/*
** NOTE: assumes that eval and roots have come from
** ell_3m2sub_eigenvalues_d(m)
*/
void
_ell_3m2sub_evecs_d(double evec[9], double eval[3], int roots,
const double m[9]) {
double n[4];
static const char me[]="_ell_3m2sub_evecs_d";
if (ell_cubic_root_three == roots) {
/* set off-diagonal entries once */
n[1] = m[1];
n[2] = m[3];
/* find first evec */
n[0] = m[0] - eval[0];
n[3] = m[3] - eval[0];
ell_2m_1d_nullspace_d(evec + 3*0, n);
(evec + 3*0)[2] = 0;
/* find second evec */
n[0] = m[0] - eval[1];
n[3] = m[3] - eval[1];
ell_2m_1d_nullspace_d(evec + 3*1, n);
(evec + 3*1)[2] = 0;
_ell_22v_enforce_orthogonality(evec + 3*0, evec + 3*1);
/* make right-handed */
ELL_3V_CROSS(evec + 3*2, evec + 3*0, evec + 3*1);
} else if (ell_cubic_root_single_double == roots) {
/* can pick any 2D basis */
ELL_3V_SET(evec + 3*0, 1, 0, 0);
ELL_3V_SET(evec + 3*1, 0, 1, 0);
ELL_3V_SET(evec + 3*2, 0, 0, 1);
} else {
/* ell_cubic_root_single == roots, if assumptions are met */
ELL_3V_SET(evec + 3*0, AIR_NAN, AIR_NAN, 0);
ELL_3V_SET(evec + 3*1, AIR_NAN, AIR_NAN, 0);
ELL_3V_SET(evec + 3*2, 0, 0, 1);
}
if (!ELL_3M_EXISTS(evec)) {
fprintf(stderr, "%s: given m = \n", me);
ell_3m_print_d(stderr, m);
fprintf(stderr, "%s: got roots = %s (%d) and evecs = \n", me,
airEnumStr(ell_cubic_root, roots), roots);
ell_3m_print_d(stderr, evec);
}
return;
}
static
tenFiberContext *
_tenFiberContextCommonNew(const Nrrd *vol, int useDwi,
double thresh, double soft, double valueMin,
int ten1method, int ten2method) {
char me[]="_tenFiberContextCommonNew", err[BIFF_STRLEN];
tenFiberContext *tfx;
gageKind *kind;
if (!( tfx = (tenFiberContext *)calloc(1, sizeof(tenFiberContext)) )) {
sprintf(err, "%s: couldn't allocate new context", me);
biffAdd(TEN, err); return NULL;
}
if (useDwi) {
Nrrd *ngrad=NULL, *nbmat=NULL;
double bval=0;
unsigned int *skip, skipNum;
tfx->useDwi = AIR_TRUE;
/* default fiber type */
tfx->fiberType = tenDwiFiberTypeUnknown;
if (tenDWMRIKeyValueParse(&ngrad, &nbmat, &bval, &skip, &skipNum, vol)) {
sprintf(err, "%s: trouble parsing DWI info", me );
biffAdd(TEN, err); return NULL;
}
if (skipNum) {
sprintf(err, "%s: sorry, can't do DWI skipping here", me);
biffAdd(TEN, err); return NULL;
}
kind = tenDwiGageKindNew();
if (tenDwiGageKindSet(kind,
thresh, soft, bval, valueMin,
ngrad, NULL,
ten1method, ten2method, 42)) {
sprintf(err, "%s: trouble setting DWI kind", me);
biffAdd(TEN, err); return NULL;
}
} else {
/* it should be a tensor volume */
tfx->useDwi = AIR_FALSE;
/* default fiber type */
tfx->fiberType = tenFiberTypeUnknown;
if (tenTensorCheck(vol, nrrdTypeUnknown, AIR_TRUE, AIR_TRUE)) {
sprintf(err, "%s: didn't get a tensor volume", me);
biffAdd(TEN, err); return NULL;
}
kind = tenGageKind;
}
if ( !(tfx->gtx = gageContextNew())
|| !(tfx->pvl = gagePerVolumeNew(tfx->gtx, vol, kind))
|| (gagePerVolumeAttach(tfx->gtx, tfx->pvl)) ) {
sprintf(err, "%s: gage trouble", me);
biffMove(TEN, err, GAGE); free(tfx); return NULL;
}
tfx->nin = vol;
tfx->ksp = nrrdKernelSpecNew();
if (nrrdKernelSpecParse(tfx->ksp, tenDefFiberKernel)) {
sprintf(err, "%s: couldn't parse tenDefFiberKernel \"%s\"",
me, tenDefFiberKernel);
biffMove(TEN, err, NRRD); return NULL;
}
if (tenFiberKernelSet(tfx, tfx->ksp->kernel, tfx->ksp->parm)) {
sprintf(err, "%s: couldn't set default kernel", me);
biffAdd(TEN, err); return NULL;
}
/* looks to GK like GK says that we must set some stop criterion */
tfx->intg = tenDefFiberIntg;
tfx->anisoStopType = tenDefFiberAnisoStopType;
tfx->anisoSpeedType = tenAnisoUnknown;
tfx->stop = 0;
tfx->anisoThresh = tenDefFiberAnisoThresh;
/* so I'm not using the normal default mechanism, shoot me */
tfx->anisoSpeedFunc[0] = 0;
tfx->anisoSpeedFunc[1] = 0;
tfx->anisoSpeedFunc[2] = 0;
tfx->maxNumSteps = tenDefFiberMaxNumSteps;
tfx->minNumSteps = 0;
tfx->useIndexSpace = tenDefFiberUseIndexSpace;
tfx->verbose = 0;
tfx->stepSize = tenDefFiberStepSize;
tfx->maxHalfLen = tenDefFiberMaxHalfLen;
tfx->minWholeLen = 0.0;
tfx->confThresh = 0.5; /* why do I even bother setting these- they'll
only get read if the right tenFiberStopSet has
been called, in which case they'll be set... */
tfx->minRadius = 1; /* above lament applies here as well */
tfx->minFraction = 0.5; /* and here */
tfx->wPunct = tenDefFiberWPunct;
GAGE_QUERY_RESET(tfx->query);
tfx->mframe[0] = vol->measurementFrame[0][0];
tfx->mframe[1] = vol->measurementFrame[1][0];
tfx->mframe[2] = vol->measurementFrame[2][0];
tfx->mframe[3] = vol->measurementFrame[0][1];
tfx->mframe[4] = vol->measurementFrame[1][1];
tfx->mframe[5] = vol->measurementFrame[2][1];
tfx->mframe[6] = vol->measurementFrame[0][2];
tfx->mframe[7] = vol->measurementFrame[1][2];
tfx->mframe[8] = vol->measurementFrame[2][2];
if (ELL_3M_EXISTS(tfx->mframe)) {
tfx->mframeUse = AIR_TRUE;
ELL_3M_TRANSPOSE(tfx->mframeT, tfx->mframe);
} else {
tfx->mframeUse = AIR_FALSE;
}
tfx->gageAnisoStop = NULL;
tfx->gageAnisoSpeed = NULL;
tfx->ten2AnisoStop = AIR_NAN;
/* ... don't really see the point of initializing the ten2 stuff here;
its properly done in tenFiberTraceSet() ... */
tfx->radius = AIR_NAN;
return tfx;
}
