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Usage: mrcImageAutoRotationCorrelation
Options:
- [-i[nput] In (NULL )] :Essential :Input: testImage [mrcImage]
- [-r[eference] Ref (NULL )] :Essential :Input: refImage [mrcImage]
- [-nRot1 nRot1 (1 )] :Optional :Rotation number of Ref for Rot1: Def 1
- [-nRot2 nRot2 (1 )] :Optional :Rotation number of Ref for Rot2: Def 1
- [-nRot3 nRot3 (1 )] :Optional :Rotation number of Ref for Rot3: Def 1
- [-dRot1 dRot1 (1.0 )] :Optional :Delta Angle [Degree] of Ref for Rot1; Def.: 360/nRot1
- [-dRot2 dRot2 (1.0 )] :Optional :Delta Angle [Degree] of Ref for Rot2; Def.: 360/nRot2
- [-dRot3 dRot3 (1.0 )] :Optional :Delta Angle [Degree] of Ref for Rot3; Def.: 360/nRot3
- [-startRot1 startRot1 (0.0 )] :Optional :Start Angle [Degree] of Ref for Rot1; Def.: 0
- [-startRot2 startRot2 (0.0 )] :Optional :Start Angle [Degree] of Ref for Rot2; Def.: 0
- [-startRot3 startRot3 (0.0 )] :Optional :Start Angle [Degree] of Ref for Rot3; Def.: 0
- [-StackOrder StackOrder (0 )] :Optional :Stack Order for Stacked 2D of references, refer to attention
- [-o[utput] Out (NULL )] :Optional :Output: Parameter [mrcImage-format]
- [-O[utput] OutASC (stdout )] :Optional :Output: Parameter [ASCII]
- [-cor[relation] corFile (NULL )] :Optional :Correation Map at Maximum (Linear) [mrcImage-format]
- [-cor[relation]2 corFile2 (NULL )] :Optional :Correation Map2 at Maximum (Set Mode Correlation)[mrcImage-format]
- [-cor[relation]All corAllFile (NULL )] :Optional :Correation Map with All Rotation [mrcImage-format]
- [-fit[tedToRef] fitFile (NULL )] :Optional :Output: rotatedImage at Maximum(Linear Correlation) [mrcImage]
- [-fit[tedToRef]2 fitFile2 (NULL )] :Optional :Output: rotatedImage at Maximum(Set Correlation mode) [mrcImage]
- [-RefineMode RefineMode (0 )] :Optional :RefinementStep: Linear:0 or SetMode:1
- [-n[umber] Rot (36 )] :Optional :Input: Rotation around the vertical axis against image plane: dRot = 360/n [degree]
- [-range minAngle (-5.0 )maxAngle (5.0 )] :Optional :Input: SearchRange: Rotation around the vertical axis against image plane
- [-refStep1 refStep1 (1 )] :Optional :SearchStep for Ref: Each Image along Rot1
- [-refStep2 refStep2 (1 )] :Optional :SearchStep for Ref: Each Image along Rot2
- [-refStep3 refStep3 (1 )] :Optional :SearchStep for Ref: Each Image along Rot3
- [-nRot1Area nRot1AreaMin (-360 )nRot1AreaMax (360 )nRot1AreaStep (25 )] :Optional :number of Ref for Rot1
- [-nRot2Area nRot2AreaMin (-360 )nRot2AreaMax (360 )nRot2AreaStep (25 )] :Optional :number of Ref for Rot2
- [-nRot3Area nRot3AreaMin (-360 )nRot3AreaMax (360 )nRot3AreaStep (25 )] :Optional :number of Ref for Rot3
- [-Iter[ation] Iter (1 )] :Optional :Iteration for Rotation around the vertical axis against image plane
- [-Method Method (0 )] :Optional :0: Correlation, 1: SSDA
- [-s[earchRegion] sminx (0 )sminy (0 )smaxx (0/*N.x-1*/)smaxy (0/*N.y-1*/)] :Optional :SearchRegion [pixel]: used in lmrcImageAutoRotationCorrelation
- [-Shift ] :Optional :Image Shift, when in > ref
- [-RepeatX RepeatX (27.3 )] :Optional :RepeatX[A]
- [-RepeatXDelta RepeatXDelta (5 )] :Optional :RepeatXDelta[A]
- [-RepeatY RepeatY (27.3 )] :Optional :RepeatY[A]
- [-RepeatYDelta RepeatYDelta (5 )] :Optional :RepeatYDelta[A]
- [-Xshift ] :Optional :X-Shift Only
- [-NoShift ] :Optional :No-Shift
- [-Log Log (stdout )] :Optional :Output: LogFile
- [-pvm pvm (1 )] :Optional :Task Number
- [-pvmList pvmList (NULL )] :Optional :ConfigurationFile
- [-c[onfig] configFile (NULL )] :Optional :ConfigurationFile
- [-m[ode] mode (0 )] :Optional :Mode
+ [-i[nput] In (NULL ).as(inFile ) ] :Essential :Input: testImage [mrcImage]
+ [-r[eference] Ref (NULL ).as(inFile ) ] :Essential :Input: refImage [mrcImage]
+ [-nRot1 nRot1 (1 ).as(Integer ) ] :Optional :Rotation number of Ref for Rot1: Def 1
+ [-nRot2 nRot2 (1 ).as(Integer ) ] :Optional :Rotation number of Ref for Rot2: Def 1
+ [-nRot3 nRot3 (1 ).as(Integer ) ] :Optional :Rotation number of Ref for Rot3: Def 1
