python-microscopy 25.6.5__cp39-cp39-win_amd64.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.
- PYME/Acquire/ActionManager.py +450 -0
- PYME/Acquire/ExecTools.py +235 -0
- PYME/Acquire/Hardware/AAOptoelectronics/MDS.py +175 -0
- PYME/Acquire/Hardware/AAOptoelectronics/__init__.py +0 -0
- PYME/Acquire/Hardware/ARCoptix/__init__.py +0 -0
- PYME/Acquire/Hardware/ARCoptix/lcdriver.py +149 -0
- PYME/Acquire/Hardware/ARCoptix/lcserver32.py +123 -0
- PYME/Acquire/Hardware/AndorIXon/AndorCam.py +1095 -0
- PYME/Acquire/Hardware/AndorIXon/AndorControlFrame.py +312 -0
- PYME/Acquire/Hardware/AndorIXon/AndorIXon.py +737 -0
- PYME/Acquire/Hardware/AndorIXon/__init__.py +27 -0
- PYME/Acquire/Hardware/AndorNeo/AndorNeo.py +644 -0
- PYME/Acquire/Hardware/AndorNeo/AndorNeoControlFrame.py +161 -0
- PYME/Acquire/Hardware/AndorNeo/AndorZyla.py +761 -0
- PYME/Acquire/Hardware/AndorNeo/SDK3.py +307 -0
- PYME/Acquire/Hardware/AndorNeo/SDK3Cam.py +171 -0
- PYME/Acquire/Hardware/AndorNeo/ZylaControlPanel.py +105 -0
- PYME/Acquire/Hardware/AndorNeo/__init__.py +22 -0
- PYME/Acquire/Hardware/AndorNeo/parseAtdebug.py +46 -0
- PYME/Acquire/Hardware/AndorNeo/plotTimings.py +73 -0
- PYME/Acquire/Hardware/AndorNeo/testNeo.py +62 -0
- PYME/Acquire/Hardware/Camera.py +1199 -0
- PYME/Acquire/Hardware/CameraSkeleton.py +642 -0
- PYME/Acquire/Hardware/Coherent/OBIS.py +147 -0
- PYME/Acquire/Hardware/Coherent/Sapphire.py +162 -0
- PYME/Acquire/Hardware/Coherent/__init__.py +0 -0
- PYME/Acquire/Hardware/DMDGui.py +198 -0
- PYME/Acquire/Hardware/DigiData/DigiData.py +95 -0
- PYME/Acquire/Hardware/DigiData/DigiDataClient.py +30 -0
- PYME/Acquire/Hardware/DigiData/RemoteDigiData.py +51 -0
- PYME/Acquire/Hardware/DigiData/__init__.py +24 -0
- PYME/Acquire/Hardware/DigiData/axDD132x.py +348 -0
- PYME/Acquire/Hardware/EMCCDTheory.py +41 -0
- PYME/Acquire/Hardware/ExciterWheel.py +167 -0
- PYME/Acquire/Hardware/FilterWheel.py +184 -0
- PYME/Acquire/Hardware/FocCorr.py +106 -0
- PYME/Acquire/Hardware/FocCorrR.py +196 -0
- PYME/Acquire/Hardware/FrFilter.py +51 -0
- PYME/Acquire/Hardware/GCS/GCS_DLL.py +370 -0
- PYME/Acquire/Hardware/GCS/__init__.py +0 -0
- PYME/Acquire/Hardware/GCS/gcs.py +210 -0
- PYME/Acquire/Hardware/HamamatsuDCAM/HamamatsuDCAM.py +662 -0
- PYME/Acquire/Hardware/HamamatsuDCAM/HamamatsuORCA.py +602 -0
- PYME/Acquire/Hardware/HamamatsuDCAM/Hamamatsu_control_panel.py +54 -0
- PYME/Acquire/Hardware/HamamatsuDCAM/__init__.py +23 -0
- PYME/Acquire/Hardware/LaserControlFrame.py +160 -0
- PYME/Acquire/Hardware/MPBCommunications/MPBCW.py +132 -0
- PYME/Acquire/Hardware/MPBCommunications/__init__.py +0 -0
- PYME/Acquire/Hardware/Mercury/Mercury.py +269 -0
- PYME/Acquire/Hardware/Mercury/PI_Mercury_GCS_DLL.py +857 -0
- PYME/Acquire/Hardware/Mercury/__init__.py +22 -0
- PYME/Acquire/Hardware/Mercury/mercuryStepper.py +203 -0
- PYME/Acquire/Hardware/Mercury/mercuryStepperGCS.py +281 -0
- PYME/Acquire/Hardware/NikonTE2000.py +68 -0
- PYME/Acquire/Hardware/NikonTi.py +214 -0
- PYME/Acquire/Hardware/NikonTiGUI.py +81 -0
- PYME/Acquire/Hardware/OrielCornerstone.py +125 -0
- PYME/Acquire/Hardware/PM100USB.py +51 -0
- PYME/Acquire/Hardware/Piezos/__init__.py +22 -0
- PYME/Acquire/Hardware/Piezos/base_piezo.py +108 -0
- PYME/Acquire/Hardware/Piezos/offsetPiezo.py +162 -0
- PYME/Acquire/Hardware/Piezos/offsetPiezoREST.py +308 -0
- PYME/Acquire/Hardware/Piezos/piezo_c867.py +486 -0
- PYME/Acquire/Hardware/Piezos/piezo_e255.py +68 -0
- PYME/Acquire/Hardware/Piezos/piezo_e662.py +61 -0
- PYME/Acquire/Hardware/Piezos/piezo_e709.py +434 -0
- PYME/Acquire/Hardware/Piezos/piezo_e816.py +452 -0
- PYME/Acquire/Hardware/Piezos/piezo_e816_corr.py +70 -0
- PYME/Acquire/Hardware/Piezos/piezo_e816_dll.py +518 -0
- PYME/Acquire/Hardware/Piezos/piezo_e816b.py +70 -0
