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refresh-bio / kmer-db

Kmer-db is a fast and memory-efficient tool for large-scale k-mer analyses (indexing, querying, estimating evolutionary relationships, etc.).
GNU General Public License v3.0
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limitations ? #20

Open lmanchon opened 2 years ago

lmanchon commented 2 years ago

--Hi, program failed with a list of 200000 entries

kmer-db build -k 21 -multisample-fasta input.list DGV-kmer-21.db Kmer-db version 1.10.0 (18.07.2022) S. Deorowicz, A. Gudys, M. Dlugosz, M. Kokot, and A. Danek (c) 2018

Analysis started at Mon Aug 29 14:46:33 2022

Database building mode (from fasta genomes) Processing samples... 60...

seems to be frozen... (with 16 cores and 80GB of RAM)

agudys commented 1 year ago

@lmanchon Sorry it took us so long. In the latest release (1.11.1) the deadlock in the -multisample-fasta mode you had reported have been removed.