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Title: Improve reproducibility of preprocessing; add ALCF documentation by felker · Pull Request #46 · PPPLDeepLearning/plasma-python · GitHub

Open Graph Title: Improve reproducibility of preprocessing; add ALCF documentation by felker · Pull Request #46 · PPPLDeepLearning/plasma-python

X Title: Improve reproducibility of preprocessing; add ALCF documentation by felker · Pull Request #46 · PPPLDeepLearning/plasma-python

Description: PPPL deep learning disruption prediction package. Contribute to PPPLDeepLearning/plasma-python development by creating an account on GitHub.

Open Graph Description: Prefixed preprocess shot .npz files with machine name. Closes Delineate processed shot .npz files in same signal group folder by machine name #45. Preprocessing and normalization diagnostics: Wr...

X Description: Prefixed preprocess shot .npz files with machine name. Closes Delineate processed shot .npz files in same signal group folder by machine name #45. Preprocessing and normalization diagnostics: Wr...

Opengraph URL: https://github.com/PPPLDeepLearning/plasma-python/pull/46

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Files changedhttps://github.com/PPPLDeepLearning/plasma-python/pull/46/files
Improve reproducibility of preprocessing; add ALCF documentationhttps://github.com/PPPLDeepLearning/plasma-python/pull/46#top
felkerhttps://github.com/felker
masterhttps://github.com/PPPLDeepLearning/plasma-python/tree/master
feature/documentationhttps://github.com/PPPLDeepLearning/plasma-python/tree/feature/documentation
https://github.com/felker
felkerhttps://github.com/felker
Dec 5, 2019https://github.com/PPPLDeepLearning/plasma-python/pull/46#issue-533571831
Please reload this pagehttps://github.com/PPPLDeepLearning/plasma-python/pull/46
Delineate processed shot .npz files in same signal group folder by machine name #45https://github.com/PPPLDeepLearning/plasma-python/issues/45
c522d3bhttps://github.com/PPPLDeepLearning/plasma-python/commit/c522d3be7a53638676d87af97960219816ae6679
Cleaned and squashed merge of @ge-dong fork #50https://github.com/PPPLDeepLearning/plasma-python/pull/50
https://github.com/onnx/keras-onnxhttps://github.com/onnx/keras-onnx
Add platform-dependent Conda YAML and environments/module dependencies #47https://github.com/PPPLDeepLearning/plasma-python/issues/47
Please reload this pagehttps://github.com/PPPLDeepLearning/plasma-python/pull/46
felkerhttps://github.com/felker
November 21, 2019 14:05https://github.com/PPPLDeepLearning/plasma-python/pull/46#commits-pushed-3a3a9f2
https://github.com/felker
Print out total shot counts in preprocess.pyhttps://github.com/PPPLDeepLearning/plasma-python/pull/46/commits/3a3a9f27444ea77c17034fa8740c520bc7d870fb
3a3a9f2https://github.com/PPPLDeepLearning/plasma-python/pull/46/commits/3a3a9f27444ea77c17034fa8740c520bc7d870fb
https://github.com/felker
Always print # train shots before # validate shots in diagnosticshttps://github.com/PPPLDeepLearning/plasma-python/pull/46/commits/09c4d6771c7883c195b3f1b26fb6155e88b4469e
09c4d67https://github.com/PPPLDeepLearning/plasma-python/pull/46/commits/09c4d6771c7883c195b3f1b26fb6155e88b4469e
https://github.com/felker
Encapsulate printing of shot set sizes in new fn, in new file diagnos…https://github.com/PPPLDeepLearning/plasma-python/pull/46/commits/df7228ea17915ffb5d7c34f7449b421ab3768861