- PYME/Acquire/Hardware/Piezos/piezo_pipython_gcs.py +560 -0
- PYME/Acquire/Hardware/Piezos/piezo_test.py +55 -0
- PYME/Acquire/Hardware/Simulator/EmpiricalHist.py +273 -0
- PYME/Acquire/Hardware/Simulator/__init__.py +22 -0
- PYME/Acquire/Hardware/Simulator/dSimControl.py +961 -0
- PYME/Acquire/Hardware/Simulator/fakeCam.py +651 -0
- PYME/Acquire/Hardware/Simulator/fakePiezo.py +95 -0
- PYME/Acquire/Hardware/Simulator/fluor.py +336 -0
- PYME/Acquire/Hardware/Simulator/illuminate.cp39-win_amd64.dll.a +0 -0
- PYME/Acquire/Hardware/Simulator/illuminate.cp39-win_amd64.pyd +0 -0
- PYME/Acquire/Hardware/Simulator/illuminate.pyx +93 -0
- PYME/Acquire/Hardware/Simulator/lasersliders.py +90 -0
- PYME/Acquire/Hardware/Simulator/rend_im.py +446 -0
- PYME/Acquire/Hardware/Simulator/setup.py +69 -0
- PYME/Acquire/Hardware/Simulator/simcontrol.py +348 -0
- PYME/Acquire/Hardware/Simulator/simui_wx.py +794 -0
- PYME/Acquire/Hardware/Tango/__init__.py +0 -0
- PYME/Acquire/Hardware/Tango/marzhauser_tango.py +583 -0
- PYME/Acquire/Hardware/TiLightCrafter.py +388 -0
- PYME/Acquire/Hardware/__init__.py +22 -0
- PYME/Acquire/Hardware/aotf.py +271 -0
- PYME/Acquire/Hardware/arclampshutterpanel.py +71 -0
- PYME/Acquire/Hardware/cameraSoftwareBuffer.py +215 -0
- PYME/Acquire/Hardware/camera_noise.py +270 -0
- PYME/Acquire/Hardware/ccdAdjPanel.py +188 -0
- PYME/Acquire/Hardware/ccdCalibrator.py +161 -0
- PYME/Acquire/Hardware/cobaltLaser.py +108 -0
- PYME/Acquire/Hardware/cobaltLaser561.py +94 -0
- PYME/Acquire/Hardware/comports.py +26 -0
- PYME/Acquire/Hardware/driftTrackGUI.py +488 -0
- PYME/Acquire/Hardware/driftTracking.py +595 -0
- PYME/Acquire/Hardware/fakeShutters.py +52 -0
- PYME/Acquire/Hardware/focusKeys.py +204 -0
- PYME/Acquire/Hardware/focus_locks/__init__.py +0 -0
- PYME/Acquire/Hardware/focus_locks/reflection_focus_lock.py +684 -0
- PYME/Acquire/Hardware/frZStage.py +117 -0
- PYME/Acquire/Hardware/fw102.py +38 -0
- PYME/Acquire/Hardware/ids_peak_cam.py +561 -0
- PYME/Acquire/Hardware/ioslave.py +305 -0
- PYME/Acquire/Hardware/lasers.py +292 -0
- PYME/Acquire/Hardware/matchboxLaser.py +58 -0
- PYME/Acquire/Hardware/microscope_adapter.py +104 -0
- PYME/Acquire/Hardware/mpd_picosecond_delayer.py +395 -0
- PYME/Acquire/Hardware/multiview.py +287 -0
- PYME/Acquire/Hardware/olympusix81.py +59 -0
- PYME/Acquire/Hardware/pco/__init__.py +0 -0
- PYME/Acquire/Hardware/pco/pco_cam.py +348 -0
- PYME/Acquire/Hardware/pco/pco_edge_42_lt.py +34 -0
- PYME/Acquire/Hardware/pco/pco_sdk.py +1645 -0
- PYME/Acquire/Hardware/pco/pco_sdk_cam.py +518 -0
- PYME/Acquire/Hardware/pco/pco_sdk_cam_control_panel.py +54 -0
- PYME/Acquire/Hardware/phoxxLaser.py +199 -0
- PYME/Acquire/Hardware/phoxxLaserOLD.py +242 -0
- PYME/Acquire/Hardware/priorLumen.py +102 -0
- PYME/Acquire/Hardware/priorarclampshutter.py +52 -0
- PYME/Acquire/Hardware/setup.py +50 -0
- PYME/Acquire/Hardware/spacenav.py +148 -0
- PYME/Acquire/Hardware/splitter.py +394 -0
- PYME/Acquire/Hardware/thorlabsPiezo.py +98 -0
- PYME/Acquire/Hardware/thorlabs_cam.py +136 -0
- PYME/Acquire/Hardware/thorlabs_mff_flipper.py +400 -0
- PYME/Acquire/Hardware/toptica_ibeam.py +51 -0
- PYME/Acquire/Hardware/uc480/AndorControlFrame.py +308 -0
- PYME/Acquire/Hardware/uc480/__init__.py +27 -0
- PYME/Acquire/Hardware/uc480/uCam480.py +695 -0
- PYME/Acquire/Hardware/uc480/uc480.py +189 -0
- PYME/Acquire/Hardware/uc480/uc480Deprecated.py +87 -0
- PYME/Acquire/Hardware/uc480/uc480_h.py +767 -0
- PYME/Acquire/Hardware/uc480/uc480_h_gen.py +62 -0
- PYME/Acquire/Hardware/uc480/ucCamControlFrame.py +83 -0
- PYME/Acquire/Hardware/ueye.py +702 -0
- PYME/Acquire/PYMEAcquire.py +186 -0
- PYME/Acquire/Protocols/DMDMFM.py +74 -0
- PYME/Acquire/Protocols/__init__.py +22 -0
