「ctfInfo(API)」の版間の差分
提供: Eospedia
(ページの作成:「DataManip/'''ctfInfo'''はCTF補正のためのAPI です。 == 定数 == == 構造体 == == API ==」) |
|||
行2: | 行2: | ||
== 定数 == | == 定数 == | ||
+ | #define ctfInfoModeWithAmplitudeContrast 0x0f | ||
+ | #define ctfInfoModeWithMTF 0x10 | ||
+ | #define ctfInfoModeWithIlluminationAngle 0x20 | ||
+ | #define ctfInfoModeWithEnergySpread 0x40 | ||
+ | #define ctfInfoModeAbsoluteValue 0x100 | ||
+ | |||
+ | typedef enum ctfInfoMode { | ||
+ | ctfInfoModePhaseCTFOnly = 0, | ||
+ | ctfInfoModePhaseAndAmpCTF = 1 | ||
+ | } ctfInfoMode; | ||
+ | |||
+ | typedef enum ctfInfoMTFMode { | ||
+ | ctfInfoMTFModeSingleExp = 0, | ||
+ | ctfInfoMTFModeSingleLorentzian = 1, | ||
+ | ctfInfoMTFModeBoth = 2, | ||
+ | ctfInfoMTFModeLinear = 3, | ||
+ | ctfInfoMTFModeBothSum = 4, | ||
+ | ctfInfoMTFModePolynomial = 5 | ||
+ | } ctfInfoMTFMode; | ||
== 構造体 == | == 構造体 == | ||
+ | typedef struct moleculrEnvelope { | ||
+ | char* filename; | ||
+ | int nR; | ||
+ | float* R; | ||
+ | float* Envelope; | ||
+ | int mode; | ||
+ | } molecularEnvelope; | ||
+ | |||
+ | typedef struct ctfInfo { | ||
+ | float kV; /* kV */ | ||
+ | float defocus; /* A : Underfocus is plus, while overfocus is minus*/ | ||
+ | float Cc; /* mm */ | ||
+ | float dE; | ||
+ | float Cs; /* mm */ | ||
+ | float Ain; /* mrad : Illumination Angle */ | ||
+ | long flagWin; /* Windowing */ | ||
+ | float CutLow; /* Windowing: CutLow A-1 */ | ||
+ | float CutHigh; /* Windowing: CutHigh A-1 */ | ||
+ | |||
+ | float I0; /* Intensity */ | ||
+ | float Isignal; /* Intensity of signal */ | ||
+ | |||
+ | float ratioOfAmpToPhase; /* The ratio of amp to phase */ | ||
+ | |||
+ | float Inoise; /* Intensity of noise : Isignal*/ | ||
+ | long flagWhiteNoise; | ||
+ | float WhiteNoise; /* Affected by MTF(R) */ | ||
+ | |||
+ | long flagWhiteNoiseRaising; | ||
+ | float WhiteNoiseRaising; /* WhiteNoise Raising depending upon R */ | ||
+ | |||
+ | float Inoise2; /* Intensity of noise */ | ||
+ | long flagWhiteNoise2; | ||
+ | float WhiteNoise2; /* Not Affected by MTF(R)*/ | ||
+ | |||
+ | int flagAstigmatism; | ||
+ | float defocus2D[2]; /* A : Normally [0]: Max [1]: Min */ | ||
+ | float defocus0axis; /* radian : angle of the defocus2D[0]-axis */ | ||
+ | |||
+ | long mode; | ||
+ | |||
+ | long flagMagnification; | ||
+ | float Magnification; | ||
+ | |||
+ | /* MTF(R): Modulation Transfer Function */ | ||
+ | ctfInfoMTFMode MTFMode; | ||
+ | float BofMTF; /* Exponential: exp(-B R) */ | ||
+ | float BofMTF2; /* Lorentzian : 1/(B*B+R*R) */ | ||
+ | float WeightOfSecondTermForMTF; /* 0 <-> 1 */ | ||
+ | /*for PolynomialExpNoise*//*d = degree*/ | ||
+ | float BofMTFd2; | ||
+ | float BofMTFd3; | ||
+ | float BofMTFd4; | ||
+ | float BofMTFd5; | ||
+ | float BofMTFd6; | ||
+ | |||
+ | /* Molecular Envelope: Scattering Factor */ | ||
+ | /* For Gaussian */ | ||
+ | float MolecEnv; /* A : */ | ||
+ | /* For Table */ | ||
+ | long flagMolecEnvTable; | ||
+ | molecularEnvelope MolecEnvTable; | ||
+ | /* For Lorentzian */ | ||
+ | float flagElastic; | ||
+ | float Elastic; | ||
+ | float ElasticShift; | ||
+ | float ElasticWidth; | ||
+ | float ElasticRing; | ||
+ | float ElasticRingPosition; | ||
+ | float ElasticRingWidth; | ||
+ | |||
+ | /* Stage Vibration */ | ||
+ | long flagVibration; | ||
+ | long VibrationMode; | ||
+ | float BofVibration; | ||
+ | |||
+ | /* Aliasing and Sampling */ | ||
+ | long flagAliasing; | ||
+ | float NyquistFrequency; | ||
+ | long flagSampling; | ||
+ | |||
+ | /* Inelastic Signal */ | ||
+ | /* For Gaussian */ | ||
+ | long flagWithInElastic; | ||
+ | float InElasticGaussian; | ||
+ | /* For Table */ | ||
+ | long flagWithInElasticTable; | ||
+ | molecularEnvelope InElasticEnvTable; | ||
+ | /* Lorentzian */ | ||
+ | long flagInElastic; | ||
+ | float InElastic; | ||
+ | float InElasticShift; | ||
+ | float InElasticWidth; | ||
