python-microscopy 25.11.20__cp313-cp313-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.cp313-win_amd64.dll.a +0 -0
- PYME/Acquire/Hardware/Simulator/illuminate.cp313-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.cp313-win_amd64.dll.a +0 -0
- PYME/Analysis/PSFGen/ps_app.cp313-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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- PYME/recipes/pointcloud.py +510 -0
- PYME/recipes/processing.py +2954 -0
- PYME/recipes/pyramid.py +206 -0
- PYME/recipes/recipe.py +965 -0
- PYME/recipes/recipeGui.py +1029 -0
- PYME/recipes/recipeLayout.py +499 -0
- PYME/recipes/runRecipe.py +140 -0
- PYME/recipes/setup.py +37 -0
- PYME/recipes/simulation.py +91 -0
- PYME/recipes/skfilters.py +143 -0
- PYME/recipes/surface_fitting.py +776 -0
- PYME/recipes/tablefilters.py +275 -0
- PYME/recipes/tracking.py +343 -0
- PYME/recipes/traits.py +157 -0
- PYME/recipes/vertical_recipe_display.py +373 -0
- PYME/resources/__init__.py +23 -0
- PYME/resources/config_template/distributor.yaml +14 -0
- PYME/resources/config_template/nodeserver.yaml +15 -0
- PYME/resources/icons/LUT.png +0 -0
- PYME/resources/icons/YSM_Shield.png +0 -0
- PYME/resources/icons/YSM_logo.png +0 -0
- PYME/resources/icons/arrow.png +0 -0
- PYME/resources/icons/crosshairs.png +0 -0
- PYME/resources/icons/line_select.png +0 -0
- PYME/resources/icons/logo_fmhs.png +0 -0
- PYME/resources/icons/media-playback-pause.png +0 -0
- PYME/resources/icons/media-playback-start.png +0 -0
- PYME/resources/icons/media-skip-backward.png +0 -0
- PYME/resources/icons/media-skip-forward.png +0 -0
- PYME/resources/icons/mesh.png +0 -0
- PYME/resources/icons/mesh.svg +28 -0
- PYME/resources/icons/pmacquire.icns +0 -0
- PYME/resources/icons/pmacquire.ico +0 -0
- PYME/resources/icons/pmanal.icns +0 -0
- PYME/resources/icons/pmanal.ico +0 -0
- PYME/resources/icons/pmvis.icns +0 -0
- PYME/resources/icons/pmvis.ico +0 -0
- PYME/resources/icons/points.png +0 -0
- PYME/resources/icons/points.svg +16 -0
- PYME/resources/icons/pymeLogo.png +0 -0
- PYME/resources/icons/rect_select.png +0 -0
- PYME/resources/icons/squiggle_select.png +0 -0
- PYME/resources/icons/text3800.icns +0 -0
- PYME/resources/icons/text3800.ico +0 -0
- PYME/resources/icons/text3800.png +0 -0
- PYME/resources/icons/text3800.tif +0 -0
- PYME/resources/icons/text5377.icns +0 -0
- PYME/resources/icons/text5377.ico +0 -0
- PYME/resources/icons/text5377.png +0 -0
- PYME/resources/icons/tracks.png +0 -0
- PYME/resources/icons/tracks.svg +19 -0
- PYME/resources/icons/view-front.png +0 -0
- PYME/resources/icons/view-home.png +0 -0
- PYME/resources/icons/view-right.png +0 -0
- PYME/resources/icons/view-top.png +0 -0
- PYME/resources/test_datasets/README.md +8 -0
- PYME/resources/test_datasets/t_im.tif +0 -0
- PYME/resources/test_datasets/test_csv.csv +4282 -0
- PYME/resources/test_datasets/test_hdf.hdf +0 -0
- PYME/resources/web/rule_inline.html +21 -0
- PYME/resources/web/ruleserver.html +75 -0
- PYME/resources/web/static/bootstrap.min.js +7 -0
- PYME/resources/web/static/cluster.css +137 -0
- PYME/resources/web/static/css/bootstrap-theme.css +587 -0
- PYME/resources/web/static/css/bootstrap-theme.min.css +6 -0
- PYME/resources/web/static/css/bootstrap.css +6757 -0
- PYME/resources/web/static/css/bootstrap.min.css +6 -0
- PYME/resources/web/static/css/flat_design_colors_full.css +306 -0
- PYME/resources/web/static/css/recipe_editor.css +106 -0
- PYME/resources/web/static/dashboard.css +106 -0
- PYME/resources/web/static/fileselector.js +77 -0
- PYME/resources/web/static/fonts/glyphicons-halflings-regular.eot +0 -0
- PYME/resources/web/static/fonts/glyphicons-halflings-regular.svg +288 -0
- PYME/resources/web/static/fonts/glyphicons-halflings-regular.ttf +0 -0
- PYME/resources/web/static/fonts/glyphicons-halflings-regular.woff +0 -0
- PYME/resources/web/static/fonts/glyphicons-halflings-regular.woff2 +0 -0
- PYME/resources/web/static/images/osd_flat/LICENSE.txt +116 -0
- PYME/resources/web/static/images/osd_flat/README.md +9 -0
- PYME/resources/web/static/images/osd_flat/fullpage_grouphover.png +0 -0
- PYME/resources/web/static/images/osd_flat/fullpage_hover.png +0 -0
- PYME/resources/web/static/images/osd_flat/fullpage_pressed.png +0 -0
- PYME/resources/web/static/images/osd_flat/fullpage_rest.png +0 -0
- PYME/resources/web/static/images/osd_flat/home_grouphover.png +0 -0
- PYME/resources/web/static/images/osd_flat/home_hover.png +0 -0
- PYME/resources/web/static/images/osd_flat/home_pressed.png +0 -0
- PYME/resources/web/static/images/osd_flat/home_rest.png +0 -0
- PYME/resources/web/static/images/osd_flat/next_grouphover.png +0 -0
- PYME/resources/web/static/images/osd_flat/next_hover.png +0 -0
- PYME/resources/web/static/images/osd_flat/next_pressed.png +0 -0
- PYME/resources/web/static/images/osd_flat/next_rest.png +0 -0
- PYME/resources/web/static/images/osd_flat/previous_grouphover.png +0 -0
- PYME/resources/web/static/images/osd_flat/previous_hover.png +0 -0
- PYME/resources/web/static/images/osd_flat/previous_pressed.png +0 -0
- PYME/resources/web/static/images/osd_flat/previous_rest.png +0 -0
- PYME/resources/web/static/images/osd_flat/rotateleft_grouphover.png +0 -0
- PYME/resources/web/static/images/osd_flat/rotateleft_hover.png +0 -0
- PYME/resources/web/static/images/osd_flat/rotateleft_pressed.png +0 -0
- PYME/resources/web/static/images/osd_flat/rotateleft_rest.png +0 -0
- PYME/resources/web/static/images/osd_flat/rotateright_grouphover.png +0 -0