+ [-dRot1 dRot1 (1.0 ).as(Real ) ] :Optional :Delta Angle [Degree] of Ref for Rot1; Def.: 360/nRot1
+ [-dRot2 dRot2 (1.0 ).as(Real ) ] :Optional :Delta Angle [Degree] of Ref for Rot2; Def.: 360/nRot2
+ [-dRot3 dRot3 (1.0 ).as(Real ) ] :Optional :Delta Angle [Degree] of Ref for Rot3; Def.: 360/nRot3
+ [-startRot1 startRot1 (0.0 ).as(Real ) ] :Optional :Start Angle [Degree] of Ref for Rot1; Def.: 0
+ [-startRot2 startRot2 (0.0 ).as(Real ) ] :Optional :Start Angle [Degree] of Ref for Rot2; Def.: 0
+ [-startRot3 startRot3 (0.0 ).as(Real ) ] :Optional :Start Angle [Degree] of Ref for Rot3; Def.: 0
+ [-StackOrder StackOrder (0 ).as(Integer ) ] :Optional :Stack Order for Stacked 2D of references, refer to attention
+ [-o[utput] Out (NULL ).as(outFile ) ] :Optional :Output: Parameter [mrcImage-format]
+ [-O[utput] OutASC (stdout ).as(outFile ) ] :Optional :Output: Parameter [ASCII]
+ [-cor[relation] corFile (NULL ).as(outFile ) ] :Optional :Correation Map at Maximum (Linear) [mrcImage-format]
+ [-cor[relation]2 corFile2 (NULL ).as(outFile ) ] :Optional :Correation Map2 at Maximum (Set Mode Correlation)[mrcImage-format]
+ [-cor[relation]All corAllFile (NULL ).as(outFile ) ] :Optional :Correation Map with All Rotation [mrcImage-format]
+ [-fit[tedToRef] fitFile (NULL ).as(outFile ) ] :Optional :Output: rotatedImage at Maximum(Linear Correlation) [mrcImage]
+ [-fit[tedToRef]2 fitFile2 (NULL ).as(outFile ) ] :Optional :Output: rotatedImage at Maximum(Set Correlation mode) [mrcImage]
+ [-RefineMode RefineMode (0 ).as(Integer ) ] :Optional :RefinementStep: Linear:0 or SetMode:1
+ [-n[umber] Rot (36 ).as(Real ) ] :Optional :Input: Rotation around the vertical axis against image plane: dRot = 360/n [degree]
+ [-range minAngle (-5.0 ).as(Real )
+ maxAngle (5.0 ).as(Real ) ] :Optional :Input: SearchRange: Rotation around the vertical axis against image plane
+ [-refStep1 refStep1 (1 ).as(Integer ) ] :Optional :SearchStep for Ref: Each Image along Rot1
+ [-refStep2 refStep2 (1 ).as(Integer ) ] :Optional :SearchStep for Ref: Each Image along Rot2
+ [-refStep3 refStep3 (1 ).as(Integer ) ] :Optional :SearchStep for Ref: Each Image along Rot3
+ [-nRot1Area nRot1AreaMin (-360 ).as(Real )
+ nRot1AreaMax (360 ).as(Real )
+ nRot1AreaStep (25 ).as(Real ) ] :Optional :number of Ref for Rot1
+ [-nRot2Area nRot2AreaMin (-360 ).as(Real )
+ nRot2AreaMax (360 ).as(Real )
+ nRot2AreaStep (25 ).as(Real ) ] :Optional :number of Ref for Rot2
+ [-nRot3Area nRot3AreaMin (-360 ).as(Real )
+ nRot3AreaMax (360 ).as(Real )
+ nRot3AreaStep (25 ).as(Real ) ] :Optional :number of Ref for Rot3
+ [-MagRange MagRangeMin (1.0 ).as(Real )
+ MagRangeMax (1.0 ).as(Real )
+ MagRangeStep (0.1 ).as(Real ) ] :Optional :Magnification Range
+ [-Iter[ation] Iter (1 ).as(Integer ) ] :Optional :Iteration for Rotation around the vertical axis against image plane
+ [-Method Method (0 ).as(Integer ) ] :Optional :0: Correlation, 1: SSDA
+ [-s[earchRegion] sminx (0 ).as(Real )
+ sminy (0 ).as(Real )
+ smaxx (0/*N.x-1*/).as(Real )
+ smaxy (0/*N.y-1*/).as(Real ) ] :Optional :SearchRegion [pixel]: used in lmrcImageAutoRotationCorrelation
+ [-Shift ] :Optional :Image Shift, when in > ref
+ [-RepeatX RepeatX (27.3 ).as(Real ) ] :Optional :RepeatX[A]
+ [-RepeatXDelta RepeatXDelta (5 ).as(Real ) ] :Optional :RepeatXDelta[A]
+ [-RepeatY RepeatY (27.3 ).as(Real ) ] :Optional :RepeatY[A]
+ [-RepeatYDelta RepeatYDelta (5 ).as(Real ) ] :Optional :RepeatYDelta[A]
+ [-Xshift ] :Optional :X-Shift Only
+ [-NoShift ] :Optional :No-Shift
+ [-Log Log (stdout ).as(outFile ) ] :Optional :Output: LogFile
+ [-pvm pvm (1 ).as(Integer ) ] :Optional :Task Number
+ [-pvmList pvmList (NULL ).as(inFile ) ] :Optional :ConfigurationFile
+ [-c[onfig] configFile (NULL ).as(inFile ) ] :Optional :ConfigurationFile
+ [-m[ode] mode (0 ).as(Integer ) ] :Optional :Mode
----- Mode -----
When, -Method 0(Default:Correlation)
0: Normal Correlation FxG*
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