How to speed the running

hillerlab / TFforge

Identifying transcription factors involved in phenotypic differences between species

MIT License

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How to speed the running #5

Open aaannaw opened 3 weeks ago

aaannaw commented 3 weeks ago

Dear author, I am running the REforge but it is too slow. I have 226,746 CNEs and downloaded the 879 motif matrix of vertebrata from JASPAR. I chose to run by submitting the task in slurm. I split alljobs_226746cne.scores_simulationfile of 226,746 lines into 100 tasks with 2500 lines per task. However, 5,272 CNEs was completed. Could you give me any suggestions? Best wishes, Na Wan

MichaelHiller commented 3 weeks ago

I think this takes time, if it continues to run and generate results, I would leave it running.