Higashi gets error during higashi_model.process_data()

ma-compbio / Higashi

single-cell Hi-C, scHi-C, Hi-C, 3D genome, nuclear organization, hypergraph

MIT License

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Higashi gets error during higashi_model.process_data() #24

Closed AmyTanJ closed 1 year ago

AmyTanJ commented 1 year ago

Hi, ruochi! I'm trying to run Higashi at a low resolution, like 10kb. It seems trigger a concurrent.futures.processBrokenFrocessPool error when creating matrices tasks. I tried to run higashi from the CLI instead of the API, but the error persisted as below.

Then, I tried to change "cpu" in configure from -1 to 1, and a new memory error occurs as below. a9647281ce87c48d3776f05fff42b1f

Do you know how to solve this problem when creating matrices tasks in higashi_model.process_data()?

Thanks!

ruochiz commented 1 year ago

That's the memory error. You would need to either run the code on a machine with larger memory size or switch to a lower resolution setting

AmyTanJ commented 1 year ago

您好，我是谭佳慧，您的邮件我已经收到，我会尽快回复，祝您万事如意，家庭幸福！