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cozygene / glint

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Memory allocation error #3

Closed basharatbhat closed 5 years ago

basharatbhat commented 5 years ago
E-R commented 5 years ago

What are the dimensions of mvals.txt? It doesn't look like a memory issue based on your free space, but it would still be a good idea to make sure that you can run the same command using a slimmer version of mvals.txt (so, e.g., head -n 10 mvals.txt > mvals_slim.txt, and then use mvals_slim.txt as the data file). Also, can you please add "--loglevel debug" to your command?

E-R commented 5 years ago

I couldn't replicate your error - I could run '--gsave' on a data file with 1000 epic samples (~850K rows) without a problem on a 16G machine.

Is it possible that you are using a machine that restricts your user memory usage for some reason? Since I'm assuming you cannot link me to the data, can you try using a different machine?

E-R commented 5 years ago

I will wait a few more days for a response before closing this issue.