df7228ehttps://github.com/PPPLDeepLearning/plasma-python/pull/46/commits/df7228ea17915ffb5d7c34f7449b421ab3768861
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Add missing brackethttps://github.com/PPPLDeepLearning/plasma-python/pull/46/commits/cbc31b42aac55e1d2fce646925176a309e1ccb5f
cbc31b4https://github.com/PPPLDeepLearning/plasma-python/pull/46/commits/cbc31b42aac55e1d2fce646925176a309e1ccb5f
https://github.com/felker
Comment out unused fnhttps://github.com/PPPLDeepLearning/plasma-python/pull/46/commits/366de2d8084e3bd5386c417790e5f4c2a143f98c
366de2dhttps://github.com/PPPLDeepLearning/plasma-python/pull/46/commits/366de2d8084e3bd5386c417790e5f4c2a143f98c
https://github.com/felker
Add details about how many omitted shots were disruptivehttps://github.com/PPPLDeepLearning/plasma-python/pull/46/commits/e527c38d215610ce714135d8bb0d050ce8c13fbb
e527c38https://github.com/PPPLDeepLearning/plasma-python/pull/46/commits/e527c38d215610ce714135d8bb0d050ce8c13fbb
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Typohttps://github.com/PPPLDeepLearning/plasma-python/pull/46/commits/286dc8793feda0bd58ddd9c0cf7d2fc37ae7ed08
286dc87https://github.com/PPPLDeepLearning/plasma-python/pull/46/commits/286dc8793feda0bd58ddd9c0cf7d2fc37ae7ed08
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Remove stray diagnostic printhttps://github.com/PPPLDeepLearning/plasma-python/pull/46/commits/300966252320fd792fc7616bc5962bdf69270139
3009662https://github.com/PPPLDeepLearning/plasma-python/pull/46/commits/300966252320fd792fc7616bc5962bdf69270139
https://github.com/felker
Reformat diagnosticshttps://github.com/PPPLDeepLearning/plasma-python/pull/46/commits/0e4715b78e5e73bb0de220c1e7818a0648d1ed47
0e4715bhttps://github.com/PPPLDeepLearning/plasma-python/pull/46/commits/0e4715b78e5e73bb0de220c1e7818a0648d1ed47
https://github.com/felker
Reduce number of lineshttps://github.com/PPPLDeepLearning/plasma-python/pull/46/commits/a99c01acf94d71a75d4249ba20a8d2cdbee94688
a99c01ahttps://github.com/PPPLDeepLearning/plasma-python/pull/46/commits/a99c01acf94d71a75d4249ba20a8d2cdbee94688
https://github.com/felker
Drop Rick Zamora's ALCF notes into docs/https://github.com/PPPLDeepLearning/plasma-python/pull/46/commits/31fafa34e0e4aeafc5ad04e40c7d5e61ecc65892
31fafa3https://github.com/PPPLDeepLearning/plasma-python/pull/46/commits/31fafa34e0e4aeafc5ad04e40c7d5e61ecc65892
https://github.com/felker
Convert YAML to 2 space indent from 4 spaceshttps://github.com/PPPLDeepLearning/plasma-python/pull/46/commits/8ecf571b2aea68752b1fd930746d319202109acd
8ecf571https://github.com/PPPLDeepLearning/plasma-python/pull/46/commits/8ecf571b2aea68752b1fd930746d319202109acd
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Clarify commenthttps://github.com/PPPLDeepLearning/plasma-python/pull/46/commits/9585728645719eb1c66e9babe64ab5ef1462f05a
9585728https://github.com/PPPLDeepLearning/plasma-python/pull/46/commits/9585728645719eb1c66e9babe64ab5ef1462f05a
https://github.com/felker
Add comment warning about workaround for JET 0D CW -> ILW preprocessinghttps://github.com/PPPLDeepLearning/plasma-python/pull/46/commits/e2738ea0bc7d7e2fdd77d116961fb6aa72fde8f7
e2738eahttps://github.com/PPPLDeepLearning/plasma-python/pull/46/commits/e2738ea0bc7d7e2fdd77d116961fb6aa72fde8f7
https://github.com/felker
