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seqminer memory requirement #16

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garyzhubc opened this issue Feb 10, 2021 · 0 comments
Open

seqminer memory requirement #16

garyzhubc opened this issue Feb 10, 2021 · 0 comments

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@garyzhubc
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I have a dataset of size with 487409 samples and 571622 SNPs. Is it possible to load this entire dataset with seqminer? I tried requesting 2000 Gb memory on compute Canada but didn't work although 4874095716224 bytes per float is equal to 1,114.45483 gigabytes. Theoretically this should work. So seqminer is using a lot more memory than it theoretically should. I found readBGENToMatrixByRange is more efficient than readBGENToListByRange, but still readBGENToMatrixByRange doesn't work.

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