westpa 2022.11__cp311-cp311-macosx_11_0_arm64.whl → 2022.12__cp311-cp311-macosx_11_0_arm64.whl
This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
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- westpa/_version.py +3 -3
- westpa/cli/tools/w_assign.py +4 -4
- westpa/cli/tools/w_fluxanl.py +1 -3
- westpa/cli/tools/w_ntop.py +2 -2
- westpa/cli/tools/w_red.py +7 -2
- westpa/core/binning/_assign.cpython-311-darwin.so +0 -0
- westpa/core/binning/assign.py +11 -5
- westpa/core/binning/mab.py +352 -273
- westpa/core/data_manager.py +3 -3
- westpa/core/h5io.py +2 -2
- westpa/core/kinetics/_kinetics.cpython-311-darwin.so +0 -0
- westpa/core/kinetics/matrates.py +1 -1
- westpa/core/propagators/executable.py +10 -6
- westpa/core/reweight/_reweight.cpython-311-darwin.so +0 -0
- westpa/core/sim_manager.py +9 -4
- westpa/core/states.py +7 -7
- westpa/core/we_driver.py +4 -2
- westpa/fasthist/_fasthist.cpython-311-darwin.so +0 -0
- westpa/mclib/__init__.py +10 -3
- westpa/mclib/_mclib.cpython-311-darwin.so +0 -0
- westpa/oldtools/aframe/mcbs.py +9 -2
- westpa/oldtools/cmds/w_ttimes.py +4 -1
- westpa/oldtools/stats/edfs.py +1 -1
- westpa/oldtools/stats/mcbs.py +9 -2
- westpa/trajtree/_trajtree.cpython-311-darwin.so +0 -0
- westpa/westext/stringmethod/string_method.py +1 -1
- westpa/westext/weed/ProbAdjustEquil.py +2 -2
- westpa/westext/weed/weed_driver.py +10 -0
- westpa/westext/wess/wess_driver.py +10 -0
- {westpa-2022.11.dist-info → westpa-2022.12.dist-info}/AUTHORS +8 -8
- {westpa-2022.11.dist-info → westpa-2022.12.dist-info}/METADATA +31 -21
- {westpa-2022.11.dist-info → westpa-2022.12.dist-info}/RECORD +36 -37
- {westpa-2022.11.dist-info → westpa-2022.12.dist-info}/WHEEL +2 -1
- westpa/fasthist/__main__.py +0 -110
- {westpa-2022.11.dist-info → westpa-2022.12.dist-info}/LICENSE +0 -0
- {westpa-2022.11.dist-info → westpa-2022.12.dist-info}/entry_points.txt +0 -0
- {westpa-2022.11.dist-info → westpa-2022.12.dist-info}/top_level.txt +0 -0
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westpa/_version.py,sha256=
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westpa/_version.py,sha256=tAUT_kRU38AvSCAATGBiszMeQjkv1JRoR-Uw6k45GNA,499
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westpa/__init__.py,sha256=xyNfYIcP2ncBLu_foO1NKmJrQh8-uYdwvMuM0HsOG1M,329
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westpa/fasthist/_fasthist.cpython-311-darwin.so,sha256=
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westpa/fasthist/_fasthist.cpython-311-darwin.so,sha256=H_VNSg7_fkw0bioK45JlC36p1aM6w7sP5Ft91e6YgOU,259664
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westpa/fasthist/__init__.py,sha256=oWj0gKEkKfHjGHwkzmpgAxDz55h2ze_sqQVzWSsOP6s,1071
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westpa/fasthist/__main__.py,sha256=7XCBZvrKbBG3KEuQMpZD0jXa3vVMEVfZJTG8MmdbsrM,3902
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westpa/westext/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
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westpa/westext/weed/weed_driver.py,sha256=
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westpa/westext/weed/weed_driver.py,sha256=zYwFNpJnocds3DHOEz0P3WJU0CzfnuKoBSuVM543jKs,8770
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westpa/westext/weed/UncertMath.py,sha256=RvmETtO4Jr7ti_aaO9jlzTTemqkbtwFljT6Thibn_u8,8768
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westpa/westext/weed/__init__.py,sha256=LTg42k-I3HbtOWkbWkMHOLA-AK23rFz2ja8zg0qFCvk,451
