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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 <stdio.h> |
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#include <teem/biff.h> |
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#include <teem/hest.h> |
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#include <teem/nrrd.h> |
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#include <teem/gage.h> |
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#include <teem/ten.h> |
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#include <teem/meet.h> |
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static const char *probeInfo = |
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("Shows off the functionality of the gage library. " |
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"Uses gageProbe() to query various kinds of volumes " |
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"to learn various measured or derived quantities. " |
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"Can set environment variable TEEM_VPROBE_HACK_ZI " |
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"to limit probing to a single z slice."); |
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int |
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main(int argc, const char *argv[]) { |
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gageKind *kind; |
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const char *me; |
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char *whatS, *err, *outS, *stackReadFormat, *stackSaveFormat; |
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hestParm *hparm; |
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hestOpt *hopt = NULL; |
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NrrdKernelSpec *k00, *k11, *k22, *kSS, *kSSblur; |
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int what, E=0, renorm, SSuniform, SSoptim, verbose, zeroZ, |
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orientationFromSpacing, SSnormd; |
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unsigned int iBaseDim, oBaseDim, axi, numSS, ninSSIdx, seed; |
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const double *answer; |
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Nrrd *nin, *nout, **ninSS=NULL; |
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Nrrd *ngrad=NULL, *nbmat=NULL; |
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size_t ai, ansLen, idx, xi, yi, zi, six, siy, siz, sox, soy, soz; |
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double bval=0, gmc, rangeSS[2], wrlSS, idxSS=AIR_NAN, |
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dsix, dsiy, dsiz, dsox, dsoy, dsoz; |
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gageContext *ctx; |
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gagePerVolume *pvl=NULL; |
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double t0, t1, x, y, z, scale[3], rscl[3], min[3], maxOut[3], maxIn[3]; |
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airArray *mop; |
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unsigned int hackZi, *skip, skipNum; |
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double (*ins)(void *v, size_t I, double d); |
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gageStackBlurParm *sbp; |
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char hackKeyStr[]="TEEM_VPROBE_HACK_ZI", *hackValStr; |
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int otype, hackSet; |
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char stmp[4][AIR_STRLEN_SMALL]; |
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me = argv[0]; |
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/* parse environment variables first, in case they break nrrdDefault* |
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or nrrdState* variables in a way that nrrdSanity() should see */ |
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nrrdDefaultGetenv(); |
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nrrdStateGetenv(); |
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/* no harm done in making sure we're sane */ |
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if (!nrrdSanity()) { |
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fprintf(stderr, "******************************************\n"); |
