GTDB R237

Syncing NCBI Genomes

• sync of Archaea done partially by Pierre and partially by Donovan using different scripts; have settled on the method implemented as ncbi_sync in the GTDB Migration Tk which specifically limits requests per second to minimize errors messages from NCBI

• Bacterial RefSeq genomes (assembly_summary_bacteria_refseq_nolargeproject.txt):

  • 526,771 genomes with 148,760 identified as unchanged
  • 58.5 hours using 16 requests per second (--rate 16)
  • 1 failed genomes (GCF_056491165.1 which is now suppressed at NCBI)

• Bacterial GenBank genomes (assembly_summary_bacteria_genbank_nolargeproject.txt):