- PYME/resources/web/static/images/osd_flat/rotateright_hover.png +0 -0
- PYME/resources/web/static/images/osd_flat/rotateright_pressed.png +0 -0
- PYME/resources/web/static/images/osd_flat/rotateright_rest.png +0 -0
- PYME/resources/web/static/images/osd_flat/zoomin_grouphover.png +0 -0
- PYME/resources/web/static/images/osd_flat/zoomin_hover.png +0 -0
- PYME/resources/web/static/images/osd_flat/zoomin_pressed.png +0 -0
- PYME/resources/web/static/images/osd_flat/zoomin_rest.png +0 -0
- PYME/resources/web/static/images/osd_flat/zoomout_grouphover.png +0 -0
- PYME/resources/web/static/images/osd_flat/zoomout_hover.png +0 -0
- PYME/resources/web/static/images/osd_flat/zoomout_pressed.png +0 -0
- PYME/resources/web/static/images/osd_flat/zoomout_rest.png +0 -0
- PYME/resources/web/static/jigna-vue-bare.js +1395 -0
- PYME/resources/web/static/jquery.min.js +2 -0
- PYME/resources/web/static/jstree.min.js +6 -0
- PYME/resources/web/static/openSeadragonGL.js +102 -0
- PYME/resources/web/static/openseadragon-svg-overlay.js +103 -0
- PYME/resources/web/static/openseadragon-viewerinputhook.min.js +6 -0
- PYME/resources/web/static/openseadragon.min.js +9 -0
- PYME/resources/web/static/recipe_editor.js +119 -0
- PYME/resources/web/static/shaders/fragment/lut.glsl +20 -0
- PYME/resources/web/static/shaders/fragment/none.glsl +17 -0
- PYME/resources/web/static/shaders/fragment/outline.glsl +43 -0
- PYME/resources/web/static/shaders/fragment/rect.glsl +7 -0
- PYME/resources/web/static/shaders/fragment/sobel3.glsl +71 -0
- PYME/resources/web/static/shaders/fragment/white.glsl +4 -0
- PYME/resources/web/static/shaders/vertex/rect.glsl +22 -0
- PYME/resources/web/static/shaders/vertex/square.glsl +9 -0
- PYME/resources/web/static/utils.js +3 -0
- PYME/resources/web/static/viaWebGL.js +217 -0
- PYME/setup.py +109 -0
- PYME/setup_exe.py +57 -0
- PYME/simulation/__init__.py +0 -0
- PYME/simulation/locify.py +319 -0
- PYME/simulation/pointsets.py +279 -0
- PYME/simulation/wormlike.py +99 -0
- PYME/simulation/wormlike2.py +198 -0
- PYME/simulation/wormlike3.py +197 -0
- PYME/simulation/wormlike_curled.py +104 -0
- PYME/tileviewer/__init__.py +0 -0
- PYME/tileviewer/templates/roi_list.html +12 -0
- PYME/tileviewer/templates/tileviewer.html +247 -0
- PYME/tileviewer/tileviewer.py +207 -0
- PYME/ui/AUIFrame.py +279 -0
- PYME/ui/MetadataTree.py +469 -0
- PYME/ui/__init__.py +4 -0
- PYME/ui/about_dlg.py +29 -0
- PYME/ui/autoFoldPanel.py +643 -0
- PYME/ui/cascading_layout.py +45 -0
- PYME/ui/crop_dialog.py +145 -0
- PYME/ui/custom_traits_editors.py +508 -0
- PYME/ui/editFilterDialog.py +80 -0
- PYME/ui/editList.py +40 -0
- PYME/ui/fastGraph.py +240 -0
- PYME/ui/filterPane.py +348 -0
- PYME/ui/histLimits.py +543 -0
- PYME/ui/layerFoldPanel.py +232 -0
- PYME/ui/manualFoldPanel.py +870 -0
- PYME/ui/mytimer.py +116 -0
- PYME/ui/patch_traitsui.py +151 -0
- PYME/ui/progress.py +160 -0
- PYME/ui/recArrayView.py +145 -0
- PYME/ui/selection.py +71 -0
- PYME/ui/shell.py +37 -0
- PYME/ui/traitsui_constants.py +91 -0
- PYME/ui/wx_compat.py +43 -0
- PYME/update_version.py +159 -0
- PYME/util/__init__.py +3 -0
- PYME/util/authenticate.py +164 -0
- PYME/util/execfile.py +21 -0
- PYME/util/fProfile/__init__.py +1 -0
- PYME/util/fProfile/convertProfile.py +117 -0
- PYME/util/fProfile/fProfile.py +162 -0
- PYME/util/fProfile/html/404.html +60 -0
- PYME/util/fProfile/html/css/main.css +258 -0
- PYME/util/fProfile/html/css/normalize.css +427 -0
- PYME/util/fProfile/html/css/normalize.min.css +1 -0
- PYME/util/fProfile/html/index.html +64 -0
- PYME/util/fProfile/html/js/main.js +492 -0
- PYME/util/fProfile/html/js/plugins.js +24 -0
- PYME/util/fProfile/html/js/vendor/crossfilter.min.js +1 -0
- PYME/util/fProfile/html/js/vendor/jquery-1.11.2.min.js +4 -0
- PYME/util/fProfile/html/js/vendor/modernizr-2.8.3.min.js +4 -0
- PYME/util/fProfile/html/js/vendor/tinycolor-min.js +4 -0
- PYME/util/fProfile/viewProfile.py +30 -0
- PYME/util/install_dependencies.py +95 -0
- PYME/util/log_verbosity.py +11 -0
- PYME/util/mProfile/__init__.py +1 -0
- PYME/util/mProfile/colorize_db_t.py +297 -0
- PYME/util/mProfile/mProfile.py +164 -0
- PYME/util/mProfile/p.py +101 -0
- PYME/util/mProfile/tProfile.py +165 -0
- PYME/util/pymelauncher.py +47 -0
- PYME/util/shmarray/__init__.py +0 -0
- PYME/util/shmarray/shmTest.py +74 -0
- PYME/util/shmarray/shmarray.py +165 -0
- PYME/util/webframework.py +365 -0
- PYME/version.py +62 -0
- python_microscopy-25.11.20.dist-info/METADATA +68 -0
- python_microscopy-25.11.20.dist-info/RECORD +1278 -0
- python_microscopy-25.11.20.dist-info/WHEEL +4 -0
- python_microscopy-25.11.20.dist-info/entry_points.txt +18 -0
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from PYME.Acquire.Hardware.Piezos.base_piezo import PiezoBase
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import threading
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import ctypes
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import numpy as np
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import logging
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logger = logging.getLogger(__name__)
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# Download the Tango DLLs from https://www.marzhauser.com/nc/en/service/downloads.html?tx_abdownloads_pi1%5Baction%5D=getviewclickeddownload&tx_abdownloads_pi1%5Buid%5D=594
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# Place the appropriate version of Tango_DLL.dll for your operating system in C:\Windows\System32.