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fprintf(stderr, "******************************************\n"); |
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fprintf(stderr, "\n"); |
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fprintf(stderr, " %s: nrrd sanity check FAILED.\n", me); |
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fprintf(stderr, "\n"); |
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fprintf(stderr, " This means that either nrrd can't work on this " |
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"platform, or (more likely)\n"); |
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fprintf(stderr, " there was an error in the compilation options " |
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"and variable definitions\n"); |
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fprintf(stderr, " for how Teem was built here.\n"); |
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fprintf(stderr, "\n"); |
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fprintf(stderr, " %s\n", err = biffGetDone(NRRD)); |
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fprintf(stderr, "\n"); |
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fprintf(stderr, "******************************************\n"); |
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fprintf(stderr, "******************************************\n"); |
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free(err); |
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return 1; |
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} |
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mop = airMopNew(); |
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hparm = hestParmNew(); |
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airMopAdd(mop, hparm, AIR_CAST(airMopper, hestParmFree), airMopAlways); |
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hparm->elideSingleOtherType = AIR_TRUE; |
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hestOptAdd(&hopt, "i", "nin", airTypeOther, 1, 1, &nin, NULL, |
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"input volume", NULL, NULL, nrrdHestNrrd); |
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hestOptAdd(&hopt, "k", "kind", airTypeOther, 1, 1, &kind, NULL, |
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"\"kind\" of volume (\"scalar\", \"vector\", " |
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"\"tensor\", or \"dwi\")", |
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NULL, NULL, meetHestGageKind); |
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hestOptAdd(&hopt, "v", "verbosity", airTypeInt, 1, 1, &verbose, "1", |
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"verbosity level"); |
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hestOptAdd(&hopt, "q", "query", airTypeString, 1, 1, &whatS, NULL, |
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"the quantity (scalar, vector, or matrix) to learn by probing"); |
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hestOptAdd(&hopt, "s", "sclX sclY sxlZ", airTypeDouble, 3, 3, scale, |
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"1.0 1.0 1.0", |
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"scaling factor for resampling on each axis " |
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"(>1.0 : supersampling)"); |
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hestOptAdd(&hopt, "k00", "kern00", airTypeOther, 1, 1, &k00, |
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"tent", "kernel for gageKernel00", |
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NULL, NULL, nrrdHestKernelSpec); |
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hestOptAdd(&hopt, "k11", "kern11", airTypeOther, 1, 1, &k11, |
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"cubicd:1,0", "kernel for gageKernel11", |
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NULL, NULL, nrrdHestKernelSpec); |
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hestOptAdd(&hopt, "k22", "kern22", airTypeOther, 1, 1, &k22, |
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"cubicdd:1,0", "kernel for gageKernel22", |
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NULL, NULL, nrrdHestKernelSpec); |
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hestOptAdd(&hopt, "seed", "N", airTypeUInt, 1, 1, &seed, "42", |