- PYME/Acquire/Protocols/darkCalibrate.py +56 -0
- PYME/Acquire/Protocols/dual671_470.py +45 -0
- PYME/Acquire/Protocols/dual671_488.py +46 -0
- PYME/Acquire/Protocols/gainCal.py +53 -0
- PYME/Acquire/Protocols/htsms-cal-psf.py +32 -0
- PYME/Acquire/Protocols/htsms-cal-registration.py +52 -0
- PYME/Acquire/Protocols/htsms-flow.py +29 -0
- PYME/Acquire/Protocols/htsms-staggered.py +31 -0
- PYME/Acquire/Protocols/htsms-tile.py +68 -0
- PYME/Acquire/Protocols/htsms-two-color.py +29 -0
- PYME/Acquire/Protocols/htsms-widefield.py +32 -0
- PYME/Acquire/Protocols/paint671.py +61 -0
- PYME/Acquire/Protocols/photoconversion.py +52 -0
- PYME/Acquire/Protocols/photoconversion2.py +55 -0
- PYME/Acquire/Protocols/prebleach488.py +70 -0
- PYME/Acquire/Protocols/prebleach490.py +69 -0
- PYME/Acquire/Protocols/prebleach561.py +72 -0
- PYME/Acquire/Protocols/prebleach561NeomEos2.py +70 -0
- PYME/Acquire/Protocols/prebleach561NeomEos2ND1.py +70 -0
- PYME/Acquire/Protocols/prebleach642.py +70 -0
- PYME/Acquire/Protocols/prebleach671.py +69 -0
- PYME/Acquire/Protocols/prebleach671ND1.py +58 -0
- PYME/Acquire/Protocols/prebleach671ND2.py +57 -0
- PYME/Acquire/Protocols/prebleach671Neo.py +69 -0
- PYME/Acquire/Protocols/recover671.py +62 -0
- PYME/Acquire/Protocols/sequence642_488.py +85 -0
- PYME/Acquire/Protocols/sequence642_561.py +87 -0
- PYME/Acquire/Protocols/shiftfield.py +198 -0
- PYME/Acquire/Protocols/simul488.py +59 -0
- PYME/Acquire/Protocols/simul642.py +63 -0
- PYME/Acquire/Protocols/simul642HTSMS.py +63 -0
- PYME/Acquire/Protocols/simulPA.py +37 -0
- PYME/Acquire/Protocols/simulSIM.py +76 -0
- PYME/Acquire/Protocols/simulStep.py +62 -0
- PYME/Acquire/Protocols/spdscan.py +178 -0
- PYME/Acquire/Protocols/standard470.py +45 -0
- PYME/Acquire/Protocols/standard488.py +47 -0
- PYME/Acquire/Protocols/standard671.py +48 -0
- PYME/Acquire/Protocols/standard671_no532.py +47 -0
- PYME/Acquire/Protocols/standardArclamp.py +46 -0
- PYME/Acquire/Protocols/strip_tile.py +204 -0
- PYME/Acquire/Protocols/tile.py +204 -0
- PYME/Acquire/Protocols/tile3D.py +192 -0
- PYME/Acquire/Protocols/tile671.py +190 -0
- PYME/Acquire/Protocols/tile_triggered.py +189 -0
- PYME/Acquire/Scripts/init.py +232 -0
- PYME/Acquire/Scripts/init_N1_Ti_Exeter_ZIx.py +374 -0
- PYME/Acquire/Scripts/init_N2_Ti_Zyla_lasers.py +290 -0
- PYME/Acquire/Scripts/init_Neo.py +266 -0
- PYME/Acquire/Scripts/init_NeoSim.py +159 -0
- PYME/Acquire/Scripts/init_TIRF.py +232 -0
- PYME/Acquire/Scripts/init_TIRF_Neo.py +242 -0
- PYME/Acquire/Scripts/init_TIRF_NeoO.py +241 -0
- PYME/Acquire/Scripts/init_TIRF_onecam.py +233 -0
- PYME/Acquire/Scripts/init_Ti.py +257 -0
- PYME/Acquire/Scripts/init_UOA_n.py +256 -0
- PYME/Acquire/Scripts/init_UOA_n2.py +246 -0
- PYME/Acquire/Scripts/init_Y1.py +249 -0
- PYME/Acquire/Scripts/init_Zyla.py +260 -0
- PYME/Acquire/Scripts/init_drift_tracking.py +80 -0
- PYME/Acquire/Scripts/init_emccd_basic.py +277 -0
- PYME/Acquire/Scripts/init_htsms.py +277 -0
- PYME/Acquire/Scripts/init_htsms_focus_lock.py +132 -0
- PYME/Acquire/Scripts/init_micrpi.py +45 -0
- PYME/Acquire/Scripts/init_orca.py +70 -0
- PYME/Acquire/Scripts/init_pco.py +49 -0
- PYME/Acquire/Scripts/init_rev.py +74 -0
- PYME/Acquire/Scripts/init_sim100.py +169 -0
- PYME/Acquire/Scripts/init_sim103.py +169 -0
- PYME/Acquire/Scripts/init_sim2.py +211 -0
- PYME/Acquire/Scripts/init_sim50.py +169 -0
- PYME/Acquire/Scripts/init_sim75.py +169 -0
- PYME/Acquire/Scripts/init_sim_drift_tracking.py +166 -0
- PYME/Acquire/Scripts/init_sim_htsms.py +224 -0
- PYME/Acquire/Scripts/init_sim_htsms_n.py +233 -0
- PYME/Acquire/Scripts/init_sim_main.py +229 -0
- PYME/Acquire/Scripts/init_sim_min.py +197 -0
- PYME/Acquire/Scripts/init_sim_rem.py +176 -0
- PYME/Acquire/Scripts/init_smi1.py +110 -0
