Commit 168005a8 authored by Pilar Cossio's avatar Pilar Cossio

New Tutorial and Manual

parent ec7cdb27
2
0.836000 1.369000 2.640000
-1.375000 0.400000 3.018000
OneImage.mrc
TwoImages.mrc
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0 -70910.9000 -70904.7000 -6.2000 -6.2000
1 -70625.1000 -70607.9000 -17.2000 -23.4000
2 -70838.0000 -70812.7000 -25.3000 -48.7000
3 -70742.2000 -70751.8000 9.6000 -39.1000
4 -70582.3000 -70691.6000 109.3000 70.2000
5 -70756.7000 -70823.8000 67.1000 137.3000
6 -70565.9000 -70556.2000 -9.7000 127.6000
7 -70737.6000 -70742.0000 4.4000 132.0000
8 -70312.2000 -70464.9000 152.7000 284.7000
9 -70880.0000 -70880.4000 0.4000 285.1000
10 -70645.1000 -70645.5000 0.4000 285.5000
11 -70816.3000 -70814.3000 -2.0000 283.5000
12 -70759.3000 -70755.2000 -4.1000 279.4000
13 -70636.6000 -70638.0000 1.4000 280.8000
14 -70567.5000 -70638.3000 70.8000 351.6000
15 -70593.5000 -70579.6000 -13.9000 337.7000
16 -70785.1000 -70800.9000 15.8000 353.5000
17 -70548.2000 -70585.2000 37.0000 390.5000
18 -70856.3000 -70876.7000 20.4000 410.9000
19 -70764.9000 -70763.5000 -1.4000 409.5000
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NUMBER_PIXELS 224
PIXEL_SIZE 1.32
GRIDPOINTS_ENVELOPE 3
START_ENVELOPE 0.000
END_ENVELOPE 0.001
GRIDPOINTS_PSF_PHASE 3
START_PSF_PHASE 0.004
END_PSF_PHASE 0.024
GRIDPOINTS_PSF_AMP 1
START_PSF_AMP 1.
END_PSF_AMP 1.
MAX_D_CENTER 20
PIXEL_GRID_CENTER 2
NO_PROJECT_RADIUS
QUATERNIONS
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NUMBER_PIXELS 220
PIXEL_SIZE 1.77
GRIDPOINTS_ALPHA 4
GRIDPOINTS_BETA 2
GRIDPOINTS_ENVELOPE 4
START_ENVELOPE 0.0002
END_ENVELOPE 0.0012
GRIDPOINTS_PSF_PHASE 4
START_PSF_PHASE 0.004
END_PSF_PHASE 0.016
GRIDPOINTS_PSF_AMP 1
START_PSF_AMP 1.
END_PSF_AMP 1.
MAX_D_CENTER 25
PIXEL_GRID_CENTER 2
WRITE_PROB_ANGLES
WRITE_CROSSCOR
CROSSCOR_NOTBAYESIAN
FLIPPED
NUMBER_PIXELS 220
PIXEL_SIZE 1.77
QUATERNIONS 4
GRIDPOINTS_ENVELOPE 4
START_ENVELOPE 0.0002
END_ENVELOPE 0.0012
GRIDPOINTS_PSF_PHASE 4
START_PSF_PHASE 0.004
END_PSF_PHASE 0.016
GRIDPOINTS_PSF_AMP 1
START_PSF_AMP 1.
END_PSF_AMP 1.
MAX_D_CENTER 25
PIXEL_GRID_CENTER 2
PROJECT_RADIUS
WRITE_PROB_ANGLES
NUMBER_PIXELS 220
PIXEL_SIZE 1.77
GRIDPOINTS_ALPHA 10
GRIDPOINTS_BETA 5
GRIDPOINTS_ENVELOPE 4
START_ENVELOPE 0.0002
END_ENVELOPE 0.0012
GRIDPOINTS_PSF_PHASE 4
START_PSF_PHASE 0.004
END_PSF_PHASE 0.016
GRIDPOINTS_PSF_AMP 1
START_PSF_AMP 1.
END_PSF_AMP 1.
MAX_D_CENTER 25
PIXEL_GRID_CENTER 2
NUMBER_PIXELS 220
PIXEL_SIZE 1.77
BEST_AMP 1
BEST_DX -10
BEST_DY 5
BEST_NORM 1
BEST_OFFSET 0
BEST_PHASE 0.00068
BEST_ENVELOPE 0.03
WITHNOISE 5.476
BEST_ALPHA -0.464793
BEST_GAMMA -0.409391
BEST_BETA 1.97283
#PRINT_ROTATED_MODELS
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......@@ -1006,6 +1006,10 @@ if(param.printrotmod) {
for(int n = 0; n < Model.nPointsModel; n++)
{
if(Model.points[n].radius < param.pixelSize){
cout << "Error: Radius less than Pixel size: use keyword NO_PROJECT_RADIUS in inputfile\n";
exit(1);
}
//Getting Centers of Sphere
i = floor(RotatedPointsModel[n].pos[0] / param.pixelSize + (myfloat_t) param.param_device.NumberPixels / 2.0f + 0.5f);
j = floor(RotatedPointsModel[n].pos[1] / param.pixelSize + (myfloat_t) param.param_device.NumberPixels / 2.0f + 0.5f);
......@@ -1016,7 +1020,8 @@ if(param.printrotmod) {
if (i < 0 || j < 0 || i >= param.param_device.NumberPixels || j >= param.param_device.NumberPixels)
{
if (DebugOutput >= 0) cout << "WARNING::: Model Point out of Projection map: " << i << ", " << j << "\n";
continue;
// continue;
exit(1);
}
......@@ -1048,7 +1053,8 @@ if(param.printrotmod) {
if (i < 0 || j < 0 || i >= param.param_device.NumberPixels || j >= param.param_device.NumberPixels)
{
if (DebugOutput >= 0) cout << "WARNING:::: Model Point out of Projection map: " << i << ", " << j << "\n";
continue;
// continue;
exit(1);
}
localproj[i * param.param_device.NumberPixels + j] += Model.points[n].density;//Model.NormDen;
......
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