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mazlib = ctypes.WinDLL('Tango_DLL.dll')
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# mazlib = ctypes.WinDLL('MwPCIeUi_x64.dll')
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# --- Initialization
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CreateLSID = mazlib.LSX_CreateLSID
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# int LSX_CreateLSID(int *plLSID);
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CreateLSID.argtypes = [ctypes.POINTER(ctypes.c_int)]
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ConnectSimple = mazlib.LSX_ConnectSimple
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# int LSX_ConnectSimple(int lLSID, int lAnInterfaceType, char *pcAComName, int lABaudRate, BOOL bAShowProt);
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ConnectSimple.argtypes = [ctypes.c_int, ctypes.c_int, ctypes.POINTER(ctypes.c_char),
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ctypes.c_int, ctypes.c_bool]
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ClearPos = mazlib.LSX_ClearPos
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ClearPos.argtypes = [ctypes.c_int, ctypes.c_int]
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ClearPos.__doc__ = """ Sets current position and internal position counter to 0. This function is needed for endless
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axes, as controller can only process =/-1,000 motor revolutions within its parameters. This instruction will be ignored
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for axes with encoders. lFlags argument determines axis, Bit 0=X, Bit 1=Y, Bit 2=Z, Bit 3=A
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"""
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# --- Status
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# int LSX_GetError (int lLSID, int *plErrorCode);
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GetError.argtypes = [ctypes.c_int, ctypes.POINTER(ctypes.c_int)]
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GetError.__doc__ = """Provides current error number. Example: GetError(1, &ErrorCode);"""
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GetPos = mazlib.LSX_GetPos
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# int LSX_GetPos (int lLSID, double *pdX, double *pdY, double *pdZ, double *pdA);
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GetPos.argtypes = [ctypes.c_int, ctypes.POINTER(ctypes.c_double), ctypes.POINTER(ctypes.c_double),
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ctypes.POINTER(ctypes.c_double), ctypes.POINTER(ctypes.c_double)]
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GetPos.__doc__ = """Retrieves current position of all axes.
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Parameters
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X, Y, Z, A: Positions
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Example
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pTango->GetPos(1, &X, &Y, &Z, &A);"""
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GetEncoder = mazlib.LSX_GetEncoder
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GetEncoder.argtypes = [ctypes.c_int, ctypes.POINTER(ctypes.c_double),
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ctypes.POINTER(ctypes.c_double),
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ctypes.POINTER(ctypes.c_double),
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ctypes.POINTER(ctypes.c_double)]
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GetEncoder.__doc__ = """ Retrieves all encoder positions
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Parameters
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XP, YP, ZP, AP: Counter values, 4x interpolated
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Example
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pTango->GetEncoder(1, &XP, &YP, &ZP, &AP);"""
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# --- Units
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GetDimensions = mazlib.LSX_GetDimensions
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# int LSX_GetDimensions (int lLSID, int *plXD, int *plYD, int *plZD, int *plAD);
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GetDimensions.argtypes = [ctypes.c_int, ctypes.POINTER(ctypes.c_int), ctypes.POINTER(ctypes.c_int), ctypes.POINTER(ctypes.c_int), ctypes.POINTER(ctypes.c_int)]
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GetDimensions.__doc__ = """
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Provides the applied measuring units of axes
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Parameters XD, YD, ZD, AD: Dimension units
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0 Microsteps
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1 µm
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3 Degree
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4 Revolutions
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5 cm
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7 Inch
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8 mil (1/1000 Inch)
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Example pTango->GetDimensions(1, &XD, &YD,&ZD,&AD);
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"""
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SetDimensions = mazlib.LSX_SetDimensions
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#int LSX_SetDimensions (int lLSID, int lXD, int lYD, int lZD, int lAD);
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SetDimensions.argtypes = [ctypes.c_int, ctypes.c_int, ctypes.c_int, ctypes.c_int, ctypes.c_int]
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SetDimensions.__doc__ = """Set measuring units of axes
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Parameters XD, YD, ZD, AD: Dimension units
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0 Microsteps
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1 µm
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2 mm (Pre-set)
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3 Degree
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4 Revolutions
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5 cm
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6 m
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7 Inch
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8 mil (1/1000 Inch)
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Example pTango->SetDimensions(1, 3, 2, 2, 1);
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// X-Axis in degree, Y- and Z-Axis in mm and A-Axis in µm
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"""
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# --- Movement
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MoveRel = mazlib.LSX_MoveRel
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# int LSX_MoveRel (int lLSID, double dX, double dY, double dZ, double dA, BOOL bWait);
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MoveRel.argtypes = [ctypes.c_int, ctypes.c_double, ctypes.c_double, ctypes.c_double, ctypes.c_double, ctypes.c_bool]
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MoveRel.__doc__ = """Move relative position.