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westpa/westext/weed/BinCluster.py,sha256=sx9xzZy_ot54TkFuBrCXzAtdAwT89TQEpj2cexx9lVo,7680
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westpa/westext/weed/ProbAdjustEquil.py,sha256=
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westpa/westext/weed/ProbAdjustEquil.py,sha256=LEJyaEYPaHkXH6lIxgsSKbqTTtuwaoQ-IiBaR9r7Dlk,4248
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westpa/westext/adaptvoronoi/adaptVor_driver.py,sha256=xZdBJo-VcX8USB-vpBZWh1qDCMwP-_GMl7V04zaxXN4,8827
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westpa/westext/adaptvoronoi/__init__.py,sha256=Zk7CiLsUJr3qZwZPKSqOBTOVV8uUvsMXkCbiTflMLHA,88
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westpa/westext/stringmethod/string_method.py,sha256=
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westpa/westext/stringmethod/string_method.py,sha256=eCmrHn2sPrxpzWyqwkWfimH7F93hjSnkCUAiTsJwX44,10420
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westpa/westext/stringmethod/string_driver.py,sha256=8z4pEuflwRx0mb-KaRaqEk98cYUd2cvjglXDp4BRNQQ,9369
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westpa/westext/stringmethod/__init__.py,sha256=1Nk3Uygs6GWr_FJbNH0Rss2DENurIm4WGx86V0qXxy8,310
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westpa/westext/stringmethod/fourier_fitting.py,sha256=499B3GdZ_pYuFP6kK7ICDnL8StMHSKgrjPX9Xyl1NL8,2256
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westpa/westext/wess/__init__.py,sha256=5nw6mcZx7eI4szw0v2q8XBusvb0Q2MUCgGKQUx2j0DE,153
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westpa/westext/wess/ProbAdjust.py,sha256=zc0H_SURBTgxvZFQCFrXeq_pHzRDAG-ejnD6WKQGt5o,3233
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westpa/westext/wess/wess_driver.py,sha256=
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westpa/westext/wess/wess_driver.py,sha256=6-qAfSL8MNrZqIT76ewOjotcJnIVWubfHynHscGEwQE,9632
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westpa/westext/hamsm_restarting/restart_driver.py,sha256=c5D1I82NVo93_zPcGVtA12c2P10mK_NmkBx06upz-GU,50284
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westpa/westext/hamsm_restarting/__init__.py,sha256=0vhEngHBLOp89Mp1CVvt9BYDPosrc1nWGZVNicKFuf8,59
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westpa/westext/hamsm_restarting/example_overrides.py,sha256=3eDzKh_F0yNVm0lN4u0Pnrnj_WR9y4JDXa1-CU7qlbY,1065
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westpa/tools/progress.py,sha256=LimIp3qr7rO7ZLGg2SgieFkzEYk1Sn8BtMAhOLRalnA,499
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westpa/tools/iter_range.py,sha256=nVQIvqJ9oXOALyQIFsFp_UqMjW5BBQUd1ShZttb20xo,8730
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westpa/core/systems.py,sha256=pb9YNFUcDhx3Fvhb0NcjlPCdhSUk41IhI0Sqdtr91q8,3693
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westpa/core/we_driver.py,sha256=
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westpa/core/we_driver.py,sha256=O3QzjGGiRjkGJ_sUfM3QWMIBDPRkVMNsq-YurLji-Ow,40761
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westpa/core/wm_ops.py,sha256=o_pc0BHpfCkbveTO5h76hxjXJpQgw1S-zIzVmM_u-Qc,1529
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westpa/core/_rc.py,sha256=yPdvgqZKRS10iOWTS_TYma7Y3sdKnCDDFw5AnQvog9s,25508
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westpa/core/textio.py,sha256=lqohyyyfMTkFvTdQ8V45yUpASiJsWTh42XAG15K63dA,2434