- PYME/Acquire/Scripts/init_spectro.py +78 -0
- PYME/Acquire/Scripts/init_spim.py +116 -0
- PYME/Acquire/Scripts/init_thorcam.py +62 -0
- PYME/Acquire/Scripts/init_twophoton.py +112 -0
- PYME/Acquire/Scripts/init_uc480.py +262 -0
- PYME/Acquire/Scripts/init_ueye.py +261 -0
- PYME/Acquire/SpoolController.py +958 -0
- PYME/Acquire/Utils/MultiPointScanner.py +80 -0
- PYME/Acquire/Utils/__init__.py +13 -0
- PYME/Acquire/Utils/failsafe.py +157 -0
- PYME/Acquire/Utils/fastTiler.py +153 -0
- PYME/Acquire/Utils/pointScanner.py +496 -0
- PYME/Acquire/Utils/sarcSpacing.py +86 -0
- PYME/Acquire/Utils/strip_tiler.py +93 -0
- PYME/Acquire/Utils/tiler.py +464 -0
- PYME/Acquire/Utils/vibrationAnalysis.py +65 -0
- PYME/Acquire/__init__.py +44 -0
- PYME/Acquire/acquire_client.py +90 -0
- PYME/Acquire/acquire_server.py +316 -0
- PYME/Acquire/acquirebase.py +139 -0
- PYME/Acquire/acquiremainframe.py +716 -0
- PYME/Acquire/acquirewx.py +61 -0
- PYME/Acquire/acquisition_base.py +148 -0
- PYME/Acquire/actions.py +209 -0
- PYME/Acquire/autofocus.py +54 -0
- PYME/Acquire/eventLog.py +95 -0
- PYME/Acquire/event_loop.py +119 -0
- PYME/Acquire/frameWrangler.py +530 -0
- PYME/Acquire/htsms/__init__.py +8 -0
- PYME/Acquire/htsms/rule_ui.py +970 -0
- PYME/Acquire/htsms/rule_ui_v2.py +573 -0
- PYME/Acquire/htsms/tweeter.py +222 -0
- PYME/Acquire/microscope.py +1050 -0
- PYME/Acquire/positionTracker.py +181 -0
- PYME/Acquire/protocol.py +299 -0
- PYME/Acquire/protocol_acquisition.py +404 -0
- PYME/Acquire/sampleInformation.py +591 -0
- PYME/Acquire/sampleInformationDjangoDirect.py +446 -0
- PYME/Acquire/setup.py +52 -0
- PYME/Acquire/stackSettings.py +295 -0
- PYME/Acquire/stage_leveling.py +285 -0
- PYME/Acquire/ui/AnalysisSettingsUI.py +184 -0
- PYME/Acquire/ui/HDFSpoolFrame.py +584 -0
- PYME/Acquire/ui/__init__.py +0 -0
- PYME/Acquire/ui/actionUI.py +892 -0
- PYME/Acquire/ui/focus_lock_gui.py +149 -0
- PYME/Acquire/ui/intensity_trace.py +143 -0
- PYME/Acquire/ui/intsliders.py +222 -0
- PYME/Acquire/ui/lasersliders.py +329 -0
- PYME/Acquire/ui/mpd_picosecond_delay_panel.py +69 -0
- PYME/Acquire/ui/multiview_select.py +77 -0
- PYME/Acquire/ui/positionUI.py +519 -0
- PYME/Acquire/ui/preflight.py +58 -0
- PYME/Acquire/ui/scanner_panel.py +41 -0
- PYME/Acquire/ui/selectCameraPanel.py +46 -0
- PYME/Acquire/ui/seqdialog.py +501 -0
- PYME/Acquire/ui/splashScreen.py +175 -0
- PYME/Acquire/ui/spool_panel.py +830 -0
- PYME/Acquire/ui/tile_panel.py +556 -0
- PYME/Acquire/ui/tilesettingsui.py +91 -0
- PYME/Acquire/ui/voxelSizeDialog.py +149 -0
- PYME/Acquire/webui/__init__.py +36 -0
- PYME/Acquire/webui/ipy.py +361 -0
- PYME/Acquire/webui/static/css/pyme-bootstrap.css +9908 -0
- PYME/Acquire/webui/static/css/pymeacquire.css +85 -0
- PYME/Acquire/webui/static/js/pymeacquire.js +375 -0
- PYME/Acquire/webui/static/js/pzf.js +95 -0
- PYME/Acquire/webui/templates/PYMEAcquire.html +232 -0
- PYME/Acquire/webui/templates/login.html +84 -0
- PYME/Acquire/webui/templates/xtermpage.html +106 -0
- PYME/Acquire/xyztc.py +418 -0
- PYME/Acquire/zScanner.py +287 -0
- PYME/Analysis/BleachProfile/__init__.py +26 -0
- PYME/Analysis/BleachProfile/deMod.py +91 -0
- PYME/Analysis/BleachProfile/fitRecover.py +90 -0
- PYME/Analysis/BleachProfile/intensProf.py +519 -0
- PYME/Analysis/BleachProfile/kinModels.py +507 -0
- PYME/Analysis/BleachProfile/rawIntensity.py +227 -0
- PYME/Analysis/BleachProfile/rollins.py +555 -0
- PYME/Analysis/Colocalisation/__init__.py +27 -0
- PYME/Analysis/Colocalisation/colocScaleDep.py +126 -0
- PYME/Analysis/Colocalisation/correlationCoeffs.py +198 -0
- PYME/Analysis/Colocalisation/distColoc.py +110 -0
- PYME/Analysis/Colocalisation/edtColoc.py +191 -0
- PYME/Analysis/MetaData.py +278 -0
- PYME/Analysis/PSFEst/__init__.py +27 -0