Attempt to standardize diagnostics from guarantee_preprocessed.pyhttps://github.com/PPPLDeepLearning/plasma-python/pull/46/commits/6f7894d11d36e9e6f062dd907cb755857c6979a5
6f7894dhttps://github.com/PPPLDeepLearning/plasma-python/pull/46/commits/6f7894d11d36e9e6f062dd907cb755857c6979a5
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Spacing changeshttps://github.com/PPPLDeepLearning/plasma-python/pull/46/commits/36920a650f8d9a9055a41c4d1822311ebefb1bdb
36920a6https://github.com/PPPLDeepLearning/plasma-python/pull/46/commits/36920a650f8d9a9055a41c4d1822311ebefb1bdb
https://github.com/felker
Change validation_frac default from 0.33 to 1.0/3.0https://github.com/PPPLDeepLearning/plasma-python/pull/46/commits/01a2376717f60c82641ee22dd9a7835284531548
01a2376https://github.com/PPPLDeepLearning/plasma-python/pull/46/commits/01a2376717f60c82641ee22dd9a7835284531548
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Add commentshttps://github.com/PPPLDeepLearning/plasma-python/pull/46/commits/7586b68e71099d0e49d16ddeda022d157daa44cb
7586b68https://github.com/PPPLDeepLearning/plasma-python/pull/46/commits/7586b68e71099d0e49d16ddeda022d157daa44cb
https://github.com/felker
Do not use Python expressions in conf.yaml valueshttps://github.com/PPPLDeepLearning/plasma-python/pull/46/commits/9a5b0f416a9d287743ce0884f3ca402a324231a2
9a5b0f4https://github.com/PPPLDeepLearning/plasma-python/pull/46/commits/9a5b0f416a9d287743ce0884f3ca402a324231a2
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Remove leftover debug print()https://github.com/PPPLDeepLearning/plasma-python/pull/46/commits/fda919fcefb39b87e62efcc266a7e515a47e87ce
fda919fhttps://github.com/PPPLDeepLearning/plasma-python/pull/46/commits/fda919fcefb39b87e62efcc266a7e515a47e87ce
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Standardize [omit] diagnostics in Normalizer and downloading.pyhttps://github.com/PPPLDeepLearning/plasma-python/pull/46/commits/7712e2ee07f010f4db0769365ec9edf262970931
7712e2ehttps://github.com/PPPLDeepLearning/plasma-python/pull/46/commits/7712e2ee07f010f4db0769365ec9edf262970931
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Add commenthttps://github.com/PPPLDeepLearning/plasma-python/pull/46/commits/f53eeeea9c7fb68dda249983569eff9b538ee8c3
f53eeeehttps://github.com/PPPLDeepLearning/plasma-python/pull/46/commits/f53eeeea9c7fb68dda249983569eff9b538ee8c3
https://github.com/felker
Suppress the same NumPy deprecation warning in tensorboardhttps://github.com/PPPLDeepLearning/plasma-python/pull/46/commits/d31908fc47008591cade0bc4261f73ac209fa846
d31908fhttps://github.com/PPPLDeepLearning/plasma-python/pull/46/commits/d31908fc47008591cade0bc4261f73ac209fa846
https://github.com/felker
Prefix processed_shots/*.npz filenames with "jet-", "d3d-" etc.https://github.com/PPPLDeepLearning/plasma-python/pull/46/commits/b0e5889aff13bc60d2926e8240a206938588afee
b0e5889https://github.com/PPPLDeepLearning/plasma-python/pull/46/commits/b0e5889aff13bc60d2926e8240a206938588afee
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Fix bugs in parent commithttps://github.com/PPPLDeepLearning/plasma-python/pull/46/commits/677b00bbbc555a17eac0821c9d9a948cf2e2b236
677b00bhttps://github.com/PPPLDeepLearning/plasma-python/pull/46/commits/677b00bbbc555a17eac0821c9d9a948cf2e2b236
https://github.com/felker