+ | float InElasticRing; | ||
+ | float InElasticRingPosition; | ||
+ | float InElasticRingWidth; | ||
+ | } ctfInfo; | ||
== API == | == API == | ||
+ | extern void ctfInfoSendByPVM(ctfInfo* info, int tid, long mode); | ||
+ | extern void ctfInfoRecieveByPVM(ctfInfo* info, int tid, long mode); | ||
+ | extern float ctfSignalFunction(ctfInfo* info, float R, long mode); | ||
+ | extern float ctfNoiseFunction(ctfInfo* info, float R, long mode); | ||
+ | extern float ctfNoise2Function(ctfInfo* info, float R, long mode); | ||
+ | extern float ctfSignalPowerFunction(ctfInfo* info, float R, long mode); | ||
+ | extern float ctfNoisePowerFunction(ctfInfo* info, float R, long mode); | ||
+ | extern float ctfNoise2PowerFunction(ctfInfo* info, float R, long mode); | ||
+ | extern float ctfScatteringFunction(ctfInfo* info, float R, long mode); | ||
+ | extern float ctfMolecularEnvelopeFunction(ctfInfo* info, float R, long mode); | ||
+ | extern float ctfMolecularEnvelopeInElasticFunction(ctfInfo* info, float R, long mode); | ||
+ | extern float ctfVibrationFunction(ctfInfo* info, float R, long mode); | ||
+ | extern float ctfFunction(ctfInfo* info, float R, long mode); | ||
+ | extern float ctfFunctionSampling(float R, float Nyquist, long mode); | ||
+ | extern void ctfFunctionPVMStart(ctfInfo* info, float R, int tid, long mode); | ||
+ | extern float ctfFunctionPVMEnd(ctfInfo* info, float R, int tid, long mode); | ||
+ | extern void ctfFunctionPVMServer(); | ||
+ | extern float ctfEnvelopFunction(ctfInfo* info, float R, long mode); | ||
+ | extern float ctfMTFFunction(ctfInfo* info, float R, long mode); | ||
+ | extern float ctfFunction2D(ctfInfo* info, float X, float Y, long mode); | ||
+ | extern float wavelengthOfElectron(float E); | ||
+ | extern float defocusDeterminationFromThonRing(ctfInfo* info, float R, long n, long mode); | ||
+ | extern void ctfWeightForCorrectionUsage(FILE* fpt); | ||
+ | extern float ctfWeightForCorrection2D(ctfInfo* info, float X, float Y, long mode); | ||
+ | extern float ctfWeightForCorrection(ctfInfo* info, float R, long mode); | ||
+ | extern void lmolecularEnvelopeFileRead(FILE* fpt, molecularEnvelope* mol, int mode); | ||
+ | extern void lmolecularEnvelopeFileWrite(FILE* fpt, molecularEnvelope* mol, int mode); | ||
+ | extern void lmolecularEnvelopeResampling(molecularEnvelope* dst, molecularEnvelope* src, float dR, float RMax, int mode); | ||
+ | extern float lmolecularEnvelopeDataGet(molecularEnvelope* src, float R, int mode); | ||
+ | extern void ctfInfoRead(FILE* fpt, ctfInfo* ctf, char* pre, int mode); | ||
+ | extern void ctfInfoWrite(FILE* fpt, ctfInfo ctf, char* pre, int mode); |
2014年5月13日 (火) 02:31時点における版
DataManip/ctfInfoはCTF補正のためのAPI です。
定数
#define ctfInfoModeWithAmplitudeContrast 0x0f #define ctfInfoModeWithMTF 0x10 #define ctfInfoModeWithIlluminationAngle 0x20 #define ctfInfoModeWithEnergySpread 0x40 #define ctfInfoModeAbsoluteValue 0x100
typedef enum ctfInfoMode { ctfInfoModePhaseCTFOnly = 0, ctfInfoModePhaseAndAmpCTF = 1 } ctfInfoMode;
typedef enum ctfInfoMTFMode { ctfInfoMTFModeSingleExp = 0, ctfInfoMTFModeSingleLorentzian = 1, ctfInfoMTFModeBoth = 2, ctfInfoMTFModeLinear = 3, ctfInfoMTFModeBothSum = 4, ctfInfoMTFModePolynomial = 5 } ctfInfoMTFMode;
構造体
typedef struct moleculrEnvelope { char* filename; int nR; float* R; float* Envelope; int mode; } molecularEnvelope;