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"RNG seed; mostly for debugging"); |
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hestOptAdd(&hopt, "zz", "bool", airTypeBool, 1, 1, &zeroZ, "false", |
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"enable \"zeroZ\" behavior in gage that partially " |
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"implements working with 3D images as if they are 2D"); |
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hestOptAdd(&hopt, "ssn", "SS #", airTypeUInt, 1, 1, &numSS, |
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"0", "how many scale-space samples to evaluate, or, " |
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"0 to turn-off all scale-space behavior"); |
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hestOptAdd(&hopt, "ssr", "scale range", airTypeDouble, 2, 2, rangeSS, |
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"nan nan", "range of scales in scale-space"); |
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hestOptAdd(&hopt, "ssrf", "SS read format", airTypeString, 1, 1, |
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&stackReadFormat, "", |
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"printf-style format (including a \"%u\") for the " |
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"filenames from which to *read* " |
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"pre-blurred volumes computed for the stack"); |
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hestOptAdd(&hopt, "sssf", "SS save format", airTypeString, 1, 1, |
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&stackSaveFormat, "", |
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"printf-style format (including a \"%u\") for the " |
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"filenames in which to *save* " |
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"pre-blurred volumes computed for the stack"); |
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hestOptAdd(&hopt, "ssw", "SS pos", airTypeDouble, 1, 1, &wrlSS, "0", |
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"\"world\"-space position (true sigma) " |
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"at which to sample in scale-space"); |
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hestOptAdd(&hopt, "kssb", "kernel", airTypeOther, 1, 1, &kSSblur, |
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"dgauss:1,5", "blurring kernel, to sample scale space", |
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NULL, NULL, nrrdHestKernelSpec); |
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hestOptAdd(&hopt, "kssr", "kernel", airTypeOther, 1, 1, &kSS, |
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"hermite", "kernel for reconstructing from scale space samples", |
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NULL, NULL, nrrdHestKernelSpec); |
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hestOptAdd(&hopt, "ssu", NULL, airTypeInt, 0, 0, &SSuniform, NULL, |
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"do uniform samples along sigma, and not (by default) " |
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"samples according to the effective diffusion scale"); |
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hestOptAdd(&hopt, "sso", NULL, airTypeInt, 0, 0, &SSoptim, NULL, |
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"if not using \"-ssu\", use pre-computed optimal " |
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"sigmas when possible"); |
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hestOptAdd(&hopt, "ssnd", NULL, airTypeInt, 0, 0, &SSnormd, NULL, |
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"normalize derivatives by scale"); |
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hestOptAdd(&hopt, "rn", NULL, airTypeInt, 0, 0, &renorm, NULL, |
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"renormalize kernel weights at each new sample location. " |
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"\"Accurate\" kernels don't need this; doing it always " |
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"makes things go slower"); |
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hestOptAdd(&hopt, "gmc", "min gradmag", airTypeDouble, 1, 1, &gmc, |
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"0.0", "For curvature-based queries, use zero when gradient " |