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westpa/core/extloader.py,sha256=yxyJN-lHo3Zjd6jS6_uhC1fIl52H-h8sbV9zYJfEWGg,2239
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westpa/core/sim_manager.py,sha256=
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westpa/core/sim_manager.py,sha256=j09wsKN_OFqgg6aOSX5umOEggzGdvnhw7UGx7gyy6MQ,38963
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westpa/core/h5io.py,sha256=
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westpa/core/h5io.py,sha256=rRi5bEY9YsdZN_BZcA8hhFqIoxFngqDOv9csexg8eZ4,37075
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westpa/core/trajectory.py,sha256=DL7rsowKxBc1jwT7FPZFlfCWKuwagttZxd3SPgxZKU0,10913
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westpa/core/segment.py,sha256=Gd_5htIZ6xKxxCms9XMtJncehGvMVxZeNdy4drxrnpc,4421
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westpa/core/progress.py,sha256=tEDDn-JPY6ZNzYqyrdgA7peo7pDu8kOMvqfyiHWUgps,6753
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westpa/core/data_manager.py,sha256=sA1Kpcd1iYFeQh0oviG455w9oKxpjjFEDRcNqh4Cgq8,71985
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westpa/core/states.py,sha256=eVEqpQTMyoKmNwz3DFD2S0wM_4vVayl35wbKK3JUJ0Q,13327
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westpa/core/yamlcfg.py,sha256=B78OEr1n_sIkW6kDzl3FO63tiugaT-1VutAgLxU0i7A,12696
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westpa/core/kinetics/matrates.py,sha256=
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westpa/core/kinetics/matrates.py,sha256=3kpmV8GJ0mv-8Iy_IdUCfo-gWOGtMzUWHmkibYRgyzs,5569
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westpa/core/kinetics/events.py,sha256=VqYBN5rVOf3hAYUA6xQ6UN7GP6tVgRFIoP69tfGhkTo,6511
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westpa/core/kinetics/__init__.py,sha256=djtiki7X5-IEzwjwswbdgrolwUIzVAHKxCiI5B3WH28,510
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westpa/core/kinetics/_kinetics.cpython-311-darwin.so,sha256=jrbNPLBkKLjhnCfKu2G6AAHetXXqpUYQgw-RtqUJ_AY,351776
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westpa/core/kinetics/rate_averaging.py,sha256=gIKDXBAOSDI6KythepoC4QipUPksTRBc9zbM7DRtwo4,10300
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westpa/core/binning/binless_driver.py,sha256=T5qWpLnjxCS9RdKeWf7eVCC_s6TQFDENL7X3VG6JIYo,2231
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westpa/core/reweight/matrix.py,sha256=219sRxkML1V9niPIndSoRvJAC0fUmpG0PLDKpmfWW-g,5509
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westpa/analysis/statistics.py,sha256=M3Gj1bOiAu_SA4upR7gENYEOP2gnIEaSOZeGyoIxAc8,789
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westpa/analysis/trajectories.py,sha256=jyrbbKOVyZ3GjHQushDS_G8C4IRXlUmxa-WzmEEVGwc,12878
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westpa/trajtree/_trajtree.cpython-311-darwin.so,sha256=
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westpa/trajtree/_trajtree.cpython-311-darwin.so,sha256=5EflH24w3lXQNjMUuWTG942w25c_E4TxUHqE-hUCbOY,141952
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westpa/oldtools/files.py,sha256=JmLtZqxD88cybEHcOU6kodAeOJYxylpYFl4OQqU13Hs,944
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westpa/oldtools/miscfn.py,sha256=595W28JazmiU9ioDgOKU9ZxtXJue_q-8WcpOKTgkikQ,909
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westpa/oldtools/__init__.py,sha256=rxAxsQNQMADy5j8xrqW_7Vk3D9ajM7lfDjHaKQHRDTI,62
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westpa/oldtools/cmds/w_ttimes.py,sha256=