typedef struct ctfInfo { float kV; /* kV */ float defocus; /* A : Underfocus is plus, while overfocus is minus*/ float Cc; /* mm */ float dE; float Cs; /* mm */ float Ain; /* mrad : Illumination Angle */ long flagWin; /* Windowing */ float CutLow; /* Windowing: CutLow A-1 */ float CutHigh; /* Windowing: CutHigh A-1 */ float I0; /* Intensity */ float Isignal; /* Intensity of signal */ float ratioOfAmpToPhase; /* The ratio of amp to phase */ float Inoise; /* Intensity of noise : Isignal*/ long flagWhiteNoise; float WhiteNoise; /* Affected by MTF(R) */ long flagWhiteNoiseRaising; float WhiteNoiseRaising; /* WhiteNoise Raising depending upon R */ float Inoise2; /* Intensity of noise */ long flagWhiteNoise2; float WhiteNoise2; /* Not Affected by MTF(R)*/ int flagAstigmatism; float defocus2D[2]; /* A : Normally [0]: Max [1]: Min */ float defocus0axis; /* radian : angle of the defocus2D[0]-axis */ long mode; long flagMagnification; float Magnification; /* MTF(R): Modulation Transfer Function */ ctfInfoMTFMode MTFMode; float BofMTF; /* Exponential: exp(-B R) */ float BofMTF2; /* Lorentzian : 1/(B*B+R*R) */ float WeightOfSecondTermForMTF; /* 0 <-> 1 */ /*for PolynomialExpNoise*//*d = degree*/ float BofMTFd2; float BofMTFd3; float BofMTFd4; float BofMTFd5; float BofMTFd6; /* Molecular Envelope: Scattering Factor */ /* For Gaussian */ float MolecEnv; /* A : */ /* For Table */ long flagMolecEnvTable; molecularEnvelope MolecEnvTable; /* For Lorentzian */ float flagElastic; float Elastic; float ElasticShift; float ElasticWidth; float ElasticRing; float ElasticRingPosition; float ElasticRingWidth; /* Stage Vibration */ long flagVibration; long VibrationMode; float BofVibration; /* Aliasing and Sampling */ long flagAliasing; float NyquistFrequency; long flagSampling; /* Inelastic Signal */ /* For Gaussian */ long flagWithInElastic; float InElasticGaussian; /* For Table */ long flagWithInElasticTable; molecularEnvelope InElasticEnvTable; /* Lorentzian */ long flagInElastic; float InElastic; float InElasticShift; float InElasticWidth; float InElasticRing; float InElasticRingPosition; float InElasticRingWidth; } ctfInfo;
API
extern void ctfInfoSendByPVM(ctfInfo* info, int tid, long mode); extern void ctfInfoRecieveByPVM(ctfInfo* info, int tid, long mode); extern float ctfSignalFunction(ctfInfo* info, float R, long mode); extern float ctfNoiseFunction(ctfInfo* info, float R, long mode); extern float ctfNoise2Function(ctfInfo* info, float R, long mode); extern float ctfSignalPowerFunction(ctfInfo* info, float R, long mode); extern float ctfNoisePowerFunction(ctfInfo* info, float R, long mode); extern float ctfNoise2PowerFunction(ctfInfo* info, float R, long mode); extern float ctfScatteringFunction(ctfInfo* info, float R, long mode); extern float ctfMolecularEnvelopeFunction(ctfInfo* info, float R, long mode); extern float ctfMolecularEnvelopeInElasticFunction(ctfInfo* info, float R, long mode); extern float ctfVibrationFunction(ctfInfo* info, float R, long mode); extern float ctfFunction(ctfInfo* info, float R, long mode); extern float ctfFunctionSampling(float R, float Nyquist, long mode); extern void ctfFunctionPVMStart(ctfInfo* info, float R, int tid, long mode); extern float ctfFunctionPVMEnd(ctfInfo* info, float R, int tid, long mode); extern void ctfFunctionPVMServer(); extern float ctfEnvelopFunction(ctfInfo* info, float R, long mode); extern float ctfMTFFunction(ctfInfo* info, float R, long mode); extern float ctfFunction2D(ctfInfo* info, float X, float Y, long mode); extern float wavelengthOfElectron(float E); extern float defocusDeterminationFromThonRing(ctfInfo* info, float R, long n, long mode); extern void ctfWeightForCorrectionUsage(FILE* fpt); extern float ctfWeightForCorrection2D(ctfInfo* info, float X, float Y, long mode); extern float ctfWeightForCorrection(ctfInfo* info, float R, long mode); extern void lmolecularEnvelopeFileRead(FILE* fpt, molecularEnvelope* mol, int mode); extern void lmolecularEnvelopeFileWrite(FILE* fpt, molecularEnvelope* mol, int mode); extern void lmolecularEnvelopeResampling(molecularEnvelope* dst, molecularEnvelope* src, float dR, float RMax, int mode); extern float lmolecularEnvelopeDataGet(molecularEnvelope* src, float R, int mode); extern void ctfInfoRead(FILE* fpt, ctfInfo* ctf, char* pre, int mode); extern void ctfInfoWrite(FILE* fpt, ctfInfo ctf, char* pre, int mode);