speed-up build DAG by optimizing CELLECT-LDSC snakefile

perslab / CELLECT

CELLECT (CELL-type Expression-specific integration for Complex Traits)

GNU General Public License v3.0

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speed-up build DAG by optimizing CELLECT-LDSC snakefile #19

Closed pascaltimshel closed 5 years ago

pascaltimshel commented 5 years ago

building DAG can take a long time when analyzing many annotations / gwas. After implementing h2/h2_intervals, the DAG building step seemed to happen much slower.

See e.g. here suggestions of speed-ups: https://bitbucket.org/snakemake/snakemake/issues/745/building-dag-of-jobs-slower

pascaltimshel commented 5 years ago

Fixed in https://github.com/perslab/CELLECT/commit/a504aa1538e2dcbc100bf3d90264588b8842245b