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Axes X, Y, Z and A are moved by the transmitted distances. All axes reach their destinations simultaneously.
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Parameters
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X, Y, Z, A: +/- Travel range, command depends on measuring unit (dimension)
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Wait: TRUE = function waits until position is reached FALSE = function does not wait
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Example
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pTango->MoveRel(1, 10.0, 10.0, -10.0, 10.0, TRUE);"""
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MoveRelSingleAxis = mazlib.LSX_MoveRelSingleAxis
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MoveRelSingleAxis.argtypes = [ctypes.c_int, ctypes.c_int32, ctypes.c_double, ctypes.c_bool]
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# int LSX_MoveRelSingleAxis (int lLSID, int lAxis, double dValue, BOOL bWait);
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MoveRelSingleAxis.__doc__ = """Description Move single axis relative.
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Parameters Axis: X, Y, Z and A numbered from 1 to 4
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+
Value: Distance, command depends on set measuring unit
|
|
121
|
+
Example pTango->MoveRelSingleAxis(1, 3, 5,0);
|
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122
|
+
// Z-Axis is moved by 5mm in positive direction"""
|
|
123
|
+
|
|
124
|
+
MoveRelShort = mazlib.LSX_MoveRelShort
|
|
125
|
+
# int LSX_MoveRelShort (int lLSID);
|
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126
|
+
MoveRelShort.argtypes = [ctypes.c_int]
|
|
127
|
+
MoveRelShort.__doc__ = """Relative positioning (short command).
|
|
128
|
+
This command may be used to execute several fast equal distance relative moves.
|
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129
|
+
Distances have to be pre-set once with LSX_SetDistance.
|
|
130
|
+
Parameters -
|
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131
|
+
Example pTango->SetDistance(1, 1.0, 1.0, 0, 0);
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132
|
+
for (i = 0; i < 10; i++) pTango->MoveRelShort(1); // position X- and Y-Axis 10 times relatively by 1mm"""
|
|
133
|
+
|
|
134
|
+
MoveAbs = mazlib.LSX_MoveAbs
|
|
135
|
+
# int LSX_MoveAbs (int lLSID, double dX, double dY, double dZ, double dA, BOOL bWait);
|
|
136
|
+
MoveAbs.argtypes = [ctypes.c_int, ctypes.c_double, ctypes.c_double, ctypes.c_double, ctypes.c_double, ctypes.c_bool]
|
|
137
|
+
MoveAbs.__doc__ = """
|
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138
|
+
All axes are moved absolute positions.
|
|
139
|
+
Axes X, Y, Z and A are positioned at transferred position values.
|
|
140
|
+
Parameters
|
|
141
|
+
X, Y, Z, A: +/- Travel range, command depends on measuring unit
|
|
142
|
+
Wait: Determines, whether function shall return after reaching position (= TRUE) or directly after sending the command (= FALSE)
|
|
143
|
+
Example
|
|
144
|
+
pTango->MoveAbs(1, 10.0, 10.0, -10.0, 10.0, TRUE);"""
|
|
145
|
+
|
|
146
|
+
MoveAbsSingleAxis = mazlib.LSX_MoveAbsSingleAxis
|
|
147
|
+
# int LSX_MoveAbsSingleAxis (int lLSID, int lAxis, double dValue, BOOL bWait);
|
|
148
|
+
MoveAbsSingleAxis.argtypes = [ctypes.c_int, ctypes.c_int, ctypes.c_double, ctypes.c_bool]
|
|
149
|
+
MoveAbsSingleAxis.__doc__ = """
|
|
150
|
+
Positions a single axis at the transferred position.
|
|
151
|
+
Parameters
|
|
152
|
+
Axis: X, Y, Z and A, numbered from 1 to 4
|
|
153
|
+
Value: Position, command depends on measuring unit (dimension)
|
|
154
|
+
Example
|
|
155
|
+
pTango->MoveAbsSingleAxis(1, 2, 10.0);
|
|
156
|
+
// position Y-Axis absolutely at 10mm (dimension=2)"""
|
|
157
|
+
|
|
158
|
+
GetDistance = mazlib.LSX_GetDistance
|
|
159
|
+
# int LSX_GetDistance (int lLSID, double *pdX, double *pdY, double *pdZ, double *pdA);
|
|
160
|
+
GetDistance.argtypes = [ctypes.c_int, ctypes.POINTER(ctypes.c_double), ctypes.POINTER(ctypes.c_double),
|
|
161
|
+
ctypes.POINTER(ctypes.c_double), ctypes.POINTER(ctypes.c_double)]
|
|
162
|
+
GetDistance.__doc__ = """Retrieve distance values last used for LSX_MoveRelShort.
|
|
163
|
+
Parameters X, Y, Z, A: Current distances of all axes, depending on corresponding measuring unit.
|
|
164
|
+
Example pTango->GetDistance(1, &X, &Y, &Z, &A);"""
|
|
165
|
+
|
|
166
|
+
SetDistance = mazlib.LSX_SetDistance
|
|
167
|
+
# int LSX_SetDistance (int lLSID, double dX, double dY, double dZ, double dA);
|
|
168
|
+
SetDistance.argtypes = [ctypes.c_int, ctypes.c_double, ctypes.c_double, ctypes.c_double, ctypes.c_double]
|
|
169
|
+
SetDistance.__doc__ = """Sets distance parameters for command LSX_MoveRelShort. This enables very fast equal distance r
|
|
170
|
+
elative positioning without the need of communication overhead.
|
|
171
|
+
Parameters
|
|
172
|
+
X, Y, Z, A: Min-/max- travel range, values depend on measuring unit.
