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This might only be important with quite large metagenomes and even then probably will still not be the slow step even if uneven.
Currently, when running in parallel, the input contigs are naively split/chunked into x-number of files.
We had discussed before that it might be good to split contigs a bit more evenly into files based on contain length so that computation will be a bit more even later.
This might only be important with quite large metagenomes and even then probably will still not be the slow step even if uneven.
Currently, when running in parallel, the input contigs are naively split/chunked into x-number of files.
We had discussed before that it might be good to split contigs a bit more evenly into files based on contain length so that computation will be a bit more even later.
Relevant code:
Autometa/modules/local/seqkit_split.nf
Lines 31 to 36 in f372b82
Autometa/conf/modules.config
Lines 78 to 82 in f372b82
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