24th of Sept 2020
- BacDive processed on the 14th of October 2020
- RS_GCF_005860925.2,RS_GCF_005862185.2,RS_GCF_011765685.1 didn not have a ncbi_taxonomy so it has been added manually
Step timeline
- Rsync genomes : ~ 22h with 2 x 75cpus
- Update Refseq genomes: ~ 43h with 1x50cpus
- Update Genbank genomes: ~ 16h with 1x50cpus
- Prodigal : ~10h with 1x75cpus (~25K genomes)
- Hmmsearch TIGR RS : ~14 with 1x30 (7,6K genomes)
- Hmmsearch TIGR GB : ~10h30 with 1x75 (18K genomes)
- Hmmsearch PFAM RS : ~14h with 1x75cpus (8K genomes)
- Hmmsearch PFAM GB : 3days16hrs with 1x75cpus (~85K genomes)