Perf #88
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Perf #88
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change `open_minian` and `save_minian` to facilitate storing intermediate variables. add on-disk rechunking factionality through `rechunker`
optimize the function to be more friendly to dask scheduler. limit depth of parallelization to avoid long computing graph construction.
avoid excessive rechunking during seeds operations. use sparse matrices for merging operations and initial spatial footprints. optmize (throttle) operations to be friendly to small memory constraint.
NOTE pyfftw doesn't seem to be multi-threading friendly.
optimize temporal and spatial update to use sparse matrix whenever possible. use intermediate variables to allow for smaller memory constraint. throttle operations to be friendly to memory constraint. add options to warm start for temporal update. concurrent update default to disabled. add size threshold for spatial update.
pyav doesn't seem to be friendly to dask distributed scheduler.
this should get around OS file handle limit.
should reduce the repeated computation of AtC during generation of final video.
avoiding regrid and replace with dynamic map when necessary. this should eliminate the need to restart the kernel during pipeline.
Now all of them are specified as a fraction of sampling rate.
…sts and many more fixes and updates (no test fixtures) (#75) Co-authored-by: phildong <35715936+phildong@users.noreply.github.com> Co-authored-by: paolo <paolo.bazzigaluppi@gmail.com> Co-authored-by: phild <zhe.dong@icahn.mssm.edu> Co-authored-by: Denise Cai Laboratory <47047748+DeniseCaiLab@users.noreply.github.com> Co-authored-by: William Mau <wmau@bu.edu> Co-authored-by: Matthias Klumpp <matthias@tenstral.net> Co-authored-by: Cloud User <ec2-user@ip-172-31-27-133.us-west-2.compute.internal> Co-authored-by: Jesus M <yeshuarmartinez@gmail.com>
…added cross reg notebook to userguide (#86)
…sh within the 50 minutes time limit of Travis
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@phildong can you please run black to fix code style errors? this will fix the travis build |
* chore: added github actions workflow file * chore: reformated with black 19.10b0 * chore: pinned black to version conda-forge 19.10b0 * chore: install ffmpeg for github actions * chore: github actions update ubuntu * fix: added test movies *.mp4 to test movie fixture
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merge performance branch