|
|
173
|
+
Example
|
|
174
|
+
SetDistance(1, 1, 2, 0, 0); // sets distances for axes X to 1mm and Y to 2mm (if dimension=2), Z and A are not moved when calling function LSX_MoveRelShort"""
|
|
175
|
+
|
|
176
|
+
|
|
177
|
+
# --- velocity
|
|
178
|
+
|
|
179
|
+
GetVel = mazlib.LSX_GetVel
|
|
180
|
+
GetVel.argtypes = [ctypes.c_int, ctypes.POINTER(ctypes.c_double),
|
|
181
|
+
ctypes.POINTER(ctypes.c_double),
|
|
182
|
+
ctypes.POINTER(ctypes.c_double),
|
|
183
|
+
ctypes.POINTER(ctypes.c_double)]
|
|
184
|
+
GetVel.__doc__ = """Retrieves velocity of all axes
|
|
185
|
+
Parameters
|
|
186
|
+
pdX, pdY, pdZ, pdA: Velocity values [r/sec]
|
|
187
|
+
Example
|
|
188
|
+
GetVel(1, &X, &Y, &Z, &A);"""
|
|
189
|
+
|
|
190
|
+
SetVel = mazlib.LSX_SetVel
|
|
191
|
+
SetVel.argtypes = [ctypes.c_int, ctypes.c_double, ctypes.c_double,
|
|
192
|
+
ctypes.c_double, ctypes.c_double]
|
|
193
|
+
SetVel.__doc__ = """ Set velocity of all axes
|
|
194
|
+
Parameters
|
|
195
|
+
X, Y, Z, A: >0 – max. speed [r/sec]
|
|
196
|
+
Example
|
|
197
|
+
SetVel(1, 20.0, 15.0, 0.5, 10)"""
|
|
198
|
+
|
|
199
|
+
IsVel = mazlib.LSX_IsVel
|
|
200
|
+
IsVel.argtypes = [ctypes.c_int, ctypes.POINTER(ctypes.c_double),
|
|
201
|
+
ctypes.POINTER(ctypes.c_double),
|
|
202
|
+
ctypes.POINTER(ctypes.c_double),
|
|
203
|
+
ctypes.POINTER(ctypes.c_double)]
|
|
204
|
+
IsVel.__doc__ = """ Read the actual velocities at which the axes are currently
|
|
205
|
+
travelling. Unlike '?vel' or '?speed' this instruction returns the currently
|
|
206
|
+
travelled (true) speed of the axes, even when controlled by a HDI device.
|
|
207
|
+
Parameters pdX, pdY, pd Z, pdA: actual axes velocities in [mm/s]
|
|
208
|
+
Example pTango->IsVel(1, &vx, &vy, &vz, &va);"""
|
|
209
|
+
|
|
210
|
+
GetPitch = mazlib.LSX_GetPitch
|
|
211
|
+
GetPitch.argtypes = [ctypes.c_int, ctypes.POINTER(ctypes.c_double),
|
|
212
|
+
ctypes.POINTER(ctypes.c_double),
|
|
213
|
+
ctypes.POINTER(ctypes.c_double),
|
|
214
|
+
ctypes.POINTER(ctypes.c_double)]
|
|
215
|
+
GetPitch.__doc__ = """ Provides spindle pitch.
|
|
216
|
+
Parameters X, Y, Z, A: Spindle pitch [mm]
|
|
217
|
+
Example pTango->GetPitch(1, &X, &Y, &Z, &A);
|
|
218
|
+
NOTE - it looks like this is actually [mm/r]"""
|
|
219
|
+
|
|
220
|
+
|
|
221
|
+
# --- Joystick
|
|
222
|
+
SetJoystickOn = mazlib.LSX_SetJoystickOn
|
|
223
|
+
SetJoystickOff = mazlib.LSX_SetJoystickOff
|
|
224
|
+
|
|
225
|
+
|
|
226
|
+
# --- Shutting down
|
|
227
|
+
Disconnect = mazlib.LSX_Disconnect
|
|
228
|
+
# int LSX_Disconnect(int lLSID);
|
|
229
|
+
Disconnect.argtypes = [ctypes.c_int]
|
|
230
|
+
|
|
231
|
+
FreeLSID = mazlib.LSX_FreeLSID
|
|
232
|
+
# int LSX_FreeLSID(int lLSID);
|
|
233
|
+
FreeLSID.argtypes = [ctypes.c_int]
|
|
234
|
+
|
|
235
|
+
StopAxes = mazlib.LSX_StopAxes
|
|
236
|
+
# int LSX_StopAxes (int lLSID);
|
|
237
|
+
StopAxes.argtypes = [ctypes.c_int]
|
|
238
|
+
|
|
239
|
+
# --- limits
|
|
240
|
+
|
|
241
|
+
GetLimit = mazlib.LSX_GetLimit
|
|
242
|
+
GetLimit.argtypes = [ctypes.c_int, ctypes.c_int,
|
|
243
|
+
ctypes.POINTER(ctypes.c_double),
|
|
244
|
+
ctypes.POINTER(ctypes.c_double)]
|
|
245
|
+
GetLimit.__doc__ = """Provides soft travel range limits
|
|
246
|
+
Parameters
|
|
247
|
+
Axis: Axis from which travel range limits are to be retrieved
|
|
248
|
+
(X, Y, Z, A numbered from 1=X to 4=A)
|
|
249
|
+
MinRange: lower travel range limit, unit depends on dimension
|
|
250
|
+
MaxRange: upper travel range limit, unit depends on dimension
|
|
251
|
+
Example
|
|
252
|
+
GetLimit(1, &MinRange, &MaxRange);"""
|
|
253
|
+
|
|
254
|
+
SetLimit = mazlib.LSX_SetLimit
|
|
255
|
+
SetLimit.argtypes = [ctypes.c_int, ctypes.c_int,
|
|
256
|
+
ctypes.c_double, ctypes.c_double]
|
|
257
|
+
SetLimit.__doc__ = """ Set soft travel range limits
|
|
258
|
+
Parameters
|
|
259
|
+
Axis: Axis from which travel range limits are to be retrieved
|
|
260
|
+
(X, Y, Z, A numbered from 1=X to 4=A)
|
|
261
|
+
MinRange: lower travel range limit, unit depends on dimension
|
|
262
|
+
MaxRange: upper travel range limit, unit depends on dimension
|
|
263
|
+
Example
|
|
264
|
+
SetLimit(1, 1, -10.0, 20.0);
|
|
265
|
+
// assign X-Axis –10 as lower and 20 as upper travel range limits"""
|
|
266
|
+
|
|
267
|
+
GetLimitControl = mazlib.LSX_GetLimitControl
|
|
268
|
+
GetLimitControl.argtypes = [ctypes.c_int, ctypes.c_int,
|
|
269
|
+
ctypes.POINTER(ctypes.c_bool)]
|
|
270
|
+
GetLimitControl.__doc__ = """ Retrieves, whether area control (limits) is
|
|
271
|
+
switched on or off.