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westpa/oldtools/cmds/w_ttimes.py,sha256=5fmAMwqfEuaLd5FK2eXtzBtAIG2aogjlWzBHCpyCpaM,13243
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westpa/oldtools/cmds/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
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westpa/oldtools/aframe/binning.py,sha256=L259HcIn-1Qz1AKUWBXjZ3HFE0odry7OZf-aG070fSE,7565
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westpa/oldtools/aframe/atool.py,sha256=5_ZkivLChU1wMaEvI-F7i-huMRYg2Dy8AH36eivWI0Y,2185
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@@ -122,13 +121,13 @@ westpa/oldtools/aframe/data_reader.py,sha256=nuIkR-vFRW_stcXwcjMSZI1RO73By-x-phf
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westpa/oldtools/aframe/transitions.py,sha256=3cQan9ju2s5hW9KvYs38kuKvSh5RjAsvHlvaY2eOZ_M,18542
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westpa/oldtools/aframe/base_mixin.py,sha256=OAK5NfVfwdPxvFzhxxT_oEnFKR_5s0NRoqTVA6G1gXY,654
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westpa/oldtools/aframe/iter_range.py,sha256=HFODveMwtKAbHXpbt8bII7edVy8RqwC-QPlLXLX66dU,8465
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westpa/oldtools/aframe/mcbs.py,sha256=
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westpa/oldtools/aframe/mcbs.py,sha256=wic8tt9de5Raq2bQYEwCeh4t9M-I44VpURU1EWAgJjM,6062
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westpa/oldtools/aframe/kinetics.py,sha256=Ohq_B6zbxE6wVX40Ox8FuiGmnrhQ0h4ovvZnJuoul-I,4389
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westpa/oldtools/aframe/output.py,sha256=SVFF-fXsl12f8mV5xTvy8rm5YIs_p4xDvN8zEYaVnTE,1540
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westpa/oldtools/stats/__init__.py,sha256=KFbQJ1tD1Dnq6x50hv_g8xlaL45E65cATSg4APIzweY,119
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westpa/oldtools/stats/edfs.py,sha256=
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westpa/oldtools/stats/edfs.py,sha256=qwgSVoNk_UnnPi1SvXnrQQR28cS-irZvwCErbXdWW1I,4096
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westpa/oldtools/stats/accumulator.py,sha256=AZ1RshALSHjdhfDXidE5_yHaDEsdDXfSzsmogECCoJ8,1137
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westpa/oldtools/stats/mcbs.py,sha256=
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westpa/oldtools/stats/mcbs.py,sha256=gPWSpdg-WKIu1UGkyES4Bs2_OkCcI3HW2jfDkQJ1Oss,3521
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westpa/work_managers/__init__.py,sha256=nHbI9PmRosOeZ11gCHIwpv9qwgXbwUnGt9vIZ0nLtOg,1670
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westpa/work_managers/core.py,sha256=NVe9XhcfizBzXjkymgeo0xLzNLP0tP6-VoTE0uxu91U,15061
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westpa/work_managers/processes.py,sha256=iZRaOW7DEuggDcb92D0goGAbLvYjkSwamdpADx2zooM,6960
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@@ -141,10 +140,10 @@ westpa/work_managers/zeromq/__init__.py,sha256=rrl4YbEaZr2AiEBTMlhvEFH83dBlAwWR_
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westpa/work_managers/zeromq/core.py,sha256=K3Iyrz5u2Dy-GgZFL3ZXDN2iaaLm7qL-A3cm4PdBiF8,22907
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westpa/work_managers/zeromq/work_manager.py,sha256=UB_WvnejDRVi1ZU2QWpP9uzhnccOH7b3qHgU-wSstTY,22425
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westpa/work_managers/zeromq/node.py,sha256=CeoJhXVqrZxrV3lMnDtm3LNkGFxjS4dr3E6wd7ZQRTE,4877
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westpa-2022.
