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Téo Lemane edited this page Jul 29, 2021 · 3 revisions

kmtricks format allows to split Bloom matrices into sample-specific Bloom filters. It can be run only after run kmtricks pipeline --until merge --mode hash:bft:bin.

Usage

kmtricks format v1.0.0

DESCRIPTION
  Convert Bloom matrices to sample-specific Bloom filters.

USAGE
  kmtricks format --run-dir <DIR> [--id <STR>] [--out-format <STR>] [-t/--threads <INT>] [-v/--verbose <STR>] 
                  [--from-vec] [--from-hash] [--cpr-in] [--clear] [-h/--help] [--version] 

OPTIONS
  [global]
     --run-dir    - kmtricks runtime directory. 
     --id         - Sample id {all}
     --out-format - bloom filters format. [sdsl|howdesbt] {howdesbt}
     --from-vec   - build bloom filters from bit-vectors. (kmtricks pipeline --skip-merge) [⚑]
     --from-hash  - build bloom filters from counted hashes. [⚑]
     --cpr-in     - compressed inputs. [⚑]
     --clear      - clear input files. [⚑]

  [common]
    -t --threads - number of threads. {8}
    -h --help    - show this message and exit. [⚑]
       --version - show version and exit. [⚑]
    -v --verbose - verbosity level [debug|info|warning|error]. {info}