- PYME/Analysis/PSFEst/dec.py +283 -0
- PYME/Analysis/PSFEst/extractImages.py +316 -0
- PYME/Analysis/PSFEst/fit_psf_zernikes.py +194 -0
- PYME/Analysis/PSFEst/psfQuality.py +225 -0
- PYME/Analysis/PSFGen/__init__.py +40 -0
- PYME/Analysis/PSFGen/fourier.py +138 -0
- PYME/Analysis/PSFGen/fourierHNA.py +1108 -0
- PYME/Analysis/PSFGen/fourierHNA2.py +979 -0
- PYME/Analysis/PSFGen/genCRBcurves.py +185 -0
- PYME/Analysis/PSFGen/nijboer_zernike.py +79 -0
- PYME/Analysis/PSFGen/ps_app.cp39-win_amd64.dll.a +0 -0
- PYME/Analysis/PSFGen/ps_app.cp39-win_amd64.pyd +0 -0
- PYME/Analysis/PSFGen/test_ps_app.py +24 -0
- PYME/Analysis/Tracking/__init__.py +3 -0
- PYME/Analysis/Tracking/msd.py +57 -0
- PYME/Analysis/Tracking/trackUtils.py +528 -0
- PYME/Analysis/Tracking/tracking.py +152 -0
- PYME/Analysis/__init__.py +30 -0
- PYME/Analysis/_fithelpers.py +161 -0
- PYME/Analysis/angleFilter.py +287 -0
- PYME/Analysis/annealThresh.py +157 -0
- PYME/Analysis/autoencoder_classifier.py +45 -0
- PYME/Analysis/binAvg.py +144 -0
- PYME/Analysis/composite.py +183 -0
- PYME/Analysis/cramerRao.py +259 -0
- PYME/Analysis/deTile.py +441 -0
- PYME/Analysis/density_filter.py +45 -0
- PYME/Analysis/distributed_pyramid.py +426 -0
- PYME/Analysis/fiducial_matching.py +220 -0
- PYME/Analysis/gen_sCMOS_maps.py +355 -0
- PYME/Analysis/graphing_filters.py +311 -0
- PYME/Analysis/implicitFilter.py +359 -0
- PYME/Analysis/keep_pairs.py +69 -0
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// TinyColor v1.4.1
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// https://github.com/bgrins/TinyColor
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3
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// 2016-07-07, Brian Grinstead, MIT License
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4
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c;return(c=V.rgb.exec(a))?{r:c[1],g:c[2],b:c[3]}:(c=V.rgba.exec(a))?{r:c[1],g:c[2],b:c[3],a:c[4]}:(c=V.hsl.exec(a))?{h:c[1],s:c[2],l:c[3]}:(c=V.hsla.exec(a))?{h:c[1],s:c[2],l:c[3],a:c[4]}:(c=V.hsv.exec(a))?{h:c[1],s:c[2],v:c[3]}:(c=V.hsva.exec(a))?{h:c[1],s:c[2],v:c[3],a:c[4]}:(c=V.hex8.exec(a))?{r:C(c[1]),g:C(c[2]),b:C(c[3]),a:I(c[4]),format:b?"name":"hex8"}:(c=V.hex6.exec(a))?{r:C(c[1]),g:C(c[2]),b:C(c[3]),format:b?"name":"hex"}:(c=V.hex4.exec(a))?{r:C(c[1]+""+c[1]),g:C(c[2]+""+c[2]),b:C(c[3]+""+c[3]),a:I(c[4]+""+c[4]),format:b?"name":"hex8"}:(c=V.hex3.exec(a))?{r:C(c[1]+""+c[1]),g:C(c[2]+""+c[2]),b:C(c[3]+""+c[3]),format:b?"name":"hex"}:!1}function L(a){var b,c;return a=a||{level:"AA",size:"small"},b=(a.level||"AA").toUpperCase(),c=(a.size||"small").toLowerCase(),"AA"!==b&&"AAA"!==b&&(b="AA"),"small"!==c&&"large"!==c&&(c="small"),{level:b,size:c}}var M=/^\s+/,N=/\s+$/,O=0,P=a.round,Q=a.min,R=a.max,S=a.random;b.prototype={isDark:function(){return this.getBrightness()<128},isLight:function(){return!this.isDark()},isValid:function(){return this._ok},getOriginalInput:function(){return this._originalInput},getFormat:function(){return this._format},getAlpha:function(){return this._a},getBrightness:function(){var a=this.toRgb();return(299*a.r+587*a.g+114*a.b)/1e3},getLuminance:function(){var b,c,d,e,f,g,h=this.toRgb();return b=h.r/255,c=h.g/255,d=h.b/255,e=.03928>=b?b/12.92:a.pow((b+.055)/1.055,2.4),f=.03928>=c?c/12.92:a.pow((c+.055)/1.055,2.4),g=.03928>=d?d/12.92:a.pow((d+.055)/1.055,2.4),.2126*e+.7152*f+.0722*g},setAlpha:function(a){return this._a=z(a),this._roundA=P(100*this._a)/100,this},toHsv:function(){var a=g(this._r,this._g,this._b);return{h:360*a.h,s:a.s,v:a.v,a:this._a}},toHsvString:function(){var a=g(this._r,this._g,this._b),b=P(360*a.h),c=P(100*a.s),d=P(100*a.v);return 1==this._a?"hsv("+b+", "+c+"%, "+d+"%)":"hsva("+b+", "+c+"%, "+d+"%, "+this._roundA+")"},toHsl:function(){var