Add support for CuDNNLSTM; dump model params to ONNXhttps://github.com/PPPLDeepLearning/plasma-python/pull/46/commits/c1c645f1b005cfe96ecdeeed84b0e8ad4434790f
c1c645fhttps://github.com/PPPLDeepLearning/plasma-python/pull/46/commits/c1c645f1b005cfe96ecdeeed84b0e8ad4434790f
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Delete single-GPU Keras runner; comment out hyperopt driver for ithttps://github.com/PPPLDeepLearning/plasma-python/pull/46/commits/b11d7596526d28bedb3df570dea39aa717502be9
b11d759https://github.com/PPPLDeepLearning/plasma-python/pull/46/commits/b11d7596526d28bedb3df570dea39aa717502be9
https://github.com/felker
Remove "_data_", "_data" from names of dataset variableshttps://github.com/PPPLDeepLearning/plasma-python/pull/46/commits/7a72cca059dcedd04754632822c24fd956e786d4
7a72ccahttps://github.com/PPPLDeepLearning/plasma-python/pull/46/commits/7a72cca059dcedd04754632822c24fd956e786d4
https://github.com/felker
Consistency in cross-machine data variableshttps://github.com/PPPLDeepLearning/plasma-python/pull/46/commits/036b9fbb194f78d040c65e40cd9647aae2354387
036b9fbhttps://github.com/PPPLDeepLearning/plasma-python/pull/46/commits/036b9fbb194f78d040c65e40cd9647aae2354387
https://github.com/felker
Merge branch 'master' into feature/documentationhttps://github.com/PPPLDeepLearning/plasma-python/pull/46/commits/5d5932e4528a70509a5962a33e7a76d450f6a410
5d5932ehttps://github.com/PPPLDeepLearning/plasma-python/pull/46/commits/5d5932e4528a70509a5962a33e7a76d450f6a410
felkerhttps://github.com/felker
December 16, 2019 11:44https://github.com/PPPLDeepLearning/plasma-python/pull/46#commits-pushed-61cd42c
https://github.com/felker
Start storing machine-dependent module .cmd and Conda YAML in envs/https://github.com/PPPLDeepLearning/plasma-python/pull/46/commits/61cd42cfd9219bd6c1a94aa0d48e3dad5d82d329
61cd42chttps://github.com/PPPLDeepLearning/plasma-python/pull/46/commits/61cd42cfd9219bd6c1a94aa0d48e3dad5d82d329
https://github.com/felker
Reorganize CI fileshttps://github.com/PPPLDeepLearning/plasma-python/pull/46/commits/212b0b0650f1e2b26c18c2e2b95de05ad0c17d52
212b0b0https://github.com/PPPLDeepLearning/plasma-python/pull/46/commits/212b0b0650f1e2b26c18c2e2b95de05ad0c17d52
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Add TigerGPU build specs to envs/https://github.com/PPPLDeepLearning/plasma-python/pull/46/commits/44772f9215401c4be8373ad6e18a983c3a6d9339
44772f9https://github.com/PPPLDeepLearning/plasma-python/pull/46/commits/44772f9215401c4be8373ad6e18a983c3a6d9339
https://github.com/felker
Fix 2x Conda YAML errors; comment-out channel_priorityhttps://github.com/PPPLDeepLearning/plasma-python/pull/46/commits/336135be2c4d495106726f3f645874cbd186ae24
336135bhttps://github.com/PPPLDeepLearning/plasma-python/pull/46/commits/336135be2c4d495106726f3f645874cbd186ae24
conda/conda#8675https://github.com/conda/conda/issues/8675
https://github.com/felker
Add pip to TigerGPU dependencieshttps://github.com/PPPLDeepLearning/plasma-python/pull/46/commits/85939447936e5c29f00be917c2b99f30ba3b0f48
8593944https://github.com/PPPLDeepLearning/plasma-python/pull/46/commits/85939447936e5c29f00be917c2b99f30ba3b0f48
https://github.com/felker
Fix intentional style errorhttps://github.com/PPPLDeepLearning/plasma-python/pull/46/commits/5b44e442b120585849140331652e9a6bb312c5a6
5b44e44https://github.com/PPPLDeepLearning/plasma-python/pull/46/commits/5b44e442b120585849140331652e9a6bb312c5a6
