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#include <odinseq/seqall.h>
class METHOD_CLASS : public SeqMethod {
public:
METHOD_CLASS(const STD_string& label);
~METHOD_CLASS() {delete_objs();}
void method_pars_init();
void method_seq_init();
void method_rels();
void method_pars_set();
unsigned int numof_testcases() const {return 2;}
private:
void delete_objs();
LDRint NumOfRefgPulses;
LDRdouble RefgainStartingValue;
LDRdouble MaxFlipangle;
LDRdoubleArr AttenuationVals;
LDRdouble PulseGain;
LDRdouble TemplPulseDuration;
LDRdouble PulseDuration;
LDRint NumOfDummyScans;
LDRint NumOfReadPoints;
LDRbool TestMode;
SeqPulsar* exc_pulsar;
SeqPulsNdim** exc;
unsigned int numof_pulses;
SeqPulsarReph reph;
SeqAcqEPI* acqepi;
SeqAcqEPI* acqtemplate;
SeqAcq* acq;
SeqAcqDeph deph;
SeqAcqDeph dephtmpl;
SeqObjLoop dummyloop;
SeqDelay dummyacqdelay;
SeqDelay relaxdelay;
SeqObjVector exc_vector;
SeqObjList slicepart;
SeqObjLoop excloop;
SeqObjLoop acculoop;
};
//////////////////////////////////////////////////////////////////////////////////////////
void METHOD_CLASS::delete_objs() {
if(exc_pulsar) delete exc_pulsar; exc_pulsar=0;
// Use pointer-to-pointer because delete[] for objects does not work correctly on GCC2.9
if(exc) {
for(unsigned int i=0; i<numof_pulses; i++) delete exc[i];
delete[] exc;
exc=0;
}
if(acqepi) delete acqepi; acqepi=0;
if(acqtemplate) delete acqtemplate; acqtemplate=0;
if(acq) delete acq; acq=0;
}
METHOD_CLASS::METHOD_CLASS (const STD_string& label)
: SeqMethod(label) {
set_description("This method can be used to measure the spatial reference "
"gain for the pulse power, i.e. the spatial distribution of B1 "
"for a given setup. This is done by applying RF pulses with "
"different field strength followed by an EPI readout. "
"The oscilation of the image intensity due to the different "
"flip angles is then used to calculate the reference gain. ");
exc_pulsar=0;
exc=0;
numof_pulses=0;
acqepi=0;
acqtemplate=0;
acq=0;
}
void METHOD_CLASS::method_pars_init() {
RefgainStartingValue=22.0;
MaxFlipangle=500.0;
NumOfRefgPulses=16;
NumOfDummyScans=3;
commonPars->set_MatrixSize(readDirection,48);
commonPars->set_AcqSweepWidth(100.0);
TestMode=false;
TemplPulseDuration=4.0;
// alternative default settings for sequence test
if(get_current_testcase()==1) {
TestMode=true;
}
if(systemInfo->get_platform()!=numaris_4) {
append_parameter(RefgainStartingValue,"RefgainStartingValue");
append_parameter(MaxFlipangle,"MaxFlipangle");
append_parameter(NumOfRefgPulses,"NumOfRefgPulses");
append_parameter(AttenuationVals,"AttenuationVals",noedit);
append_parameter(PulseGain,"PulseGain",noedit);
append_parameter(TemplPulseDuration,"TemplPulseDuration");
append_parameter(PulseDuration,"PulseDuration",noedit);
append_parameter(NumOfDummyScans,"NumOfDummyScans");
append_parameter(NumOfReadPoints,"NumOfReadPoints",noedit);
}
append_parameter(TestMode,"TestMode");
}
void METHOD_CLASS::method_seq_init() {
delete_objs();
relaxdelay=SeqDelay("relaxdelay",commonPars->get_RepetitionTime());
float resolution=secureDivision(geometryInfo->get_FOV(readDirection),commonPars->get_MatrixSize(readDirection));
commonPars->set_MatrixSize(phaseDirection,int(secureDivision(geometryInfo->get_FOV(phaseDirection),resolution)));
commonPars->set_MatrixSize(phaseDirection,(commonPars->get_MatrixSize(phaseDirection)/2)*2);
acqepi=new SeqAcqEPI("acqepi",commonPars->get_AcqSweepWidth(),
commonPars->get_MatrixSize(readDirection),geometryInfo->get_FOV(readDirection),
commonPars->get_MatrixSize(phaseDirection),geometryInfo->get_FOV(phaseDirection),
