Modified: doc

[eos/optional.git] / doc / SmallTools / mrc2Dto3D.html

diff --git a/doc/SmallTools/mrc2Dto3D.html b/doc/SmallTools/mrc2Dto3D.html
index 8184e5f..6583451 100644 (file)
--- a/doc/SmallTools/mrc2Dto3D.html
+++ b/doc/SmallTools/mrc2Dto3D.html
@@ -8,34 +8,45 @@
 <PRE>
 Usage: mrc2Dto3D
 Options:
-    [-i[nput]            In                  (NULL      )] :Optional  :InputDataFile
-    [-I[nput]            In2                 (NULL      )] :Optional  :InputDataFile
-    [-o[utput]           Out                 (NULL      )] :Essential :OutputDataFile
-    [-O[utput]           Out2                (NULL      )] :Optional  :OutputDataFile[2DMulti]
-    [-single             single              (1         )] :Optional  :SingleTiltMode
-    [-InterpolationMode  InterpolationMode   (1         )] :Optional  :InterpolationMode
-    [-Double             ] :Optional  :DoubleTiltMode
-    [-DoubleCounter      DoubleCounter       (NULL      )] :Optional  :DoubleCounter
-    [-CounterThreshold   CounterThreshold    (1e-6      )] :Optional  :CounterThreshold
-    [-CounterThresholdModeCounterThresholdMode(0         )] :Optional  :CounterThresholdMode
-    [-WeightMode         WeightMode          (0         )] :Optional  :WeightMode
-    [-thicknessWeight    ] :Optional  :ThicknessWeight
-    [-Sub[Sampling]      SubSampling         (1         )] :Optional  :SubSampling: [pixel]
-    [-PlusXrot           ] :Optional  :plus x-rotation by 180 for rasmol.
-    [-N                  Nx                  (0         )Ny                  (0         )Nz                  (0         )] :Optional  :OutputSize
-    [-SIRT               ] :Optional  :by SIRT
-    [-max[Iter]          maxIter             (30        )] :Optional  :MaxIteration for SIRT
-    [-rms                rms                 (1.0       )] :Optional  :Ending Conditions: rms for SIRT
-    [-CTF[Info]          CTFInfo             (NULL      )] :Optional  :CTFInfo: for SIRT
-    [-c[onfig]           configFile          (NULL      )] :Optional  :ConfigurationFile
-    [-m[ode]             mode                (0         )] :Optional  :Mode
+    [-i[nput]            In                  (NULL      ).as(inFile              ) ] :Optional  :InputDataFile
+    [-I[nput]            In2                 (NULL      ).as(inFileListNoOpen    ) ] :Optional  :InputDataFile
+    [-each                                                                         ] :Optional  :Read each projection file if necessary, not at once.
+    [-o[utput]           Out                 (NULL      ).as(outFile             ) ] :Essential :OutputDataFile
+    [-O[utput]           Out2                (NULL      ).as(outFile             ) ] :Optional  :OutputDataFile[2DMulti]
+    [-Rmax               Rmax                (1.0       ).as(Real                ) ] :Optional  :Rmax: High Cut [/A]
+    [-single             single              (1         ).as(Integer             ) ] :Optional  :SingleTiltMode
+    [-singleFilter       singleFilter        (0         ).as(Integer             ) ] :Optional  :SingleFilterMode
+    [-InterpolationMode  InterpolationMode   (1         ).as(Integer             ) ] :Optional  :InterpolationMode
+    [-Double                                                                       ] :Optional  :DoubleTiltMode
+    [-DoubleCounter      DoubleCounter       (NULL      ).as(outFile             ) ] :Optional  :DoubleCounter
+    [-CounterThreshold   CounterThreshold    (1e-6      ).as(Real                ) ] :Optional  :CounterThreshold
+    [-CounterThresholdModeCounterThresholdMode(0         ).as(Integer             ) ] :Optional  :CounterThresholdMode
+    [-WeightMode         WeightMode          (0         ).as(Integer             ) ] :Optional  :WeightMode
+    [-thicknessWeight                                                              ] :Optional  :ThicknessWeight
+    [-Sub[Sampling]      SubSampling         (1         ).as(Integer             ) ] :Optional  :SubSampling: [pixel]
+    [-PlusXrot                                                                     ] :Optional  :plus x-rotation by 180 for rasmol.
+    [-N                  Nx                  (0         ).as(Integer             ) 
+                         Ny                  (0         ).as(Integer             ) 
+                         Nz                  (0         ).as(Integer             ) ] :Optional  :OutputSize
+    [-SIRT                                                                         ] :Optional  :by SIRT
+    [-max[Iter]          maxIter             (30        ).as(Integer             ) ] :Optional  :MaxIteration for SIRT
+    [-rms                rms                 (1.0       ).as(Real                ) ] :Optional  :Ending Conditions: rms for SIRT
+    [-CTF[Info]          CTFInfo             (NULL      ).as(inFileList          ) ] :Optional  :CTFInfo: for SIRT
+    [-pthread            pthreadMax          (1         ).as(Integer             ) ] :Optional  :pthread: max
+    [-c[onfig]           configFile          (NULL      ).as(inFile              ) ] :Optional  :ConfigurationFile
+    [-m[ode]             mode                (0         ).as(Integer             ) ] :Optional  :Mode
 ----- Additional Usage -----
 -m Option
     0:SimpleBackProjection
-    1:FilteredBackProjection
+    1:FilteredBackProjection(Fourier Space)
+    2:WeightedBackProjection(Real Space)
 -single 0|1 
     0: tilt axis is parallel to x-axis
     1: tilt axis is parallel to y-axis
+-singleFilter 0|1|2 
+    0: simple rho filter
+    1: Ram-Lak Filter
+    2: Shepp-Logan Filter
 -Double 
     Double Tilt 
 -WeightMode