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"magnitude is below this"); |
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hestOptAdd(&hopt, "ofs", "ofs", airTypeInt, 0, 0, &orientationFromSpacing, |
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NULL, "If only per-axis spacing is available, use that to " |
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"contrive full orientation info"); |
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hestOptAdd(&hopt, "t", "type", airTypeEnum, 1, 1, &otype, "float", |
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"type of output volume", NULL, nrrdType); |
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hestOptAdd(&hopt, "o", "nout", airTypeString, 1, 1, &outS, "-", |
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"output volume"); |
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hestParseOrDie(hopt, argc-1, argv+1, hparm, |
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me, probeInfo, AIR_TRUE, AIR_TRUE, AIR_TRUE); |
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airMopAdd(mop, hopt, AIR_CAST(airMopper, hestOptFree), airMopAlways); |
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airMopAdd(mop, hopt, AIR_CAST(airMopper, hestParseFree), airMopAlways); |
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what = airEnumVal(kind->enm, whatS); |
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if (!what) { |
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/* 0 indeed always means "unknown" for any gageKind */ |
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fprintf(stderr, "%s: couldn't parse \"%s\" as measure of \"%s\" volume\n", |
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me, whatS, kind->name); |
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hestUsage(stderr, hopt, me, hparm); |
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hestGlossary(stderr, hopt, hparm); |
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airMopError(mop); |
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return 1; |
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} |
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/* special set-up required for DWI kind */ |
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if (!strcmp(TEN_DWI_GAGE_KIND_NAME, kind->name)) { |
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if (tenDWMRIKeyValueParse(&ngrad, &nbmat, &bval, &skip, &skipNum, nin)) { |
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airMopAdd(mop, err = biffGetDone(TEN), airFree, airMopAlways); |
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fprintf(stderr, "%s: trouble parsing DWI info:\n%s\n", me, err); |
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airMopError(mop); return 1; |
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} |
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if (skipNum) { |
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fprintf(stderr, "%s: sorry, can't do DWI skipping in tenDwiGage", me); |
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airMopError(mop); return 1; |
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} |
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/* this could stand to use some more command-line arguments */ |
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if (tenDwiGageKindSet(kind, 50, 1, bval, 0.001, ngrad, nbmat, |
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tenEstimate1MethodLLS, |
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tenEstimate2MethodQSegLLS, seed)) { |
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airMopAdd(mop, err = biffGetDone(TEN), airFree, airMopAlways); |
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fprintf(stderr, "%s: trouble parsing DWI info:\n%s\n", me, err); |
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airMopError(mop); return 1; |
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} |
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} |
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/* for setting up pre-blurred scale-space samples */ |
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if (numSS) { |
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unsigned int vi; |
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sbp = gageStackBlurParmNew(); |
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airMopAdd(mop, sbp, (airMopper)gageStackBlurParmNix, airMopAlways); |