a=e(this._r,this._g,this._b);return{h:360*a.h,s:a.s,l:a.l,a:this._a}},toHslString:function(){var a=e(this._r,this._g,this._b),b=P(360*a.h),c=P(100*a.s),d=P(100*a.l);return 1==this._a?"hsl("+b+", "+c+"%, "+d+"%)":"hsla("+b+", "+c+"%, "+d+"%, "+this._roundA+")"},toHex:function(a){return i(this._r,this._g,this._b,a)},toHexString:function(a){return"#"+this.toHex(a)},toHex8:function(a){return j(this._r,this._g,this._b,this._a,a)},toHex8String:function(a){return"#"+this.toHex8(a)},toRgb:function(){return{r:P(this._r),g:P(this._g),b:P(this._b),a:this._a}},toRgbString:function(){return 1==this._a?"rgb("+P(this._r)+", "+P(this._g)+", "+P(this._b)+")":"rgba("+P(this._r)+", "+P(this._g)+", "+P(this._b)+", "+this._roundA+")"},toPercentageRgb:function(){return{r:P(100*A(this._r,255))+"%",g:P(100*A(this._g,255))+"%",b:P(100*A(this._b,255))+"%",a:this._a}},toPercentageRgbString:function(){return 1==this._a?"rgb("+P(100*A(this._r,255))+"%, "+P(100*A(this._g,255))+"%, 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e?"name"===a&&0===this._a?this.toName():this.toRgbString():("rgb"===a&&(c=this.toRgbString()),"prgb"===a&&(c=this.toPercentageRgbString()),("hex"===a||"hex6"===a)&&(c=this.toHexString()),"hex3"===a&&(c=this.toHexString(!0)),"hex4"===a&&(c=this.toHex8String(!0)),"hex8"===a&&(c=this.toHex8String()),"name"===a&&(c=this.toName()),"hsl"===a&&(c=this.toHslString()),"hsv"===a&&(c=this.toHsvString()),c||this.toHexString())},clone:function(){return b(this.toString())},_applyModification:function(a,b){var c=a.apply(null,[this].concat([].slice.call(b)));return this._r=c._r,this._g=c._g,this._b=c._b,this.setAlpha(c._a),this},lighten:function(){return this._applyModification(o,arguments)},brighten:function(){return this._applyModification(p,arguments)},darken:function(){return this._applyModification(q,arguments)},desaturate:function(){return this._applyModification(l,arguments)},saturate:function(){return this._applyModification(m,arguments)},greyscale:function(){return 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T=b.names={aliceblue:"f0f8ff",antiquewhite:"faebd7",aqua:"0ff",aquamarine:"7fffd4",azure:"f0ffff",beige:"f5f5dc",bisque:"ffe4c4",black:"000",blanchedalmond:"ffebcd",blue:"00f",blueviolet:"8a2be2",brown:"a52a2a",burlywood:"deb887",burntsienna:"ea7e5d",cadetblue:"5f9ea0",chartreuse:"7fff00",chocolate:"d2691e",coral:"ff7f50",cornflowerblue:"6495ed",cornsilk:"fff8dc",crimson:"dc143c",cyan:"0ff",darkblue:"00008b",darkcyan:"008b8b",darkgoldenrod:"b8860b",darkgray:"a9a9a9",darkgreen:"006400",darkgrey:"a9a9a9",darkkhaki:"bdb76b",darkmagenta:"8b008b",darkolivegreen:"556b2f",darkorange:"ff8c00",darkorchid:"9932cc",darkred:"8b0000",darksalmon:"e9967a",darkseagreen:"8fbc8f",darkslateblue:"483d8b",darkslategray:"2f4f4f",darkslategrey:"2f4f4f",darkturquoise:"00ced1",darkviolet:"9400d3",deeppink:"ff1493",deepskyblue:"00bfff",dimgray:"696969",dimgrey:"696969",dodgerblue:"1e90ff",firebrick:"b22222",floralwhite:"fffaf0",forestgreen:"228b22",fuchsia:"f0f",gainsboro:"dcdcdc",ghostwhite:"f8f8ff",gold:"ffd700",goldenrod:"daa520",gray:"808080",green:"008000",greenyellow:"adff2f",grey:"808080",honeydew:"f0fff0",hotpink:"ff69b4",indianred:"cd5c5c",indigo:"4b0082",ivory:"fffff0",khaki:"f0e68c",lavender:"e6e6fa",lavenderblush:"fff0f5",lawngreen:"7cfc00",lemonchiffon:"fffacd",lightblue:"add8e6",lightcoral:"f08080",lightcyan:"e0ffff",lightgoldenrodyellow:"fafad2",lightgray:"d3d3d3",lightgreen:"90ee90",lightgrey:"d3d3d3",lightpink:"ffb6c1",lightsalmon:"ffa07a",lightseagreen:"20b2aa",lightskyblue:"87cefa",lightslategray:"789",lightslategrey:"789",lightsteelblue:"b0c4de",lightyellow:"ffffe0",lime:"0f0",limegreen:"32cd32",linen:"faf0e6",magenta:"f0f",maroon:"800000",mediumaquamarine:"66cdaa",mediumblue:"0000cd",mediumorchid:"ba55d3",mediumpurple:"9370db",mediumseagreen:"3cb371",mediumslateblue:"7b68ee",mediumspringgreen:"00fa9a",mediumturquoise:"48d1cc",mediumvioletred:"c71585",midnightblue:"191970",mintcream:"f5fffa",mistyrose:"ffe4e1",moccasin:"ffe4b5",navajowhite:"ffdead",navy:"000080",oldlace:"fdf5e6",olive:"808000",olivedrab:"6b8e23",orange:"ffa500",orangered:"ff4500",orchid:"da70d6",palegoldenrod:"eee8aa",palegreen:"98fb98",paleturquoise:"afeeee",palevioletred:"db7093",papayawhip:"ffefd5",peachpuff:"ffdab9",peru:"cd853f",pink:"ffc0cb",plum:"dda0dd",powderblue:"b0e0e6",purple:"800080",rebeccapurple:"663399",red:"f00",rosybrown:"bc8f8f",royalblue:"4169e1",saddlebrown:"8b4513",salmon:"fa8072",sandybrown:"f4a460",seagreen:"2e8b57",seashell:"fff5ee",sienna:"a0522d",silver:"c0c0c0",skyblue:"87ceeb",slateblue:"6a5acd",slategray:"708090",slategrey:"708090",snow:"fffafa",springgreen:"00ff7f",steelblue:"4682b4",tan:"d2b48c",teal:"008080",thistle:"d8bfd8",tomato:"ff6347",turquoise:"40e0d0",violet:"ee82ee",wheat:"f5deb3",white:"fff",whitesmoke:"f5f5f5",yellow:"ff0",yellowgreen:"9acd32"},U=b.hexNames=y(T),V=function(){var a="[-\\+]?\\d+%?",b="[-\\+]?\\d*\\.\\d+%?",c="(?:"+b+")|(?:"+a+")",d="[\\s|\\(]+("+c+")[,|\\s]+("+c+")[,|\\s]+("+c+")\\s*\\)?",e="[\\s|\\(]+("+c+")[,|\\s]+("+c+")[,|\\s]+("+c+")[,|\\s]+("+c+")\\s*\\)?";return{CSS_UNIT:new RegExp(c),rgb:new RegExp("rgb"+d),rgba:new RegExp("rgba"+e),hsl:new RegExp("hsl"+d),hsla:new RegExp("hsla"+e),hsv:new RegExp("hsv"+d),hsva:new RegExp("hsva"+e),hex3:/^#?([0-9a-fA-F]{1})([0-9a-fA-F]{1})([0-9a-fA-F]{1})$/,hex6:/^#?([0-9a-fA-F]{2})([0-9a-fA-F]{2})([0-9a-fA-F]{2})$/,hex4:/^#?([0-9a-fA-F]{1})([0-9a-fA-F]{1})([0-9a-fA-F]{1})([0-9a-fA-F]{1})$/,hex8:/^#?([0-9a-fA-F]{2})([0-9a-fA-F]{2})([0-9a-fA-F]{2})([0-9a-fA-F]{2})$/}}();"undefined"!=typeof module&&module.exports?module.exports=b:"function"==typeof define&&define.amd?define(function(){return b}):window.tinycolor=b}(Math);
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@@ -0,0 +1,30 @@
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import os
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2
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#import SimpleHTTPServer
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# noinspection PyCompatibility
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import http.server
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# noinspection PyCompatibility
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import socketserver
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import webbrowser
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import threading
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import time
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PORT = 9000
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def launch_browser():
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#wait for the server to come up
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time.sleep(.5)
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print('Opening in browser')
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webbrowser.open("http://127.0.0.1:%d/" %PORT)
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if __name__ == '__main__':
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os.chdir(os.path.join(os.path.split(__file__)[0], 'html'))
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+
Handler = http.server.SimpleHTTPRequestHandler
|
|
25
|
+
|
|
26
|
+
httpd = socketserver.TCPServer(("127.0.0.1", PORT), Handler)
|
|
27
|
+
|
|
28
|
+
print("Serving at http://127.0.0.1:%d/" %PORT)
|
|
29
|
+
threading.Thread(target=launch_browser).start()
|
|
30
|
+
httpd.serve_forever()