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westpa-2022.12.dist-info/RECORD,,
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westpa-2022.12.dist-info/LICENSE,sha256=I2wUldIRJmflTYUxmSiITSZEKvlovlMPrE3JU5IslkY,1074
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westpa-2022.12.dist-info/AUTHORS,sha256=ArOZQ8ltOK_8MVF2e7KsoLQCcb5pzKuU7TsMp1rrO8o,666
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westpa-2022.12.dist-info/WHEEL,sha256=EasEOtq8SpW-ImLv3DcryqczTpx9R7CzJ-ufH2vR4yQ,136
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westpa-2022.12.dist-info/entry_points.txt,sha256=0Ym8meKTdYbUEMtUHF_4zaZP__4ldfFnoYXyYlKRB6s,1428
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westpa-2022.12.dist-info/top_level.txt,sha256=otaLnQtwo9jKCJmja4iOOsOVDThUvPfjJaeLrgGEhlE,7
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westpa-2022.12.dist-info/METADATA,sha256=Ez6AK9J-B6NujAftGF5RIptGMP9iI0_yS23LuM2_nBc,7815
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westpa/fasthist/__main__.py
DELETED
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@@ -1,110 +0,0 @@
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1
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'''
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Created on Jun 25, 2013
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@author: mzwier
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'''
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import numpy
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from fasthist import histnd
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9
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11
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def _test_double(npts=1024 * 1024, loops=3):
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12
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from time import time
|
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13
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-
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14
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mine_times = [None] * loops
|
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15
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theirs_times = [None] * loops
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# though 1.0 should be sufficient, weirdness in the boundary conditions
|
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# for numpy.digitize appears to introduce a discrepancy, so throw something
|
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# greater than 1.0 in for good measure
|
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binbounds = [[0, 0.5, 1, 1.1] for x in range(3)]
|
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weights = numpy.random.rand(npts)
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# weights = numpy.ones((npts,), dtype=numpy.float64)
|
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for n in range(loops):
|
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|
-
testdat = numpy.random.rand(npts, 3)
|
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25
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mstart = time()
|
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26
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-
mine = histnd(testdat, binbounds, weights=weights)
|
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27
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mstop = time()
|
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tstart = time()
|
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theirs = numpy.histogramdd(testdat, binbounds, weights=weights)[0]
|
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tstop = time()
|
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31
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-
mine_times[n] = mstop - mstart
|
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32