|
|
272
|
+
Parameters
|
|
273
|
+
Axis: X, Y, Z and A, numbered from 1=X to 4=A
|
|
274
|
+
Active: TRUE = area control of corresponding axis is active
|
|
275
|
+
FALSE = area control of corresponding axis is deactivated
|
|
276
|
+
Example
|
|
277
|
+
GetLimitControl(1, 2, &Active);
|
|
278
|
+
"""
|
|
279
|
+
|
|
280
|
+
SetLimitControl = mazlib.LSX_GetLimitControl
|
|
281
|
+
SetLimitControl.argtypes = [ctypes.c_int, ctypes.c_int, ctypes.c_bool]
|
|
282
|
+
SetLimitControl.__doc__ = """ Retrieves, whether area control (limits) is
|
|
283
|
+
switched on or off.
|
|
284
|
+
Parameters
|
|
285
|
+
Axis: X, Y, Z and A, numbered from 1=X to 4=A
|
|
286
|
+
Active: TRUE = activate area control of corresponding axis
|
|
287
|
+
FALSE = disable area control of corresponding axis
|
|
288
|
+
Example
|
|
289
|
+
SetLimitControl(1, 2, TRUE); // Area control of Y-Axis is active
|
|
290
|
+
"""
|
|
291
|
+
|
|
292
|
+
|
|
293
|
+
class MarzHauserJoystick(object):
|
|
294
|
+
"""Shim class to be used for scope.joystick"""
|
|
295
|
+
def __init__(self, stepper):
|
|
296
|
+
self.stepper = stepper
|
|
297
|
+
|
|
298
|
+
def Enable(self, enabled=True):
|
|
299
|
+
if not self.IsEnabled() == enabled:
|
|
300
|
+
self.stepper.SetJoystick(enabled)
|
|
301
|
+
|
|
302
|
+
def IsEnabled(self):
|
|
303
|
+
return self.stepper._joystick_enabled
|
|
304
|
+
|
|
305
|
+
|
|
306
|
+
class MarzhauserTango(PiezoBase):
|
|
307
|
+
"""
|
|
308
|
+
Marzhauser Tango stage. The dll API supports 4 axes (x, y, z, a), all of
|
|
309
|
+
which are exposed/supported by this class. For stages only supporting (x, y)
|
|
310
|
+
or (x, y, z) axes, you can directly use this class and only register the
|
|
311
|
+
axes you have wth PYMEAcquire, however it is recommended to subclass and
|
|
312
|
+
expose only the axes present
|
|
313
|
+
"""
|
|
314
|
+
units_um=1 # units of the stage default to mm, but we set to um in init
|
|
315
|
+
|
|
316
|
+
def __init__(self):
|
|
317
|
+
self.lock = threading.Lock()
|
|
318
|
+
|
|
319
|
+
# open interface
|
|
320
|
+
self.lsid = ctypes.c_int(0)
|
|
321
|
+
CreateLSID(ctypes.byref(self.lsid))
|
|
322
|
+
# ConnectSimple(1, -1, NULL, 57600, TRUE); // Autoconnect with the first found USB or PCI TANGO in the system
|
|
323
|
+
ConnectSimple(self.lsid, ctypes.c_int(-1), None, ctypes.c_int(57600), ctypes.c_bool(False)) # baud doesn't matter for dll usage
|
|
324
|
+
|
|
325
|
+
SetDimensions(self.lsid, ctypes.c_int(1), ctypes.c_int(1),
|
|
326
|
+
ctypes.c_int(1), ctypes.c_int(1)) # put all axes in [um]
|
|
327
|
+
|
|
328
|
+
self._allocate_memory()
|
|
329
|
+
|
|
330
|
+
self._joystick_enabled = False
|
|
331
|
+
self.SetJoystick(True)
|
|
332
|
+
|
|
333
|
+
def _allocate_memory(self):
|
|
334
|
+
self._c_position = (ctypes.c_double(0), # X, [um]
|
|
335
|
+
ctypes.c_double(0), # Y, [um]
|
|
336
|
+
ctypes.c_double(0), # Z, [um]
|
|
337
|
+
ctypes.c_double(0)) # A, [um]
|
|
338
|
+
self._c_position_ref = tuple(ctypes.byref(p) for p in self._c_position)
|
|
339
|
+
|
|
340
|
+
self._c_target_rps = (ctypes.c_double(0), # X, [r/sec]
|
|
341
|
+
ctypes.c_double(0), # Y, [r/sec]
|
|
342
|
+
ctypes.c_double(0), # Z, [r/sec]
|
|
343
|
+
ctypes.c_double(0)) # A, [r/sec]
|
|
344
|
+
self._c_target_rps_ref = tuple(ctypes.byref(p) for p in self._c_target_rps)
|
|
345
|
+
|
|
346
|
+
self._c_encoder_positions = (ctypes.c_double(0), # X, [um]
|
|
347
|
+
ctypes.c_double(0), # Y, [um]
|
|
348
|
+
ctypes.c_double(0), # Z, [um]
|
|
349
|
+
ctypes.c_double(0)) # A, [um]
|
|
350
|
+
self._c_encoder_positions_ref = tuple(ctypes.byref(p) for p in self._c_encoder_positions)
|
|
351
|
+
|
|
352
|
+
# note pitch is always measured in mm, doesn't change with SetDimensions
|
|
353
|
+
self._c_pitch = (ctypes.c_double(0), # X, [mm / r]
|
|
354
|
+
ctypes.c_double(0), # Y, [mm / r]
|
|
355
|
+
ctypes.c_double(0), # Z, [mm / r]
|
|
356
|
+
ctypes.c_double(0)) # A, [mm / r]
|
|
357
|
+
self._c_pitch_ref = tuple(ctypes.byref(p) for p in self._c_pitch)
|
|
358
|
+
|
|
359
|
+
self.c_limits_active = ctypes.c_bool(False)