|
|
@@ -0,0 +1,95 @@
|
|
|
1
|
+
#!/usr/bin/python
|
|
2
|
+
##################
|
|
3
|
+
# install_dependencies.py
|
|
4
|
+
#
|
|
5
|
+
# Copyright David Baddeley, 2011
|
|
6
|
+
# d.baddeley@auckland.ac.nz
|
|
7
|
+
#
|
|
8
|
+
# This program is free software: you can redistribute it and/or modify
|
|
9
|
+
# it under the terms of the GNU General Public License as published by
|
|
10
|
+
# the Free Software Foundation, either version 3 of the License, or
|
|
11
|
+
# (at your option) any later version.
|
|
12
|
+
#
|
|
13
|
+
# This program is distributed in the hope that it will be useful,
|
|
14
|
+
# but WITHOUT ANY WARRANTY; without even the implied warranty of
|
|
15
|
+
# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
|
|
16
|
+
# GNU General Public License for more details.
|
|
17
|
+
#
|
|
18
|
+
# You should have received a copy of the GNU General Public License
|
|
19
|
+
# along with this program. If not, see <http://www.gnu.org/licenses/>.
|
|
20
|
+
#
|
|
21
|
+
##################
|
|
22
|
+
"""install_dependencies trys to pull binary packages from the distro, if present
|
|
23
|
+
and of a suitable version, falling back on pip for any packages not found."""
|
|
24
|
+
|
|
25
|
+
import apt #hope this is there
|
|
26
|
+
import sys
|
|
27
|
+
import os
|
|
28
|
+
|
|
29
|
+
#version numbers here are minumum versions
|
|
30
|
+
depends = {'python' : '2.6',
|
|
31
|
+
'python-imaging' : '1.1.6',
|
|
32
|
+
'python-opengl' : '3.0.1',
|
|
33
|
+
'pyro' : '3.9.1',
|
|
34
|
+
'python-dev' : '',
|
|
35
|
+
'python-matplotlib' : '0.98',
|
|
36
|
+
'python-numpy' : '1.2.1',
|
|
37
|
+
'python-scipy' : '0.7.0',
|
|
38
|
+
'python-tables' : '2.1.1',
|
|
39
|
+
'build-essential' : '',
|
|
40
|
+
'python-wxgtk2.8' : '2.8.11.0',
|
|
41
|
+
'python-pip' : ''}
|
|
42
|
+
|
|
43
|
+
recommends = {
|
|
44
|
+
'python-sympy' : '0.6.3',
|
|
45
|
+
'python-serial' : '',
|
|
46
|
+
'ipython' : '0.10',
|
|
47
|
+
'python-sphinx' : '0.6.5',
|
|
48
|
+
'python-django' : '1.2.1',
|
|
49
|
+
'python-django-south' : '0.7.1',
|
|
50
|
+
'mayavi2' : '3.3',
|
|
51
|
+
'python-mysqldb' : '1.2.2'}
|
|
52
|
+
|
|
53
|
+
installRecommends = False
|
|
54
|
+
|
|
55
|
+
if __name__ == '__main__':
|
|
56
|
+
if len(sys.argv) > 1 and sys.argv[1] == 'recommends':
|
|
57
|
+
installRecommends = True
|
|
58
|
+
|
|
59
|
+
#add recommended packages to dependencies
|
|
60
|
+
depends.update(recommends)
|
|
61
|
+
|
|
62
|
+
cache = apt.Cache()
|
|
63
|
+
|
|
64
|
+
for packageName, version in depends.items():
|
|
65
|
+
try:
|
|
66
|
+
package = cache[packageName]
|
|
67
|
+
|
|
68
|
+
if not (package.isInstalled and package.installedVersion >= version):
|
|
69
|
+
if package.candidateVersion >= version:
|
|
70
|
+
if package.isInstalled:
|
|
71
|
+
package.markUpgrade()
|
|
72
|
+
else:
|
|
73
|
+
package.markInstall()
|
|
74
|
+
except KeyError: #if the distro doesn't have the package
|
|
75
|
+
pass
|
|
76
|
+
|
|
77
|
+
#install the modules available as packages
|
|
78
|
+
cache.commit()
|
|
79
|
+
|
|
80
|
+
|
|
81
|
+
#run pip to mop up everything else
|
|
82
|
+
#these have everything above plus a couple of additional dependencies which
|
|
83
|
+
#I'm not going to even try getting from the repositories as I know they're not there
|
|
84
|
+
#recommended-modules.txt includes required-modules.txt
|
|
85
|
+
if installRecommends:
|
|
86
|
+
os.system('pip install -r recommended-modules.txt')
|
|
87
|
+
else:
|
|
88
|
+
os.system('pip install -r required-modules.txt')
|
|
89
|
+
|
|
90
|
+
|
|
91
|
+
|
|
92
|
+
|
|
93
|
+
|
|
94
|
+
|
|
95
|
+
|
|
@@ -0,0 +1,11 @@
|
|
|
1
|
+
def patch_log_verbosity():
|
|
2
|
+
'''
|
|
3
|
+
We use logging.DEBUG as the logging level within PYME.
|
|
4
|
+
This is a bit high for some of our dependencies, so set their levels individually.
|
|
5
|
+
|
|
6
|
+
Should be called after the modules in question have been imported.
|
|
7
|
+
'''
|
|
8
|
+
import logging
|
|
9
|
+
logging.getLogger('matplotlib.font_manager').setLevel(logging.ERROR) #clobber unhelpful matplotlib debug messages
|
|
10
|
+
logging.getLogger('matplotlib.backends.backend_wx').setLevel(logging.ERROR)
|
|
11
|
+
logging.getLogger('PIL.PngImagePlugin').setLevel(logging.ERROR)
|
|
@@ -0,0 +1 @@
|
|
|
1
|
+
from .mProfile import *
|