SerialEMProperties GainReferencePath C:\ProgramData\SerialEM\ MRCHeaderTitle Acquired on UMass Talos Camera -> 0:Ceta 1:K3 LogBookPathName C:\ProgramData\SerialEM\TiltSeriesLogBook.txt DigitalMicrographReferencePath C:\ProgramData\Gatan\Reference Images StartUpMessage Talos Admin - IS! ProgramTitleText [ Talos Arctica - 9925270 ] DisplayIsNot120DPI 1 ## https://www.sven.de/dpi/ -> 31.5 inch @ 2560x1600 ## full 3840x2160 @ 31.5 inch -> 139.89 DPI #AssumeDPI 144 #161 # for 2560x1440 @100% #AssumeDPI 144 DebugOutput E ## Python Support (Apr 30, 2021) PythonModulePath C:\Program Files\SerialEM\PythonModules #PathToPython 3.9 C:\Users\VALUEDGATANCUSTOMER\AppData\Local\Programs\Python\Python39 PathToPython 3.9 C:\Users\VALUEDGATANCUSTOMER\miniconda3\ EnableExternalPython 1 ScriptMonospaceFont Consolas PluginPath2 C:\Users\mast\Documents\Scope\WorkingPlugins\FEI #NoScope 1 #NoCameras 1 # # GENERAL CAMERA PROPERTIES # ActiveCameraList 1 #OtherCamerasInTIA 1 InitialCurrentCamera 1 AssumeCameraForDummy 1 GainNormalizeInSerialEM 0 ReferenceMemoryLimitMB 160 DarkRefAgeLimit 3600 GainRefInactivityLimit 180 DefaultCameraDivide16BitBy2 0 DefaultActAfterExposures 0 StartCameraInDebugMode 0 InnerXRayBorderDistance 1.2 OuterXRayBorderDistance 2.1 XRayCriterionIterations 4 XRayCriterionIncrease 1.0 BiggestGIFApertureNumber 4 FilterSlitInOutDelay 18 FilterOffsetDelayCriterion 40. FilterOffsetDelayBase1 10. FilterOffsetDelayBase2 30. FilterOffsetDelaySlope1 0.5 FilterOffsetDelaySlope2 0.25 RetractCameraOnEnteringEFTEM 0 MinLowMagSlitWidth 25 SlitWideningSafetyFactor 0.75 EnergyShiftCalMinField 8. RefineZLPStepSize 2. RefineZLPSlitWidth 20. RefineZLPMinimumExposure 0.005 CameraProperties 1 Name Ceta 2 DetectorName 0 Ceta 16M speed EnergyFilter FeiCameraType 3 CameraSizeX 4096 CameraSizeY 4096 CanTakeFrames 3 # FOR CETA 2 FalconLocalFramePath M:\TemScripting\BM-Ceta #FourPortReadout 1 #BinningOffset 4 1 0 -1 #BinningOffset 4 2 0 -1 #UsableArea 128 256 640 768 #AmtCameraType 1 MakesUnsignedImages 1 XMustBeMultipleOf 4 YMustBeMultipleOf 4 CoordsMustBeMultiple 0 #RestrictedSizeType 1 #MinimumExposure 0.011 NormalizeInSerialEM 1 BasicCorrections 0 Binnings 1 2 4 8 #AutoGainFactors 1 ExtraGainReferences 2 RelativeGainFactors 1. .25 0.0625 .0125 #Binnings 1 2 BadColumns 512 513 PartialBadColumn 519 1 500 540 BeamBlankShutter 1 #CanDriveDMBeamShutter 1 CanUseDMOpenShutter 0 #CanDriveDMDriftSettling 1 BuiltInSettling 0.3 StartupDelay 0.18 Retractable 1 InsertingRetractsCam 3 InsertionDelay 1 RetractionDelay 1 GIF 0 Order 0 FilmToCameraMagnification 1.28 PixelSizeInMicrons 30 CountsPerElectron 3.3 ExtraRotation 0. EndCameraProperties # THIS NEEDS TO HAVE GIF MAGS ADDED # Mag table: Index TecnaiFilmMag TecnaiRotation - both reported by scope (Add screen mag by hand) # If there is a GIF, add EFTEM screen up mag, reported rotation, screen down mag MagnificationTable 44 1 25 -90 2 34 -90 3 46 -90 4 62 -90 5 84 -90 6 115 -90 7 155 -90 8 210 -90 9 280 -90 10 380 -90 11 510 -90 12 700 -90 13 940 -90 14 1300 -90 15 1700 -90 16 2300 -90 17 1250 90 18 1600 90 19 2000 90 20 2600 90 21 3400 90 22 4300 90 23 5300 90 24 6700 90 25 8500 90 26 11000 90 27 13500 90 28 17500 90 29 22000 90 30 28000 90 31 36000 90 32 45000 90 33 57000 90 34 73000 90 35 92000 90 36 120000 90 37 150000 90 38 190000 90 39 240000 90 40 310000 90 41 390000 90 42 400000 90 43 510000 90 44 650000 90 ## add CameraLength Table CameraLengthTable 49 1 23 2 31 3 44 4 57 5 76 6 97 7 125 8 160 9 200 10 260 11 330 12 420 13 530 9000 14 670 15 850 16 1050 17 1350 18 1750 19 2200 20 2800 21 3600 22 4500 23 5700 24 7200 25 9200 32 