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-
theirs_times[n] = tstop - tstart
|
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33
|
-
print(mine)
|
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34
|
-
print(theirs)
|
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35
|
-
errsum = numpy.abs(mine - theirs).sum()
|
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36
|
-
errsum_per_item = errsum / npts
|
|
37
|
-
rel_err = errsum / numpy.abs(weights).sum()
|
|
38
|
-
print('sum of the absolute errors: {} ({} relative, {} per entry)'.format(errsum, rel_err, errsum_per_item))
|
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39
|
-
|
|
40
|
-
print('mine, best of {}: {}'.format(loops, min(mine_times)))
|
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-
print('theirs, best of {}: {}'.format(loops, min(theirs_times)))
|
|
42
|
-
|
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43
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-
|
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44
|
-
def _test_float(npts=1024 * 1024, ndim=3, loops=3):
|
|
45
|
-
from time import time
|
|
46
|
-
|
|
47
|
-
mine_times = [None] * loops
|
|
48
|
-
theirs_times = [None] * loops
|
|
49
|
-
|
|
50
|
-
binbounds = [[0, 0.5, 1, 1.1] for x in range(ndim)]
|
|
51
|
-
# weights = numpy.random.rand(npts)
|
|
52
|
-
weights = numpy.ones((npts,), dtype=numpy.float64)
|
|
53
|
-
for n in range(loops):
|
|
54
|
-
testdat = numpy.require(numpy.random.rand(npts, ndim), numpy.float32)
|
|
55
|
-
print(testdat)
|
|
56
|
-
mstart = time()
|
|
57
|
-
mine = histnd(testdat, binbounds, weights=weights)
|
|
58
|
-
mstop = time()
|
|
59
|
-
tstart = time()
|
|
60
|
-
theirs = numpy.histogramdd(testdat, binbounds, weights=weights)[0]
|
|
61
|
-
tstop = time()
|
|
62
|
-
mine_times[n] = mstop - mstart
|
|
63
|
-
theirs_times[n] = tstop - tstart
|
|
64
|
-
print(mine)
|
|
65
|
-
print(theirs)
|
|
66
|
-
errsum = numpy.abs(mine - theirs).sum()
|
|
67
|
-
errsum_per_item = errsum / npts
|
|
68
|
-
rel_err = errsum / numpy.abs(weights).sum()
|
|
69
|
-
print('sum of the absolute errors: {} ({} relative, {} per entry)'.format(errsum, rel_err, errsum_per_item))
|
|
70
|
-
|
|
71
|
-
print('mine, best of {}: {}'.format(loops, min(mine_times)))
|
|
72
|
-
print('theirs, best of {}: {}'.format(loops, min(theirs_times)))
|
|
73
|
-
|
|
74
|
-
|
|
75
|
-
def _test_uint(npts=1024 * 1024, ndim=3, loops=3):
|
|
76
|
-
from time import time
|
|
77
|
-
|
|
78
|
-
mine_times = [None] * loops
|
|
79
|
-
theirs_times = [None] * loops
|
|
80
|
-
|
|
81
|
-
binbounds = [[0, 1, 2, 3, 4] for x in range(ndim)]
|
|
82
|
-
# weights = numpy.random.rand(npts)
|
|
83
|
-
weights = numpy.ones((npts,), dtype=numpy.float64)
|
|
84
|
-
print('binbounds: {}'.format(binbounds))
|
|
85
|
-
print('weights')
|
|
86
|
-
print(weights)
|
|
87
|
-
for n in range(loops):
|
|
88
|
-
testdat = numpy.require(numpy.random.randint(0, 4, size=(npts, ndim)), numpy.uint16)
|
|
89
|
-
print('test data')
|
|
90
|
-
print(testdat)
|
|
91
|
-
mstart = time()
|
|
92
|
-
mine = histnd(testdat, binbounds, weights=weights)
|
|
93
|
-
mstop = time()
|
|
94
|
-
tstart = time()
|
|
95
|
-
theirs = numpy.histogramdd(testdat, binbounds, weights=weights)[0]
|
|
96
|
-
tstop = time()
|
|
97
|
-
mine_times[n] = mstop - mstart
|
|
98
|
-
theirs_times[n] = tstop - tstart
|
|
99
|
-
print(mine)
|
|
100
|
-
print(theirs)
|
|
101
|
-
errsum = numpy.abs(mine - theirs).sum()
|
|
102
|
-
errsum_per_item = errsum / npts
|
|
103
|
-
rel_err = errsum / numpy.abs(weights).sum()
|
|
104
|
-
print('sum of the absolute errors: {} ({} relative, {} per entry)'.format(errsum, rel_err, errsum_per_item))
|
|
105
|
-
|
|
106
|
-
print('mine, best of {}: {}'.format(loops, min(mine_times)))
|
|
107
|
-
print('theirs, best of {}: {}'.format(loops, min(theirs_times)))
|
|
108
|
-
|
|
109
|
-
|
|
110
|
-
_test_float(npts=1024 * 1024, ndim=1)
|
|
File without changes
|
|
File without changes
|
|
File without changes
|