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Do not install mpi4py via pip when building Conda envhttps://github.com/PPPLDeepLearning/plasma-python/pull/46/commits/f68f2f0c342656939b170311ca2984c73deceafa
f68f2f0https://github.com/PPPLDeepLearning/plasma-python/pull/46/commits/f68f2f0c342656939b170311ca2984c73deceafa
https://github.com/felker
TigerGPU conda env is generic for x86_64 Linux platforms with GPUshttps://github.com/PPPLDeepLearning/plasma-python/pull/46/commits/03f62395a0081f6ecbd0258af41b4a87a9bdbb7d
03f6239https://github.com/PPPLDeepLearning/plasma-python/pull/46/commits/03f62395a0081f6ecbd0258af41b4a87a9bdbb7d
https://github.com/felker
Install Cython on Traverse (unique req. for this PICSciE cluster)https://github.com/PPPLDeepLearning/plasma-python/pull/46/commits/4a6ceaa7ebb5c865faebdc276a154ae4ccada502
4a6ceaahttps://github.com/PPPLDeepLearning/plasma-python/pull/46/commits/4a6ceaa7ebb5c865faebdc276a154ae4ccada502
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Add tcn.py fromhttps://github.com/PPPLDeepLearning/plasma-python/pull/46/commits/c522d3be7a53638676d87af97960219816ae6679
@ge-donghttps://github.com/ge-dong
's forkhttps://github.com/PPPLDeepLearning/plasma-python/pull/46/commits/c522d3be7a53638676d87af97960219816ae6679
c522d3bhttps://github.com/PPPLDeepLearning/plasma-python/pull/46/commits/c522d3be7a53638676d87af97960219816ae6679
https://github.com/philipperemy/keras-tcnhttps://github.com/philipperemy/keras-tcn
https://github.com/felker
Fix PEP8 style erorrshttps://github.com/PPPLDeepLearning/plasma-python/pull/46/commits/ae84a222f769b73b91de1256c62e7153436dddda
ae84a22https://github.com/PPPLDeepLearning/plasma-python/pull/46/commits/ae84a222f769b73b91de1256c62e7153436dddda
https://github.com/felker
Make keras2onnx, onnx optional moduleshttps://github.com/PPPLDeepLearning/plasma-python/pull/46/commits/6add7f50fbc451d5bd7a8cf4b16fcb4f3054bd70
6add7f5https://github.com/PPPLDeepLearning/plasma-python/pull/46/commits/6add7f50fbc451d5bd7a8cf4b16fcb4f3054bd70
https://github.com/felker
Merge branch 'master' into feature/documentationhttps://github.com/PPPLDeepLearning/plasma-python/pull/46/commits/92a76fbb6ca3ad177bc81f868f487d8f51df6d24
92a76fbhttps://github.com/PPPLDeepLearning/plasma-python/pull/46/commits/92a76fbb6ca3ad177bc81f868f487d8f51df6d24
https://github.com/felker
Restrict Keras to https://github.com/PPPLDeepLearning/plasma-python/pull/46/commits/458a7653135eccf5a3929f568031abbd9cde2f11
458a765https://github.com/PPPLDeepLearning/plasma-python/pull/46/commits/458a7653135eccf5a3929f568031abbd9cde2f11
tensorflow/tensorflow#27829https://github.com/tensorflow/tensorflow/issues/27829
#43https://github.com/PPPLDeepLearning/plasma-python/issues/43
https://github.com/felker
Loosen precise Python version requirement in Conda YAML fileshttps://github.com/PPPLDeepLearning/plasma-python/pull/46/commits/9b58f638a30565fb523a40eabc06cbfcab6b6c5a
9b58f63https://github.com/PPPLDeepLearning/plasma-python/pull/46/commits/9b58f638a30565fb523a40eabc06cbfcab6b6c5a
https://github.com/felker
Remove version info from dependency list in setup.pyhttps://github.com/PPPLDeepLearning/plasma-python/pull/46/commits/46afd737723e3e140fbbc540ec3fef1890b15c9e
46afd73https://github.com/PPPLDeepLearning/plasma-python/pull/46/commits/46afd737723e3e140fbbc540ec3fef1890b15c9e
https://github.com/felker