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ninSS = AIR_CAST(Nrrd **, calloc(numSS, sizeof(Nrrd *))); |
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if (!ninSS) { |
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fprintf(stderr, "%s: couldn't allocate ninSS", me); |
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airMopError(mop); return 1; |
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} |
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for (ninSSIdx=0; ninSSIdx<numSS; ninSSIdx++) { |
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ninSS[ninSSIdx] = nrrdNew(); |
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airMopAdd(mop, ninSS[ninSSIdx], (airMopper)nrrdNuke, airMopAlways); |
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} |
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if (gageStackBlurParmScaleSet(sbp, numSS, rangeSS[0], rangeSS[1], |
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SSuniform, SSoptim) |
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|| gageStackBlurParmKernelSet(sbp, kSSblur) |
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|| gageStackBlurParmRenormalizeSet(sbp, AIR_TRUE) |
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|| gageStackBlurParmBoundarySet(sbp, nrrdBoundaryBleed, AIR_NAN) |
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|| gageStackBlurParmVerboseSet(sbp, verbose)) { |
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airMopAdd(mop, err = biffGetDone(GAGE), airFree, airMopAlways); |
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fprintf(stderr, "%s: trouble with stack blur info:\n%s\n", me, err); |
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airMopError(mop); return 1; |
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} |
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if (airStrlen(stackReadFormat)) { |
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if (nrrdLoadMulti(ninSS, numSS, |
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stackReadFormat, 0, NULL)) { |
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airMopAdd(mop, err = biffGetDone(NRRD), airFree, airMopAlways); |
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fprintf(stderr, "%s: trouble loading blurrings:\n%s\n", me, err); |
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airMopError(mop); return 1; |
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} |
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if (gageStackBlurCheck(AIR_CAST(const Nrrd *const*, ninSS), |
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sbp, nin, kind)) { |
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airMopAdd(mop, err = biffGetDone(GAGE), 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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} else { |
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if (gageStackBlur(ninSS, sbp, nin, kind)) { |
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airMopAdd(mop, err = biffGetDone(GAGE), airFree, airMopAlways); |
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fprintf(stderr, "%s: trouble pre-computing blurrings:\n%s\n", me, err); |
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airMopError(mop); return 1; |
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} |
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if (airStrlen(stackSaveFormat) && !airStrlen(stackReadFormat)) { |
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if (nrrdSaveMulti(stackSaveFormat, |
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AIR_CAST(const Nrrd *const *, ninSS), |
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numSS, 0, NULL)) { |
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airMopAdd(mop, err = biffGetDone(NRRD), airFree, airMopAlways); |
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fprintf(stderr, "%s: trouble saving blurrings:\n%s\n", me, err); |
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airMopError(mop); return 1; |
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} |
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} |
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} |
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/* there's actually work to do here, weirdly: gageProbe can either |
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work in index space, or in world space, but vprobe has |
