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Included extra anonymous stuff
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@layerfMRI
layerfMRI committed Oct 16, 2019
1 parent 43afefe commit 70108bb
Showing 1 changed file with 63 additions and 9 deletions.
72 changes: 63 additions & 9 deletions LN_DIRECT_SMOOTH.cpp
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Original file line number Diff line number Diff line change
Expand Up @@ -37,7 +37,7 @@ int show_help( void )
" -laurenzian : use Laurenzian smoothing, default is Gaussian only for division images\n"
" LN_DIRECT_SMOOTH -input bico_VASO.Mean.nii -FWHM 0.5 -direction 3 -laurenzian \n:"
" -direction : argument to specify direction 1 for x, 2 for y or 3 for z \n"

" -Anonymous_sri : You know what you did (no FWHM)/n"

"\n");
return 0;
Expand All @@ -47,8 +47,8 @@ int main(int argc, char * argv[])
{

char * fout=NULL, * finfi=NULL ;
int ac, direction_i=0, do_laurenz = 0 ;
float FWHM_val=0 ;
int ac, direction_i=0, do_laurenz = 0 , do_gauss = 0, do_sri = 0 ;
float FWHM_val=10 , strength = 1;
if( argc < 3 ) return show_help(); // typing '-help' is sooo much work

// process user options: 4 are valid presently
Expand Down Expand Up @@ -81,6 +81,15 @@ int main(int argc, char * argv[])
do_laurenz = 1;
fprintf(stderr, "I will not use Gaussian smoothing but Laurenzian smoothing");
}
else if( ! strcmp(argv[ac], "-Anonymous_sri") ) {
if( ++ac >= argc ) {
fprintf(stderr, "** missing argument for -Anonymous_sri\n");
//return 1;
}
do_sri = 1;
strength = atof(argv[ac]); // no string copy, just pointer assignment
fprintf(stderr, "Yes Sri I am doing you ");
}
else {
fprintf(stderr,"** invalid option, '%s'\n", argv[ac]);
return 1;
Expand Down Expand Up @@ -216,6 +225,8 @@ if (nim_inputfi->datatype == DT_FLOAT64 || nim_inputfi->datatype == NIFTI_TYPE_F
float dist (float x1, float y1, float z1, float x2, float y2, float z2,float dX, float dY, float dZ) ;
float gaus (float distance, float sigma) ;
float laur (float distance, float sigma) ;
float ASLFt (float distance, float strength) ;


cout << "debug 2 " << endl;

Expand All @@ -228,6 +239,16 @@ cout << " vinc " << vinc<< endl;
cout << " FWHM_val " << FWHM_val<< endl;


if (do_sri == 0 && do_laurenz == 0 ) do_gauss = 1 ;

if (do_sri == 1 ) {

cout << " no FWHM_val is used Strength is " << strength<< endl;
}
//cout << " no FWHM_val is used Strength is " << strength<< endl;



///////////////////////////////////
////SMOOTHING LOOP /////
///////////////////////////////////
Expand All @@ -238,6 +259,8 @@ cout << " FWHM_val " << FWHM_val<< endl;
cout << " timestep ... " << flush ;


for (int i = 0 ; i<5 ; i++ ) cout << ASLFt(i ,strength ) << " " << endl ;

if (direction_i == 1 ) {
for(int it=0; it<nrep; ++it){
cout << it << "...." << flush ;
Expand All @@ -251,14 +274,19 @@ if (direction_i == 1 ) {
if ( *(nim_inputf_data + nxyz *it + nxy*iz + nx*ix_i + iy ) != 0 ) {
dist_i = dist((float)ix,(float)iy,(float)iz,(float)ix_i,(float)iy,(float)iz,dX,dY,dZ);

if (do_laurenz == 0 ) {
if (do_gauss == 1 ) {
*(smoothed_data + nxyz *it + nxy*iz + nx*ix + iy ) = *(smoothed_data + nxyz *it + nxy*iz + nx*ix + iy ) + *(nim_inputf_data + nxyz *it + nxy*iz + nx*ix_i + iy ) * gaus(dist_i ,FWHM_val ) ;
*(gausweight_data + nxyz *it + nxy*iz + nx*ix + iy ) = *(gausweight_data + nxyz *it + nxy*iz + nx*ix + iy ) + gaus(dist_i ,FWHM_val ) ;
}
if (do_laurenz == 1 ) {
*(smoothed_data + nxyz *it + nxy*iz + nx*ix + iy ) = *(smoothed_data + nxyz *it + nxy*iz + nx*ix + iy ) + *(nim_inputf_data + nxyz *it + nxy*iz + nx*ix_i + iy ) * laur(dist_i ,FWHM_val ) ;
*(gausweight_data + nxyz *it + nxy*iz + nx*ix + iy ) = *(gausweight_data + nxyz *it + nxy*iz + nx*ix + iy ) + laur(dist_i ,FWHM_val ) ;
}
if (do_sri == 1 ) {
*(smoothed_data + nxyz *it + nxy*iz + nx*ix + iy ) = *(smoothed_data + nxyz *it + nxy*iz + nx*ix + iy ) + *(nim_inputf_data + nxyz *it + nxy*iz + nx*ix_i + iy ) * ASLFt(dist_i ,strength ) ;
*(gausweight_data + nxyz *it + nxy*iz + nx*ix + iy ) = *(gausweight_data + nxyz *it + nxy*iz + nx*ix + iy ) + ASLFt(dist_i ,strength ) ;
}

