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/* |
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Teem: Tools to process and visualize scientific data and images . |
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Copyright (C) 2013, 2012, 2011, 2010, 2009 University of Chicago |
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Copyright (C) 2008, 2007, 2006, 2005 Gordon Kindlmann |
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Copyright (C) 2004, 2003, 2002, 2001, 2000, 1999, 1998 University of Utah |
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This library is free software; you can redistribute it and/or |
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modify it under the terms of the GNU Lesser General Public License |
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(LGPL) as published by the Free Software Foundation; either |
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version 2.1 of the License, or (at your option) any later version. |
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The terms of redistributing and/or modifying this software also |
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include exceptions to the LGPL that facilitate static linking. |
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This library is distributed in the hope that it will be useful, |
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but WITHOUT ANY WARRANTY; without even the implied warranty of |
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MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU |
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Lesser General Public License for more details. |
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You should have received a copy of the GNU Lesser General Public License |
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along with this library; if not, write to Free Software Foundation, Inc., |
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51 Franklin Street, Fifth Floor, Boston, MA 02110-1301 USA |
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*/ |
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#include "ten.h" |
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#include "privateTen.h" |
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#define INFO "Calculate one or more eigenvectors in a DT volume" |
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static const char *_tend_evecInfoL = |
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(INFO |
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". "); |
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int |
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tend_evecMain(int argc, const char **argv, const char *me, |
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hestParm *hparm) { |
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int pret; |
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hestOpt *hopt = NULL; |
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char *perr, *err; |
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airArray *mop; |
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int ret, *comp, compLen, cc; |
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Nrrd *nin, *nout; |
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char *outS; |
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float thresh, *edata, *tdata, eval[3], evec[9], scl; |
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size_t N, I, sx, sy, sz; |
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hestOptAdd(&hopt, "c", "c0 ", airTypeInt, 1, 3, &comp, NULL, |
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"which eigenvalues should be saved out. \"0\" for the " |
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"largest, \"1\" for the middle, \"2\" for the smallest, " |
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"\"0 1\", \"1 2\", \"0 1 2\" or similar for more than one", |
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&compLen); |
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hestOptAdd(&hopt, "t", "thresh", airTypeFloat, 1, 1, &thresh, "0.5", |
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"confidence threshold"); |
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hestOptAdd(&hopt, "i", "nin", airTypeOther, 1, 1, &nin, "-", |
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"input diffusion tensor volume", NULL, NULL, nrrdHestNrrd); |
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hestOptAdd(&hopt, "o", "nout", airTypeString, 1, 1, &outS, "-", |
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"output image (floating point)"); |
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mop = airMopNew(); |
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airMopAdd(mop, hopt, (airMopper)hestOptFree, airMopAlways); |
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✓✗ |
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USAGE(_tend_evecInfoL); |
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PARSE(); |
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airMopAdd(mop, hopt, (airMopper)hestParseFree, airMopAlways); |
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for (cc=0; cc<compLen; cc++) { |
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if (!AIR_IN_CL(0, comp[cc], 2)) { |
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fprintf(stderr, "%s: requested component %d (%d of 3) not in [0..2]\n", |
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me, comp[cc], cc+1); |
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airMopError(mop); return 1; |
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} |
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} |
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if (tenTensorCheck(nin, nrrdTypeFloat, AIR_TRUE, AIR_TRUE)) { |
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airMopAdd(mop, err=biffGetDone(TEN), airFree, airMopAlways); |
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fprintf(stderr, "%s: didn't get a valid DT volume:\n%s\n", me, err); |
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airMopError(mop); return 1; |
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} |
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sx = nin->axis[1].size; |
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sy = nin->axis[2].size; |
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sz = nin->axis[3].size; |
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nout = nrrdNew(); |
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airMopAdd(mop, nout, (airMopper)nrrdNuke, airMopAlways); |
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ret = nrrdMaybeAlloc_va(nout, nrrdTypeFloat, 4, |
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AIR_CAST(size_t, 3*compLen), sx, sy, sz); |
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if (ret) { |
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airMopAdd(mop, err=biffGetDone(NRRD), airFree, airMopAlways); |
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fprintf(stderr, "%s: trouble allocating output:\n%s\n", me, err); |
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airMopError(mop); return 1; |
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} |
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N = sx*sy*sz; |
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edata = (float *)nout->data; |
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tdata = (float *)nin->data; |
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if (1 == compLen) { |
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for (I=0; I<N; I++) { |
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tenEigensolve_f(eval, evec, tdata); |
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scl = AIR_CAST(float, tdata[0] >= thresh); |
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ELL_3V_SCALE(edata, scl, evec+3*comp[0]); |
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edata += 3; |
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tdata += 7; |
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} |
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} else { |
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for (I=0; I<N; I++) { |
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tenEigensolve_f(eval, evec, tdata); |
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scl = AIR_CAST(float, tdata[0] >= thresh); |
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for (cc=0; cc<compLen; cc++) { |
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ELL_3V_SCALE(edata+3*cc, scl, evec+3*comp[cc]); |
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} |
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edata += 3*compLen; |
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tdata += 7; |
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} |
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} |
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if (nrrdAxisInfoCopy(nout, nin, NULL, NRRD_AXIS_INFO_SIZE_BIT)) { |
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airMopAdd(mop, err=biffGetDone(NRRD), airFree, airMopAlways); |
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fprintf(stderr, "%s: trouble:\n%s\n", me, err); |
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airMopError(mop); return 1; |
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} |
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if (nrrdBasicInfoCopy(nout, nin, |
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NRRD_BASIC_INFO_ALL ^ NRRD_BASIC_INFO_SPACE)) { |
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airMopAdd(mop, err=biffGetDone(NRRD), airFree, airMopAlways); |
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fprintf(stderr, "%s: trouble:\n%s\n", me, err); |
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airMopError(mop); return 1; |
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} |
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nout->axis[0].label = (char *)airFree(nout->axis[0].label); |
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nout->axis[0].kind = nrrdKindUnknown; |
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if (nrrdSave(outS, nout, NULL)) { |
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airMopAdd(mop, err=biffGetDone(NRRD), airFree, airMopAlways); |
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fprintf(stderr, "%s: trouble writing:\n%s\n", me, err); |
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airMopError(mop); return 1; |
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} |
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airMopOkay(mop); |
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return 0; |
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} |
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TEND_CMD(evec, INFO); |