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basically always been index-space-centric. For doing any kind |
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scale/stack space hacking for which vprobe is suited, its nicer |
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to have the user-specified stack position be in the stack's |
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"world" space, not the (potentially non-uniform) index space. |
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So here, we have to actually replicate work that is done by |
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_gageProbeSpace() in converting from world to index space */ |
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for (vi=0; vi<numSS-1; vi++) { |
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if (AIR_IN_CL(sbp->sigma[vi], wrlSS, sbp->sigma[vi+1])) { |
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idxSS = vi + AIR_AFFINE(sbp->sigma[vi], wrlSS, sbp->sigma[vi+1], 0, 1); |
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if (verbose > 1) { |
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fprintf(stderr, "%s: scale pos %g -> idx %g = %u + %g\n", me, |
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wrlSS, idxSS, vi, |
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AIR_AFFINE(sbp->sigma[vi], wrlSS, sbp->sigma[vi+1], 0, 1)); |
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} |
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break; |
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} |
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} |
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if (vi == numSS-1) { |
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fprintf(stderr, "%s: scale pos %g outside range %g=%g, %g=%g\n", me, |
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wrlSS, rangeSS[0], sbp->sigma[0], |
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rangeSS[1], sbp->sigma[numSS-1]); |
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airMopError(mop); return 1; |
290 |
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} |
291 |
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} else { |
292 |
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ninSS = NULL; |
293 |
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sbp = NULL; |
294 |
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} |
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/*** |
297 |
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**** Except for the gageProbe() call in the inner loop below, |
298 |
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**** and the gageContextNix() call at the very end, all the gage |
299 |
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**** calls which set up (and take down) the context and state are here. |
300 |
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***/ |
301 |
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ctx = gageContextNew(); |
302 |
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airMopAdd(mop, ctx, AIR_CAST(airMopper, gageContextNix), airMopAlways); |
303 |
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gageParmSet(ctx, gageParmGradMagCurvMin, gmc); |
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gageParmSet(ctx, gageParmVerbose, verbose); |
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gageParmSet(ctx, gageParmTwoDimZeroZ, zeroZ); |
306 |
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gageParmSet(ctx, gageParmRenormalize, renorm ? AIR_TRUE : AIR_FALSE); |
307 |
|
|
gageParmSet(ctx, gageParmCheckIntegrals, AIR_TRUE); |
308 |
|
|
gageParmSet(ctx, gageParmOrientationFromSpacing, orientationFromSpacing); |
309 |
|
|
E = 0; |
310 |
|
|
if (!E) E |= !(pvl = gagePerVolumeNew(ctx, nin, kind)); |
311 |
|
|
if (!E) E |= gageKernelSet(ctx, gageKernel00, k00->kernel, k00->parm); |
312 |
|
|
if (!E) E |= gageKernelSet(ctx, gageKernel11, k11->kernel, k11->parm); |
313 |
|
|
if (!E) E |= gageKernelSet(ctx, gageKernel22, k22->kernel, k22->parm); |
314 |
|
|
if (numSS) { |
315 |
|
|
gagePerVolume **pvlSS; |
316 |
|
|
gageParmSet(ctx, gageParmStackUse, AIR_TRUE); |
317 |
|
|
gageParmSet(ctx, gageParmStackNormalizeDeriv, SSnormd); |
318 |
|
|
if (!E) E |= !(pvlSS = AIR_CAST(gagePerVolume **, |
319 |
|
|
calloc(numSS, sizeof(gagePerVolume *)))); |
320 |