|
|
360
|
+
|
|
361
|
+
# use dict-lookup for limits as PYME axes are 0-indexed and tango's are
|
|
362
|
+
# 1-indexed
|
|
363
|
+
self._c_limits = {
|
|
364
|
+
'axis': {
|
|
365
|
+
0: ctypes.c_int(1), # X
|
|
366
|
+
1: ctypes.c_int(2), # Y
|
|
367
|
+
2: ctypes.c_int(3), # Z
|
|
368
|
+
3: ctypes.c_int(4), # A
|
|
369
|
+
},
|
|
370
|
+
'active': {
|
|
371
|
+
0: ctypes.c_bool(0), # X
|
|
372
|
+
1: ctypes.c_bool(0), # Y
|
|
373
|
+
2: ctypes.c_bool(0), # Z
|
|
374
|
+
3: ctypes.c_bool(0) # A
|
|
375
|
+
},
|
|
376
|
+
'active_ref': {
|
|
377
|
+
0: '',
|
|
378
|
+
1: '',
|
|
379
|
+
2: '',
|
|
380
|
+
3: ''
|
|
381
|
+
},
|
|
382
|
+
0: (ctypes.c_double(0), ctypes.c_double(0)), # X min-max [um]
|
|
383
|
+
1: (ctypes.c_double(0), ctypes.c_double(0)), # Y min-max [um]
|
|
384
|
+
2: (ctypes.c_double(0), ctypes.c_double(0)), # Z min-max [um]
|
|
385
|
+
3: (ctypes.c_double(0), ctypes.c_double(0)), # A min-max [um]
|
|
386
|
+
}
|
|
387
|
+
for ind in range(4):
|
|
388
|
+
self._c_limits['ref'] = {
|
|
389
|
+
ind: (ctypes.byref(self._c_limits[ind][0]),
|
|
390
|
+
ctypes.byref(self._c_limits[ind][1]))
|
|
391
|
+
}
|
|
392
|
+
self._c_limits['active_ref'][ind] = ctypes.byref(self._c_limits['active'][0])
|
|
393
|
+
|
|
394
|
+
def __del__(self):
|
|
395
|
+
self.close()
|
|
396
|
+
|
|
397
|
+
def close(self):
|
|
398
|
+
# stop everything
|
|
399
|
+
StopAxes(self.lsid)
|
|
400
|
+
# close interface
|
|
401
|
+
Disconnect(self.lsid)
|
|
402
|
+
FreeLSID(self.lsid)
|
|
403
|
+
|
|
404
|
+
def ReInit(self):
|
|
405
|
+
raise NotImplementedError
|
|
406
|
+
|
|
407
|
+
def MoveTo(self, iChannel, fPos, bTimeOut=True, wait=True):
|
|
408
|
+
with self.lock:
|
|
409
|
+
pos = [ctypes.c_double() for i in range(4)]
|
|
410
|
+
GetPos(self.lsid, ctypes.byref(pos[0]), ctypes.byref(pos[1]), ctypes.byref(pos[2]), ctypes.byref(pos[3]))
|
|
411
|
+
|
|
412
|
+
pos[iChannel] = ctypes.c_double(fPos)
|
|
413
|
+
MoveAbs(self.lsid, pos[0], pos[1], pos[2], pos[3], wait)
|
|
414
|
+
# MoveAbs (int lLSID, double dX, double dY, double dZ, double dA, BOOL bWait);
|
|
415
|
+
|
|
416
|
+
def MoveRel(self, iChannel, incr, bTimeOut=True, wait_to_finish=True):
|
|
417
|
+
pos = 4 * [ctypes.c_double()]
|
|
418
|
+
pos[iChannel] = incr
|
|
419
|
+
with self.lock:
|
|
420
|
+
MoveRel(self.lsid, pos[0], pos[1], pos[2], pos[3], wait_to_finish)
|
|
421
|
+
|
|
422
|
+
def MoveRelOneAxis(self, increment):
|
|
423
|
+
|
|
424
|
+
raise NotImplementedError
|
|
425
|
+
|
|
426
|
+
def GetPos(self, iChannel=0):
|
|
427
|
+
with self.lock:
|
|
428
|
+
GetPos(self.lsid, *self._c_position_ref)
|
|
429
|
+
return self._c_position[iChannel].value
|
|
430
|
+
|
|
431
|
+
def _get_dimensions(self):
|
|
432
|
+
""" Returns measurement unit specified for each axis:
|
|
433
|
+
0 Microsteps
|
|
434
|
+
1 µm
|
|
435
|
+
2 mm (Pre-set)
|
|
436
|
+
3 Degree
|
|
437
|
+
4 Revolutions
|
|
438
|
+
5 cm
|
|
439
|
+
6 m
|
|
440
|
+
7 Inch
|
|
441
|
+
8 mil (1/1000 Inch)
|
|
442
|
+
"""
|
|
443
|
+
dim = [ctypes.c_int() for i in range(4)]
|
|
444
|
+
with self.lock:
|
|
445
|
+
GetDimensions(self.lsid, ctypes.byref(dim[0]), ctypes.byref(dim[1]), ctypes.byref(dim[2]), ctypes.byref(dim[3]))
|
|
446
|
+
return dim
|
|
447
|
+
|
|
448
|
+
def SetJoystick(self, enabled=True):
|
|
449
|
+
if enabled:
|
|
450
|
+
SetJoystickOn(self.lsid, ctypes.c_bool(True), ctypes.c_bool(True))
|
|
451
|
+
self._joystick_enabled = True
|
|
452
|
+
else:
|
|
453
|
+
SetJoystickOff(self.lsid)
|
|
454
|
+
self._joystick_enabled = False
|
|
455
|
+
|
|
456
|
+
def GetMin(self,iChan=0):
|
|
457
|
+
return -25
|
|
458
|
+
def GetMax(self, iChan=0):
|
|
459
|
+
return 25
|
|
460
|
+
|
|
461
|
+
def clear_position(self):
|
|
462
|
+
ClearPos(self.lsid, 7)
|
|
463
|
+
|
|
464
|
+
@property
|
|
465
|
+
def _target_rps(self):
|
|
466
|
+
"""
|
|
467
|
+
Returns
|
|
468
|
+
-------
|
|
469
|
+
target_rps : list
|
|
470
|
+
(x, y, z, a) velocities in [revolutions / s]
|
|
471
|
+
"""
|
|
472
|
+
GetVel(self.lsid, *self._c_target_rps_ref)
|
|
473
|
+
return [v.value for v in self._c_target_rps]
