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https://github.com/pydata/xarray/issues/2186#issuecomment-392226004 https://api.github.com/repos/pydata/xarray/issues/2186 392226004 MDEyOklzc3VlQ29tbWVudDM5MjIyNjAwNA== 12929327 2018-05-26T01:35:36Z 2018-05-26T01:35:36Z NONE

I've discovered that setting the environment variable MALLOC_MMAP_MAX_ to a reasonably small value can partially mitigate this memory fragmentation.

Performing 4 iterations over dataset slices of shape ~(5424, 5424) without this tweak was yielding >800MB of memory usage (an increase of ~400MB over the first iteration).

Setting MALLOC_MMAP_MAX_=40960 yielded ~410 MB of memory usage (an increase of only ~130MB over the first iteration).

This level of fragmentation is still offensive, but this does suggest the problem may lie deeper within the entire unix, glibc, Python, xarray, dask ecosystem.

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