|
|
if (!E) airMopAdd(mop, pvlSS, (airMopper)airFree, airMopAlways); |
321 |
|
|
if (!E) E |= gageStackPerVolumeNew(ctx, pvlSS, |
322 |
|
|
AIR_CAST(const Nrrd*const*, ninSS), |
323 |
|
|
numSS, kind); |
324 |
|
|
if (!E) E |= gageStackPerVolumeAttach(ctx, pvl, pvlSS, sbp->sigma, numSS); |
325 |
|
|
if (!E) E |= gageKernelSet(ctx, gageKernelStack, kSS->kernel, kSS->parm); |
326 |
|
|
} else { |
327 |
|
|
if (!E) E |= gagePerVolumeAttach(ctx, pvl); |
328 |
|
|
} |
329 |
|
|
if (!E) E |= gageQueryItemOn(ctx, pvl, what); |
330 |
|
|
if (!E) E |= gageUpdate(ctx); |
331 |
|
|
if (E) { |
332 |
|
|
airMopAdd(mop, err = biffGetDone(GAGE), airFree, airMopAlways); |
333 |
|
|
fprintf(stderr, "%s: trouble:\n%s\n", me, err); |
334 |
|
|
airMopError(mop); |
335 |
|
|
return 1; |
336 |
|
|
} |
337 |
|
|
answer = gageAnswerPointer(ctx, pvl, what); |
338 |
|
|
/*** |
339 |
|
|
**** end gage setup. |
340 |
|
|
***/ |
341 |
|
|
|
342 |
|
|
ansLen = kind->table[what].answerLength; |
343 |
|
|
iBaseDim = kind->baseDim; |
344 |
|
|
oBaseDim = 1 == ansLen ? 0 : 1; |
345 |
|
|
six = nin->axis[0+iBaseDim].size; |
346 |
|
|
siy = nin->axis[1+iBaseDim].size; |
347 |
|
|
siz = nin->axis[2+iBaseDim].size; |
348 |
|
|
dsix = AIR_CAST(double, six); |
349 |
|
|
dsiy = AIR_CAST(double, siy); |
350 |
|
|
dsiz = AIR_CAST(double, siz); |
351 |
|
|
sox = AIR_CAST(size_t, scale[0]*dsix); |
352 |
|
|
soy = AIR_CAST(size_t, scale[1]*dsiy); |
353 |
|
|
soz = AIR_CAST(size_t, scale[2]*dsiz); |
354 |
|
|
dsox = AIR_CAST(double, sox); |
355 |
|
|
dsoy = AIR_CAST(double, soy); |
356 |
|
|
dsoz = AIR_CAST(double, soz); |
357 |
|
|
if (verbose) { |
358 |
|
|
fprintf(stderr, "%s: six,y,z = %u %u %u\n", me, |
359 |
|
|
AIR_UINT(six), |
360 |
|
|
AIR_UINT(siy), |
361 |
|
|
AIR_UINT(siz)); |
362 |
|
|
fprintf(stderr, "%s: sox,y,z = %u %u %u\n", me, |
363 |
|
|
AIR_UINT(sox), |
364 |
|
|
AIR_UINT(soy), |
365 |
|
|
AIR_UINT(soz)); |
366 |
|
|
} |
367 |
|
|
rscl[0] = dsix/dsox; |
368 |
|
|
rscl[1] = dsiy/dsoy; |
369 |
|
|
rscl[2] = dsiz/dsoz; |
370 |
|
|
|
371 |
|
|
if (verbose) { |
372 |
|
|
fprintf(stderr, "%s: kernel support = %d^3 samples\n", me, |
373 |
|
|
2*ctx->radius); |
374 |
|
|
fprintf(stderr, "%s: effective scaling is %g %g %g\n", me, |
375 |
|
|
rscl[0], rscl[1], rscl[2]); |
376 |
|
|
} |
377 |
|
|
/* else, normal volume probing */ |
378 |
|
|
if (ansLen > 1) { |
379 |
|
|
if (verbose) { |
380 |
|
|
fprintf(stderr, "%s: creating %s x %s x %s x %s output\n", me, |
381 |
|
|
airSprintSize_t(stmp[0], ansLen), |
382 |
|
|
airSprintSize_t(stmp[1], sox), |
383 |
|
|
airSprintSize_t(stmp[2], soy), |
384 |
|
|
airSprintSize_t(stmp[3], soz)); |
385 |
|
|
} |
386 |
|
|
if (!E) E |= nrrdMaybeAlloc_va(nout=nrrdNew(), otype, 4, |
387 |
|
|
ansLen, sox, soy, soz); |
388 |
|
|
} else { |
389 |
|
|
if (verbose) { |
390 |
|
|
fprintf(stderr, "%s: creating %s x %s x %s output\n", me, |
391 |
|
|
airSprintSize_t(stmp[0], sox), |
392 |
|
|
airSprintSize_t(stmp[1], soy), |
393 |
|
|
airSprintSize_t(stmp[2], soz)); |
394 |
|
|
} |
395 |
|
|
if (!E) E |= nrrdMaybeAlloc_va(nout=nrrdNew(), otype, 3, |
396 |
|
|
sox, soy, soz); |
397 |
|
|
} |
398 |
|
|
if (E) { |
399 |
|
|
airMopAdd(mop, err = biffGetDone(NRRD), airFree, airMopAlways); |
400 |
|
|
fprintf(stderr, "%s: trouble:\n%s\n", me, err); |
401 |
|
|
airMopError(mop); |
402 |
|
|
return 1; |
403 |
|
|
} |
404 |
|
|
airMopAdd(mop, nout, AIR_CAST(airMopper, nrrdNuke), airMopAlways); |
405 |
|
|
|
406 |
|
|
hackSet = nrrdGetenvUInt(&hackZi, &hackValStr, hackKeyStr); |
407 |
|
|
if (AIR_FALSE == hackSet) { |
408 |
|
|
fprintf(stderr, "%s: couldn't parse value of \"%s\" (\"%s\") as uint\n", |
409 |
|
|
me, hackKeyStr, hackValStr); |
410 |
|
|
airMopError(mop); |
411 |
|
|
return 1; |
412 |
|
|
} |
413 |
|
|
if (AIR_TRUE == hackSet) { |
414 |
|
|
fprintf(stderr, "%s: %s hack on: will only measure Zi=%u\n", |
415 |
|
|
me, hackKeyStr, hackZi); |
416 |
|
|
} |
417 |
|
|
|
418 |
|
|
if (nrrdCenterCell == ctx->shape->center) { |
419 |
|
|
ELL_3V_SET(min, -0.5, -0.5, -0.5); |
420 |
|
|
ELL_3V_SET(maxOut, dsox-0.5, dsoy-0.5, dsoz-0.5); |
421 |
|
|
ELL_3V_SET(maxIn, dsix-0.5, dsiy-0.5, dsiz-0.5); |
422 |
|
|
} else { |
423 |
|
|
ELL_3V_SET(min, 0, 0, 0); |
424 |
|
|
ELL_3V_SET(maxOut, dsox-1, dsoy-1, dsoz-1); |
425 |
|
|
ELL_3V_SET(maxIn, dsix-1, dsiy-1, dsiz-1); |
426 |
|
|
} |
427 |
|
|
t0 = airTime(); |
428 |
|
|
ins = nrrdDInsert[nout->type]; |
429 |
|
|