}
}

Expand All @@ -282,14 +310,18 @@ if (direction_i == 2 ) {
if ( *(nim_inputf_data + nxyz *it + nxy*iz + nx*ix + iy_i ) != 0 ) {
dist_i = dist((float)ix,(float)iy,(float)iz,(float)ix,(float)iy_i,(float)iz,dX,dY,dZ);

if (do_laurenz == 0 ) {
if (do_gauss == 1 ) {
*(smoothed_data + nxyz *it + nxy*iz + nx*ix + iy ) = *(smoothed_data + nxyz *it + nxy*iz + nx*ix + iy ) + *(nim_inputf_data + nxyz *it + nxy*iz + nx*ix + iy_i ) * gaus(dist_i ,FWHM_val ) ;
*(gausweight_data + nxyz *it + nxy*iz + nx*ix + iy ) = *(gausweight_data + nxyz *it + nxy*iz + nx*ix + iy ) + gaus(dist_i ,FWHM_val ) ;
}
if (do_laurenz == 1 ) {
*(smoothed_data + nxyz *it + nxy*iz + nx*ix + iy ) = *(smoothed_data + nxyz *it + nxy*iz + nx*ix + iy ) + *(nim_inputf_data + nxyz *it + nxy*iz + nx*ix + iy_i ) * laur(dist_i ,FWHM_val ) ;
*(gausweight_data + nxyz *it + nxy*iz + nx*ix + iy ) = *(gausweight_data + nxyz *it + nxy*iz + nx*ix + iy ) + laur(dist_i ,FWHM_val ) ;
}
}
if (do_sri == 1 ) {
*(smoothed_data + nxyz *it + nxy*iz + nx*ix + iy ) = *(smoothed_data + nxyz *it + nxy*iz + nx*ix + iy ) + *(nim_inputf_data + nxyz *it + nxy*iz + nx*ix + iy_i ) * ASLFt(dist_i ,strength ) ;
*(gausweight_data + nxyz *it + nxy*iz + nx*ix + iy ) = *(gausweight_data + nxyz *it + nxy*iz + nx*ix + iy ) + ASLFt(dist_i ,strength ) ; }

}
}

Expand Down Expand Up @@ -317,14 +349,20 @@ if (direction_i == 3 ) {



if (do_laurenz == 0 ) {
if (do_gauss == 1 ) {
*(smoothed_data + nxyz *it + nxy*iz + nx*ix + iy ) = *(smoothed_data + nxyz *it + nxy*iz + nx*ix + iy ) + *(nim_inputf_data + nxyz *it + nxy*iz_i + nx*ix + iy ) * gaus(dist_i ,FWHM_val ) ;
*(gausweight_data + nxyz *it + nxy*iz + nx*ix + iy ) = *(gausweight_data + nxyz *it + nxy*iz + nx*ix + iy ) + gaus(dist_i ,FWHM_val ) ;
}
if (do_laurenz == 1 ) {
*(smoothed_data + nxyz *it + nxy*iz + nx*ix + iy ) = *(smoothed_data + nxyz *it + nxy*iz + nx*ix + iy ) + *(nim_inputf_data + nxyz *it + nxy*iz_i + nx*ix + iy ) * laur(dist_i ,FWHM_val ) ;
*(gausweight_data + nxyz *it + nxy*iz + nx*ix + iy ) = *(gausweight_data + nxyz *it + nxy*iz + nx*ix + iy ) + laur(dist_i ,FWHM_val ) ;
}
if (do_sri == 1 ) {
*(smoothed_data + nxyz *it + nxy*iz + nx*ix + iy ) = *(smoothed_data + nxyz *it + nxy*iz + nx*ix + iy ) + *(nim_inputf_data + nxyz *it + nxy*iz_i + nx*ix + iy ) * ASLFt(dist_i ,strength ) ;
*(gausweight_data + nxyz *it + nxy*iz + nx*ix + iy ) = *(gausweight_data + nxyz *it + nxy*iz + nx*ix + iy ) + ASLFt(dist_i ,strength ) ;

}


}
}
Expand All @@ -346,7 +384,7 @@ for(int it=0; it<nrep; ++it){
for(int iz=0; iz<sizeSlice; ++iz){
for(int iy=0; iy<sizePhase; ++iy){
for(int ix=0; ix<sizeRead-0; ++ix){
*(smoothed_data + nxyz *it + nxy*iz + nx*ix + iy ) = *(smoothed_data + nxyz *it + nxy*iz + nx*ix + iy ) / *(gausweight_data + nxyz *it + nxy*iz + nx*ix + iy );
*(smoothed_data + nxyz *it + nxy*iz + nx*ix + iy ) = *(smoothed_data + nxyz *it + nxy*iz + nx*ix + iy ) / *(gausweight_data + nxyz *it + nxy*iz + nx*ix + iy ) ;
}
}
}
Expand Down Expand Up @@ -425,5 +463,21 @@ cout << " ############################################################# " << end
return result ;
// return 1/3.141592 * 1/ ((distance)*(distance) + (0.5*sigma)*(0.5*sigma)) ;
}


float ASLFt (float distance, float strength) {
float value ;
if (distance >= 4.0 ) value = 0.0 ;
if (distance <= 4.0 ) value = 0.0245 ;
if (distance <= 3.0 ) value = 0.024 ;
if (distance <= 2.0 ) value = 0.06 ;
if (distance <= 1.0 ) value = 0.18 ;
if (distance == 0.0 ) value = 1.0 ;





return value * strength;
}


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