1,1,1.0,systemInfo->get_main_nucleus());
// use sagittal slice for reference gain
Geometry sag; // dummy to calculate correct rotation matrix
sag.set_orientation(sagittal);
acqepi->set_gradrotmatrix(sag.get_gradrotmatrix());
acqtemplate=new SeqAcqEPI(*acqepi);
acqtemplate->set_label("acqtemplate");
acqtemplate->set_template_type(phasecorr_template);
acqtemplate->set_gradrotmatrix(sag.get_gradrotmatrix());
deph=SeqAcqDeph("deph",*acqepi);
deph.set_gradrotmatrix(sag.get_gradrotmatrix());
dephtmpl=SeqAcqDeph("dephtmpl",*acqtemplate);
dephtmpl.set_gradrotmatrix(sag.get_gradrotmatrix());
NumOfReadPoints=acqepi->get_npts_read();
numof_pulses=NumOfRefgPulses;
if(!TestMode) exc=new SeqPulsNdim*[numof_pulses];
if(!TestMode) systemInfo->set_reference_gain(RefgainStartingValue);
AttenuationVals.resize(NumOfRefgPulses);
// allocate template pulse
exc_pulsar=new SeqPulsarSinc("exc",5.0,true,TemplPulseDuration);
exc_pulsar->set_nucleus(systemInfo->get_main_nucleus());
exc_pulsar->set_gradrotmatrix(sag.get_gradrotmatrix());
PulseGain=exc_pulsar->get_pulse_gain();
PulseDuration=exc_pulsar->get_pulsduration();
reph=SeqPulsarReph("reph",*exc_pulsar);
float angle;
int i,index;
if(TestMode) {
fvector flips(NumOfRefgPulses);
for (i=0;i<NumOfRefgPulses;i++) {
angle=(float)(i+1)/(float)(NumOfRefgPulses)*180.0;
flips[i]=angle;
AttenuationVals(i)=angle;
}
exc_pulsar->set_flipangles(flips);
} else {
// linear flipangle
for (i=0;i<NumOfRefgPulses;i++) {
index=i;
angle=float(i+1)/float(NumOfRefgPulses)*MaxFlipangle;
exc_pulsar->set_flipangle(angle);
exc[index]=new SeqPulsNdim(*exc_pulsar);
exc[index]->set_gradrotmatrix(sag.get_gradrotmatrix());
AttenuationVals(index)=exc[index]->get_power();
}
}
slicepart=SeqObjList("slicepart");
dummyloop=SeqObjLoop("dummyloop");
dummyacqdelay=SeqDelay("dummyacqdelay",acqepi->get_duration());
if(NumOfDummyScans>0) {
if(TestMode) {
slicepart += dummyloop( *exc_pulsar + dephtmpl + dummyacqdelay + relaxdelay + *exc_pulsar + deph + dummyacqdelay + relaxdelay) [NumOfDummyScans];
} else {
slicepart += dummyloop( *(exc[NumOfRefgPulses-1]) + reph + dephtmpl + dummyacqdelay + relaxdelay + *(exc[NumOfRefgPulses-1]) + reph + deph + dummyacqdelay + relaxdelay) [NumOfDummyScans];
}
}
exc_vector=SeqObjVector("exc_vector");
excloop=SeqObjLoop("excloop");
acculoop=SeqObjLoop("acculoop");
if(!TestMode) {
for (i=0;i<NumOfRefgPulses;i++) {
exc_vector += *(exc[i]);
}
delete exc_pulsar; exc_pulsar=0;
}
if(TestMode) {
slicepart += excloop ( *exc_pulsar + dephtmpl + (*acqtemplate) + relaxdelay ) [exc_pulsar->get_flipangle_vector()]
+ excloop ( *exc_pulsar + deph + (*acqepi) + relaxdelay ) [exc_pulsar->get_flipangle_vector()];
} else {
slicepart += excloop ( exc_vector + reph + dephtmpl + (*acqtemplate) + relaxdelay ) [exc_vector]
+ excloop ( exc_vector + reph + deph + (*acqepi) + relaxdelay ) [exc_vector];
}
set_sequence( acculoop(slicepart)[commonPars->get_NumOfRepetitions()] );
}
void METHOD_CLASS::method_rels() {
}
void METHOD_CLASS::method_pars_set() {
if(TestMode) {
acqepi->set_reco_vector(userdef,exc_pulsar->get_flipangle_vector());
acqtemplate->set_reco_vector(userdef,exc_pulsar->get_flipangle_vector());
} else {
acqepi->set_reco_vector(userdef,exc_vector,AttenuationVals);
acqtemplate->set_reco_vector(userdef,exc_vector,AttenuationVals);
recoInfo->set_PostProc3D("usercoll | refgain("+ftos(PulseDuration)+","+ftos(PulseGain)+")");
}
}
// entry point for the sequence module
ODINMETHOD_ENTRY_POINT
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