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java.lang.Object ij3d.ext.Imod
public class Imod
Interface pour imod
Constructor Summary | |
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Imod()
Constructor for the Imod object |
Method Summary | |
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void |
Align()
Description of the Method |
void |
Align2()
Description of the Method |
void |
Align2(java.lang.String tmp)
Description of the Method |
void |
CopyTomocoms()
Description of the Method |
void |
CreateXf(double[] angles,
double[] shiftX,
double[] shiftY,
java.lang.String name)
Constructor for the CreateXf object |
void |
CreateXf(double angle,
double[][] shift,
int nbima,
java.lang.String name)
Create a Xf file for a given angle of rotation and shifts |
void |
CreateXf(double angle,
int nbima,
java.lang.String name)
Description of the Method |
void |
EcritFichierAngles(int nbimage)
Description of the Method |
void |
EcritFichierAngles(int nbimage,
java.lang.String tmp)
Création du fichier d'angles |
void |
EcritFichierParams()
Description of the Method |
void |
EcritFichierParams(java.lang.String Tmp)
Création du fichier de param�res pour copytomocoms |
void |
EcritFichierXTilt(int nbimage,
double xtilt,
java.lang.String tmp)
Création du fichier d'angles |
void |
Eraser2()
Description of the Method |
double[][] |
ExtractShiftsFromXG(java.lang.String tmp,
java.lang.String serie,
int nbima)
Description of the Method |
void |
GetAngleFromAlign(int nbimage)
Description of the Method |
void |
GetAngleFromAlign(int nbimage,
java.lang.String tmp)
Lit le fichier align.log pour extraire l'axe de tilt calcul� * |
ImodConf |
getConf()
Gets the conf attribute of the Imod object |
java.lang.String |
getRepertoireTmp()
Gets the repertoireTmp attribute of the Imod object |
void |
Newst2()
Description of the Method |
void |
Newst2(java.lang.String tmp)
Création d'un fichier newst2.com (correction du bug ,10) |
void |
Prenewst()
Description of the Method |
void |
Raw2MRC(java.lang.String nomRaw,
java.lang.String nomMRC,
int largeur,
int hauteur,
int nbimage,
java.lang.String stype)
Description of the Method |
void |
RecShift()
Description of the Method |
void |
Sample()
Description of the Method |
void |
setConf(ImodConf c)
Sets the conf attribute of the Imod object |
void |
setRepertoireScripts(java.lang.String rep)
Sets the repertoireScripts attribute of the ImodConf object |
void |
setRepertoireTmp(java.lang.String rep)
Sets the repertoireTmp attribute of the ImodConf object |
boolean |
TestFichierAngles(int nbimage)
Description of the Method |
boolean |
TestFichierAngles(int nbimage,
java.lang.String tmp)
Description of the Method |
void |
Tilt2()
Description of the Method |
void |
Tilt2(java.lang.String tmp)
Création d'un fichier tilt2.com (mode parallel et type 2) |
void |
TiltShift()
Description of the Method |
void |
TiltShift(java.lang.String tmp)
Création du fichier tilt pour le calcul du shift |
void |
Tomopitch()
Description of the Method |
void |
TomopitchInfo()
Description of the Method |
void |
TomopitchInfo(java.lang.String tmp)
Description of the Method |
void |
Track()
Description of the Method |
void |
Track2(java.lang.String tmp)
Creation d'un fichier track2.com (correction du bug pour les version 3) |
void |
visu(java.lang.String nom)
Description of the Method |
void |
visu(java.lang.String nom,
java.lang.String model)
Description of the Method |
void |
visu(java.lang.String a,
java.lang.String b,
java.lang.String c,
java.lang.String d)
Description of the Method |
void |
Xcorr()
Description of the Method |
Methods inherited from class java.lang.Object |
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clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait |
Constructor Detail |
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public Imod()
Method Detail |
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public void setConf(ImodConf c)
c
- The new conf valuepublic void setRepertoireTmp(java.lang.String rep)
rep
- The new repertoireTmp valuepublic java.lang.String getRepertoireTmp()
public ImodConf getConf()
public void setRepertoireScripts(java.lang.String rep)
rep
- The new repertoireScripts valuepublic void EcritFichierParams(java.lang.String Tmp)
Tmp
- Description of the Parameterpublic void EcritFichierParams()
public void EcritFichierAngles(int nbimage)
nbimage
- Description of the Parameterpublic void EcritFichierAngles(int nbimage, java.lang.String tmp)
nbimage
- Description of the Parametertmp
- Description of the Parameterpublic void EcritFichierXTilt(int nbimage, double xtilt, java.lang.String tmp)
nbimage
- Description of the Parametertmp
- Description of the Parameterxtilt
- Description of the Parameterpublic boolean TestFichierAngles(int nbimage)
nbimage
- Description of the Parameter
public boolean TestFichierAngles(int nbimage, java.lang.String tmp)
nbimage
- Description of the Parametertmp
- Description of the Parameter
public void GetAngleFromAlign(int nbimage, java.lang.String tmp)
nbimage
- Description of the Parametertmp
- Description of the Parameterpublic void GetAngleFromAlign(int nbimage)
nbimage
- Description of the Parameterpublic void Tomopitch()
public void TomopitchInfo()
public void TomopitchInfo(java.lang.String tmp)
tmp
- Description of the Parameterpublic void Newst2()
public void Newst2(java.lang.String tmp)
tmp
- Description of the Parameterpublic void Track2(java.lang.String tmp)
tmp
- Description of the Parameterpublic void Tilt2()
public void Tilt2(java.lang.String tmp)
tmp
- Description of the Parameterpublic void Align2()
public void Align2(java.lang.String tmp)
tmp
- Description of the Parameterpublic void Sample()
public void RecShift()
public void TiltShift()
public void TiltShift(java.lang.String tmp)
tmp
- Description of the Parameterpublic void CreateXf(double[] angles, double[] shiftX, double[] shiftY, java.lang.String name)
angles
- Description of the Parametername
- Description of the ParametershiftX
- Description of the ParametershiftY
- Description of the Parameterpublic void CreateXf(double angle, double[][] shift, int nbima, java.lang.String name)
name
- filenameangle
- angle of rotationnbima
- number of imageshift
- Description of the Parameterpublic void CreateXf(double angle, int nbima, java.lang.String name)
angle
- Description of the Parameternbima
- Description of the Parametername
- Description of the Parameterpublic double[][] ExtractShiftsFromXG(java.lang.String tmp, java.lang.String serie, int nbima)
tmp
- Description of the Parameterserie
- Description of the Parameternbima
- Description of the Parameter
public void Eraser2()
public void Raw2MRC(java.lang.String nomRaw, java.lang.String nomMRC, int largeur, int hauteur, int nbimage, java.lang.String stype)
nomRaw
- Description of the ParameternomMRC
- Description of the Parameterlargeur
- Description of the Parameterhauteur
- Description of the Parameternbimage
- Description of the Parameterstype
- Description of the Parameterpublic void CopyTomocoms()
public void Xcorr()
public void Prenewst()
public void Track()
public void Align()
public void visu(java.lang.String nom, java.lang.String model)
nom
- Description of the Parametermodel
- Description of the Parameterpublic void visu(java.lang.String a, java.lang.String b, java.lang.String c, java.lang.String d)
a
- Description of the Parameterb
- Description of the Parameterc
- Description of the Parameterd
- Description of the Parameterpublic void visu(java.lang.String nom)
nom
- Description of the Parameter
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