gageParmSet(ctx, gageParmVerbose, verbose/10); |
430 |
|
|
for (zi=0; zi<soz; zi++) { |
431 |
|
|
if (verbose) { |
432 |
|
|
if (verbose > 1) { |
433 |
|
|
fprintf(stderr, "z = "); |
434 |
|
|
} |
435 |
|
|
fprintf(stderr, " %s/%s", |
436 |
|
|
airSprintSize_t(stmp[0], zi), |
437 |
|
|
airSprintSize_t(stmp[1], soz-1)); |
438 |
|
|
fflush(stderr); |
439 |
|
|
if (verbose > 1) { |
440 |
|
|
fprintf(stderr, "\n"); |
441 |
|
|
} |
442 |
|
|
} |
443 |
|
|
if (AIR_TRUE == hackSet) { |
444 |
|
|
if (hackZi != zi) { |
445 |
|
|
continue; |
446 |
|
|
} |
447 |
|
|
} |
448 |
|
|
|
449 |
|
|
z = AIR_AFFINE(min[2], zi, maxOut[2], min[2], maxIn[2]); |
450 |
|
|
for (yi=0; yi<soy; yi++) { |
451 |
|
|
y = AIR_AFFINE(min[1], yi, maxOut[1], min[1], maxIn[1]); |
452 |
|
|
if (2 == verbose) { |
453 |
|
|
fprintf(stderr, " %u/%u", AIR_UINT(yi), |
454 |
|
|
AIR_UINT(soy)); |
455 |
|
|
fflush(stderr); |
456 |
|
|
} |
457 |
|
|
for (xi=0; xi<sox; xi++) { |
458 |
|
|
if (verbose > 2) { |
459 |
|
|
fprintf(stderr, " (%u,%u)/(%u,%u)", |
460 |
|
|
AIR_UINT(xi), AIR_UINT(yi), |
461 |
|
|
AIR_UINT(sox), AIR_UINT(soy)); |
462 |
|
|
fflush(stderr); |
463 |
|
|
} |
464 |
|
|
x = AIR_AFFINE(min[0], xi, maxOut[0], min[0], maxIn[0]); |
465 |
|
|
idx = xi + sox*(yi + soy*zi); |
466 |
|
|
E = (numSS |
467 |
|
|
? gageStackProbe(ctx, x, y, z, idxSS) |
468 |
|
|
: gageProbe(ctx, x, y, z)); |
469 |
|
|
if (E) { |
470 |
|
|
fprintf(stderr, |
471 |
|
|
"%s: trouble at i=(%s,%s,%s) -> f=(%g,%g,%g):\n%s\n(%d)\n", |
472 |
|
|
me, airSprintSize_t(stmp[0], xi), |
473 |
|
|
airSprintSize_t(stmp[1], yi), |
474 |
|
|
airSprintSize_t(stmp[2], zi), x, y, z, |
475 |
|
|
ctx->errStr, ctx->errNum); |
476 |
|
|
airMopError(mop); |
477 |
|
|
return 1; |
478 |
|
|
} |
479 |
|
|
if (1 == ansLen) { |
480 |
|
|
ins(nout->data, idx, *answer); |
481 |
|
|
} else { |
482 |
|
|
for (ai=0; ai<=ansLen-1; ai++) { |
483 |
|
|
ins(nout->data, ai + ansLen*idx, answer[ai]); |
484 |
|
|
} |
485 |
|
|
} |
486 |
|
|
} |
487 |
|
|
} |
488 |
|
|
} |
489 |
|
|
|
490 |
|
|
/* HEY: this isn't actually correct in general, but is true |
491 |
|
|
for gageKindScl and gageKindVec */ |
492 |
|
|
nrrdContentSet_va(nout, "probe", nin, "%s", airEnumStr(kind->enm, what)); |
493 |
|
|
|
494 |
|
|
for (axi=0; axi<3; axi++) { |
495 |
|
|
/* HEY: why not using nrrdAxisInfoCopy? */ |
496 |
|
|
nout->axis[axi+oBaseDim].label = airStrdup(nin->axis[axi+iBaseDim].label); |
497 |
|
|
nout->axis[axi+oBaseDim].center = ctx->shape->center; |
498 |
|
|
nout->axis[axi+oBaseDim].kind = nin->axis[axi+iBaseDim].kind; |
499 |
|
|
} |
500 |
|
|
|
501 |
|
|
nrrdBasicInfoCopy(nout, nin, (NRRD_BASIC_INFO_DATA_BIT |
502 |
|
|
| NRRD_BASIC_INFO_TYPE_BIT |
503 |
|
|
| NRRD_BASIC_INFO_BLOCKSIZE_BIT |
504 |
|
|
| NRRD_BASIC_INFO_DIMENSION_BIT |
505 |
|
|
| NRRD_BASIC_INFO_CONTENT_BIT |
506 |
|
|
| NRRD_BASIC_INFO_SPACEORIGIN_BIT |
507 |
|
|
| NRRD_BASIC_INFO_OLDMIN_BIT |
508 |
|
|
| NRRD_BASIC_INFO_OLDMAX_BIT |
509 |
|
|
| NRRD_BASIC_INFO_COMMENTS_BIT |
510 |
|
|
| NRRD_BASIC_INFO_KEYVALUEPAIRS_BIT)); |
511 |
|
|
if (ctx->shape->fromOrientation) { |
512 |
|
|
if (nin->space) { |
513 |
|
|
nrrdSpaceSet(nout, nin->space); |
514 |
|
|
} else { |
515 |
|
|
nrrdSpaceDimensionSet(nout, nin->spaceDim); |
516 |
|
|
} |
517 |
|
|
nrrdSpaceVecCopy(nout->spaceOrigin, nin->spaceOrigin); |
518 |
|
|
for (axi=0; axi<3; axi++) { |
519 |
|
|
nrrdSpaceVecScale(nout->axis[axi+oBaseDim].spaceDirection, |
520 |
|
|
rscl[axi], |
521 |
|
|
nin->axis[axi+iBaseDim].spaceDirection); |
522 |
|
|
z = AIR_AFFINE(min[axi], 0, maxOut[axi], min[axi], maxIn[axi]); |
523 |
|
|
nrrdSpaceVecScaleAdd2(nout->spaceOrigin, |
524 |
|
|
1.0, nout->spaceOrigin, |
525 |
|
|
z, nin->axis[axi+iBaseDim].spaceDirection); |
526 |
|
|
} |
527 |
|
|
} else { |
528 |
|
|
for (axi=0; axi<3; axi++) { |
529 |
|
|
nout->axis[axi+oBaseDim].spacing = |
530 |
|
|
rscl[axi]*nin->axis[axi+iBaseDim].spacing; |
531 |
|
|
} |
532 |
|
|
} |
533 |
|
|
|
534 |
|
|
fprintf(stderr, "\n"); |
535 |
|
|
t1 = airTime(); |
536 |
|
|
fprintf(stderr, "probe rate = %g KHz\n", dsox*dsoy*dsoz/(1000.0*(t1-t0))); |
537 |
|
|
if (nrrdSave(outS, nout, NULL)) { |
538 |
|
|
airMopAdd(mop, err = biffGetDone(NRRD), airFree, airMopAlways); |
539 |
|
|
fprintf(stderr, "%s: trouble saving output:\n%s\n", me, err); |
540 |
|
|
airMopError(mop); |
541 |
|
|
return 1; |
542 |
|
|
} |
543 |
|
|
|
544 |
|
|
airMopOkay(mop); |
545 |
|
|
return 0; |
546 |
|
|
} |