5900 33 7400 34 9500 35 12000 36 15500 37 19500 38 24500 39 31000 40 40000 41 50000 42 63000 43 81000 44 100000 45 130000 46 165000 47 210000 48 270000 49 340000 50 430000 51 550000 52 700000 53 880000 54 1100000 55 1400000 NumberOfCameraLengths 25 24 # # SCOPE PROPERTIES # LowestMModeMagIndex 17 GlobalExtraRotation -5 # INITIALLY SET TO -12 FOR 300 KV, -5 FOR 200 MicronsPerUnitImageShift 1. DeltaZtoDefocusFactor 1.0 ScreenCurrentFactor 1.0 SmallScreenFactor 1.0 LensNormalizationDelay 2000 # # For Titan or Tecnai 4.0 this needs to be the name of the gauge in TUI, # IGPCl for Titan or IGP1 for Tecnai or IGPco for Talos WatchGauge IGPco 1.48e-5 4.25e-5 FloatingCurrentMeterSmoothed 0 MaxCalibrationImageShift 5. MaxLMCalibrationImageShift 15. StageLimits 0. 0. 0. 0. # SET LIMITS IF NEEDED FOR Setup Full Montage ImageShiftDelays 7 0.1 0. 0.3 0.4 0.8 0.9 1.6 1.7 3. 3. 3.5 3.5 4. 3.7 # # Image Shift Limits # ImageShiftLimit 25 LowMagShiftLimit 250 #500 #250 NavigatorMaxLMMontageIS 250 #500 NavigatorMaxMontageIS 25 # testing on Talos for 46x - to allow Realign in LM range RealignItemMaxLMField 30 #700 #360 #46x # # FILE OPTIONS # FileOptionsMode 1 FileOptionsExtraFlags 17 FileOptionsMaxSections 360 FileOptionsPixelsTruncatedLo 40 FileOptionsPixelsTruncatedHi 40 FileOptionsUnsignedOption 0 # # TASK MINUMUM FIELD SIZES AND OTHER PROPERTIES # ResetRealignMinField 8. ReverseTiltMinField 4.5 WalkUpMinField 1.5 EucentricityCoarseMinField 8. EucentricityFineMinField 4.5 EucentricityFineAlignMinField 8. ResetRealignMaxIterations 2 ResetRealignHigherMagCriterion 0.5 WalkUpShiftLimit 3.0 # SET TO 2.0 for 300 KV TECNAI/POLARA WalkUpLowDoseISLimit 2.0 # SET TO 1.3 for 300 KV TECNAI/POLARA EucentricityBacklashZ -3. EucentricityResetISThreshold 0.1 EucentricityMaxFineIS 3. # SET TO 2.0 for 300 KV TECNAI/POLARA TiltBacklash 3. CheckAutofocusChange 5. TSDefaultStartAngle 60. TSMaxTiltError 0.1 # # INTENSITY CALIBRATION # BeamCalMinField 8. BeamCalExtraRangeNeeded 10. BeamCalChangeDelay 1000 BeamCalMinExposure 0.1 BeamCalMaxExposure 3. BeamCalMinCounts 100 BeamCalMaxCounts 8000 BeamCalInitialIncrement 0.0001 BeamCalSpacingFactor 1.1 ################## added by Chen # USE THESE FOR CALIBRATING ON CETA #BeamCalMaxExposure 3. #BeamCalMinCounts 3000 #BeamCalFavorMagChanges 1 # USE THESE FOR CALIBRATING ON K2 #BeamCalMaxExposure 0.4 #BeamCalMinCounts 10000 # email alert setup SMTPServer smtp.gmail.com SendMailFrom Talos-K2@cryoem.umassmed.edu ## try out to press COM error - actually the hiccups to acquire #CameraRetries 3 MakeFEIerrorBeTimeout 1 # added for 16bit map display by Chen & KH @12/03/2018 ConvertMapsToBytesDefault 0 ## speed up MMM, within the limit, no stage move, which could save a second or two. Chen@march_24_2019 #NavigatorMaxMontageIS 50 RealignItemMaxIS 2 ## for background tilting BackgroundSocketToFEI 1 ## debug for Eagle and Ceta (FEI camera) #DebugOutput E ## add some tools ExternalTool Open Mdoc File ToolCommand 1 notepad ToolArguments 1 %imagefile%.mdoc ExternalTool Open Nav File ToolCommand 2 notepad ToolArguments 2 %navfile% ExternalTool 3dmod Image File ToolCommand 3 C:\Program Files\3dmod\3dmod ToolArguments 3 %imagefile% ExternalTool VIM Nav File ToolCommand 4 C:\Program Files (x86)\Vim\vim82\gvim ToolArguments 4 %navfile% ## for Z by G non-reciprocity ZbyGFocusScalings 0 0.91 -50 0.932 -100 0.942 -150 0.932 -200 0.957 -250 0.943 -300 0.915 ## added April 2, 2022 DewarVacCapabilities 3 ## debug IS non-consistant issue for low and high mag OtherShiftBoundaries 18,19,20,23 ## Chen added 10/20/22 NormCondenserInLowDose 2 CtfplotterPath C:\Program Files\3dmod