Memory: To run efficiently, Kraken 2 requires enough free memory to hold the database (primarily the hash table) in RAM. While this can be accomplished with a ramdisk, Kraken 2 will by default load the database into process-local RAM; the--memory-mappingswitch tokraken2will avoid doing so...
base_cmd = ["kraken2", *common_args, '--memory-mapping'] Contributor Author Oddant1 Sep 6, 2023 This --memory-mapping flag prevents the database from being loaded into RAM for every thread. It slows things down compared to loading the database for every thread, but it prevents us...
- Added memory-mapping support to dumptable (kraken2-inspect) - Added support for many threads to dumptable (kraken2-inspect) - Added support for downloading genome accessions by project ID, taxon ID or accession number to `k2`. This feature makes use of ...
kraken2 --threads $(CPUS) --db $(KRAKEN2_GTDB) --memory-mapping \ --output - --report $@ --paired $^ %/centrifuge.tab : %/R1.fq.gz %/R2.fq.gz centrifuge -x $(CENTRIFUGE_DB) -p $(CPUS) -1 $(word 1,$^) -2 $(word 2,$^) \ | centrifuge-kreport -x $(CENTRIFUGE_...
- Memory mapping CLI option was setting translated search mode not enabling memory mapping! ## [v0.1.5] ### Changed - Update license file.352 changes: 322 additions & 30 deletions 352 LICENSE Original file line numberDiff line numberDiff line change@...
Memory: To run efficiently, Kraken 2 requires enough free memory to hold the database (primarily the hash table) in RAM. While this can be accomplished with a ramdisk, Kraken 2 will by default load the database into process-local RAM; the--memory-mappingswitch tokraken2will avoid doing so...
Memory: To run efficiently, Kraken 2 requires enough free memory to hold the database (primarily the hash table) in RAM. While this can be accomplished with a ramdisk, Kraken 2 will by default load the database into process-local RAM; the--memory-mappingswitch tokraken2will avoid ...
Memory: To run efficiently, Kraken 2 requires enough free memory to hold the database (primarily the hash table) in RAM. While this can be accomplished with a ramdisk, Kraken 2 will by default load the database into process-local RAM; the--memory-mappingswitch tokraken2will avoid doin...
Memory: To run efficiently, Kraken 2 requires enough free memory to hold the database (primarily the hash table) in RAM. While this can be accomplished with a ramdisk, Kraken 2 will by default load the database into process-local RAM; the--memory-mappingswitch tokraken2will avoid ...
Memory: To run efficiently, Kraken 2 requires enough free memory to hold the database (primarily the hash table) in RAM. While this can be accomplished with a ramdisk, Kraken 2 will by default load the database into process-local RAM; the--memory-mappingswitch tokraken2will avoid ...