|
|
474
|
+
|
|
475
|
+
@_target_rps.setter
|
|
476
|
+
def _target_rps(self, rps):
|
|
477
|
+
try:
|
|
478
|
+
for ind, value in enumerate(rps):
|
|
479
|
+
self._c_target_rps[ind].value = value
|
|
480
|
+
SetVel(self.lsid, *self._c_target_rps)
|
|
481
|
+
except:
|
|
482
|
+
GetVel(self.lsid, *self._c_target_rps_ref) # try and fix state
|
|
483
|
+
raise
|
|
484
|
+
|
|
485
|
+
@property
|
|
486
|
+
def _pitch(self):
|
|
487
|
+
"thread pitch along each axis, in [mm] (equivalently, mm / revolution)"
|
|
488
|
+
GetPitch(self.lsid, *self._c_pitch_ref)
|
|
489
|
+
return [v.value for v in self._c_pitch]
|
|
490
|
+
|
|
491
|
+
@property
|
|
492
|
+
def _velocity(self):
|
|
493
|
+
vel_mm = np.asarray(self._pitch) * np.asarray(self._target_rps)
|
|
494
|
+
return vel_mm * 1e3
|
|
495
|
+
|
|
496
|
+
@_velocity.setter
|
|
497
|
+
def _velocity(self, velocities):
|
|
498
|
+
"""
|
|
499
|
+
Changing pitch seems a little weird. Might be possible via gear changes,
|
|
500
|
+
but for now we let the board/stage handle that on its own, so to change
|
|
501
|
+
the velocity we'll just change the target revolutions per second
|
|
502
|
+
"""
|
|
503
|
+
self._target_rps = (np.asarray(velocities) / 1e3) / self._pitch
|
|
504
|
+
|
|
505
|
+
def get_encoder_positions(self):
|
|
506
|
+
GetEncoder(self.lsid, *self._c_encoder_positions_ref)
|
|
507
|
+
return [p.value for p in self._c_encoder_positions]
|
|
508
|
+
|
|
509
|
+
def get_axis_limits(self, axis):
|
|
510
|
+
"""get min/max position limits for a given axes (software limits)
|
|
511
|
+
|
|
512
|
+
Parameters
|
|
513
|
+
----------
|
|
514
|
+
axis : int
|
|
515
|
+
0 - x, 1 - y, 2 - z, 3 - a
|
|
516
|
+
|
|
517
|
+
Returns
|
|
518
|
+
-------
|
|
519
|
+
range : list
|
|
520
|
+
min [0] and max [1] limits for `axis`
|
|
521
|
+
"""
|
|
522
|
+
GetLimit(self.lsid, self._c_limits['axis'][axis],
|
|
523
|
+
*self._c_limits['ref'][axis])
|
|
524
|
+
return [p.value for p in self._c_limits['ref'][axis]]
|
|
525
|
+
|
|
526
|
+
def set_axis_limits(self, axis, min_value, max_value):
|
|
527
|
+
"""set min/max position limits for a given axis (software limits)
|
|
528
|
+
|
|
529
|
+
Parameters
|
|
530
|
+
----------
|
|
531
|
+
axis : int
|
|
532
|
+
0 - x, 1 - y, 2 - z, 3 - a
|
|
533
|
+
min_value : float
|
|
534
|
+
lower limit for `axis`
|
|
535
|
+
max_value : float
|
|
536
|
+
upper limit for `axis`
|
|
537
|
+
"""
|
|
538
|
+
self._c_limits['ref'][axis][0].value = min_value
|
|
539
|
+
self._c_limits['ref'][axis][1].value = max_value
|
|
540
|
+
SetLimit(self.lsid, self._c_limits['axis'][axis],
|
|
541
|
+
*self._c_limits['ref'][axis])
|
|
542
|
+
|
|
543
|
+
def get_software_limit_state(self, axis):
|
|
544
|
+
"""check if software limits are enabled or disabled for a given axis
|
|
545
|
+
|
|
546
|
+
Parameters
|
|
547
|
+
----------
|
|
548
|
+
axis : int
|
|
549
|
+
0 - x, 1 - y, 2 - z, 3 - a
|
|
550
|
+
|
|
551
|
+
Returns
|
|
552
|
+
-------
|
|
553
|
+
bool : enabled (True), or disabled (False)
|
|
554
|
+
"""
|
|
555
|
+
GetLimitControl(self.lsid, self._c_limits['axis'][axis],
|
|
556
|
+
self._c_limits['active_ref'][axis])
|
|
557
|
+
return self._c_limits['active_ref'][axis].value
|
|
558
|
+
|
|
559
|
+
def set_software_limit_state(self, axis, state):
|
|
560
|
+
"""activate/inactivate software limits for a given axis
|
|
561
|
+
|
|
562
|
+
Parameters
|
|
563
|
+
----------
|
|
564
|
+
axis : int
|
|
565
|
+
0 - x, 1 - y, 2 - z, 3 - a
|
|
566
|
+
state : bool
|
|
567
|
+
enable (True), disable (False)
|
|
568
|
+
"""
|
|
569
|
+
self._c_limits['active_ref'][axis].value = state
|
|
570
|
+
SetLimitControl(self.lsid, self._c_limits['axis'][axis],
|
|
571
|
+
self._c_limits['active'][axis])
|
|
572
|
+
|
|
573
|
+
|
|
574
|
+
class MarzhauserTangoXY(MarzhauserTango):
|
|
575
|
+
"""
|
|
576
|
+
Marzhauser tango stage set up only for lateral (x, y) positioning
|
|
577
|
+
"""
|
|
578
|
+
pass
|
|
579
|
+
|
|
580
|
+
|
|
581
|
+
if __name__=='__main__':
|
|
582
|
+
stage = MarzhauserTangoXY()
|
|
583
|
+
stage.close()
|