Add docstrings to cumulative moving Averager()https://github.com/PPPLDeepLearning/plasma-python/pull/46/commits/057535f738675382709e0741283ece2dc36d7597
057535fhttps://github.com/PPPLDeepLearning/plasma-python/pull/46/commits/057535f738675382709e0741283ece2dc36d7597
https://github.com/felker
Comment-out pre-RNN diagnosticshttps://github.com/PPPLDeepLearning/plasma-python/pull/46/commits/856c14709dbeedc1f11d0eb0ffa61036c9794662
856c147https://github.com/PPPLDeepLearning/plasma-python/pull/46/commits/856c14709dbeedc1f11d0eb0ffa61036c9794662
@ge-donghttps://github.com/ge-dong
#49https://github.com/PPPLDeepLearning/plasma-python/pull/49
#50https://github.com/PPPLDeepLearning/plasma-python/pull/50
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Fix typohttps://github.com/PPPLDeepLearning/plasma-python/pull/46/commits/1867bd2b4b2ab9f830318da45eaba2f057afb06b
1867bd2https://github.com/PPPLDeepLearning/plasma-python/pull/46/commits/1867bd2b4b2ab9f830318da45eaba2f057afb06b
https://github.com/felker
Deprecate and remove old documentationhttps://github.com/PPPLDeepLearning/plasma-python/pull/46/commits/f292e9ecaae0e2639a9b92d09ecba5ae1af6d5dc
f292e9ehttps://github.com/PPPLDeepLearning/plasma-python/pull/46/commits/f292e9ecaae0e2639a9b92d09ecba5ae1af6d5dc
https://github.com/felker
Note unused functions in targets.pyhttps://github.com/PPPLDeepLearning/plasma-python/pull/46/commits/63b8d2d7a13fb5911ebd600eab43620655ad65ba
63b8d2dhttps://github.com/PPPLDeepLearning/plasma-python/pull/46/commits/63b8d2d7a13fb5911ebd600eab43620655ad65ba
#54https://github.com/PPPLDeepLearning/plasma-python/issues/54
https://github.com/felker
Group "T_*" timing parameters close together in conf.yamlhttps://github.com/PPPLDeepLearning/plasma-python/pull/46/commits/8a36a58f8b6228aedf2026bc16bd0317a4d28354
8a36a58https://github.com/PPPLDeepLearning/plasma-python/pull/46/commits/8a36a58f8b6228aedf2026bc16bd0317a4d28354
https://github.com/felker
Fix bug: MaxHingeTarget was inheriting loss='mse' from parent Targethttps://github.com/PPPLDeepLearning/plasma-python/pull/46/commits/eb8f66484bec58ec3a1c13da4f503e5147ae8d3d
eb8f664https://github.com/PPPLDeepLearning/plasma-python/pull/46/commits/eb8f66484bec58ec3a1c13da4f503e5147ae8d3d
https://github.com/felker
felkerhttps://github.com/felker
7986f46https://github.com/PPPLDeepLearning/plasma-python/commit/7986f468e43a56a5ae845dd1b88cf9fca048ac5a
Jan 9, 2020https://github.com/PPPLDeepLearning/plasma-python/pull/46#event-2935934404
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felkerhttps://github.com/felker
January 9, 2020 18:09https://github.com/PPPLDeepLearning/plasma-python/pull/46#event-2935934648
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felkerhttps://github.com/felker
Jan 14, 2020 https://github.com/PPPLDeepLearning/plasma-python/pull/46#ref-issue-549881802
Bugs: variable number of steps per epoch, and inaccurate diagnostic count of num_so_far shots #63 https://github.com/PPPLDeepLearning/plasma-python/issues/63
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Add platform-dependent Conda YAML and environments/module dependencies https://github.com/PPPLDeepLearning/plasma-python/issues/47
Delineate processed shot .npz files in same signal group folder by machine name https://github.com/PPPLDeepLearning/plasma-python/issues/45
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