Index: branches/cnb_branch_20090215/psastro/src/psastroArguments.c
===================================================================
--- branches/cnb_branch_20090215/psastro/src/psastroArguments.c	(revision 21495)
+++ branches/cnb_branch_20090215/psastro/src/psastroArguments.c	(revision 21536)
@@ -6,6 +6,6 @@
  *
  *  @author IfA
- *  @version $Revision: 1.34 $ $Name: not supported by cvs2svn $
- *  @date $Date: 2009-02-09 21:25:34 $
+ *  @version $Revision: 1.34.2.1 $ $Name: not supported by cvs2svn $
+ *  @date $Date: 2009-02-19 17:59:50 $
  *  Copyright 2009 Institute for Astronomy, University of Hawaii
  */
@@ -100,5 +100,5 @@
     if ((N = psArgumentGet (argc, argv, "-visual"))) {
         psArgumentRemove (N, &argc, argv);
-        pmAstromSetVisual (true);
+        pmVisualSetVisual (true);
     }
 
Index: branches/cnb_branch_20090215/psastro/src/psastroCleanup.c
===================================================================
--- branches/cnb_branch_20090215/psastro/src/psastroCleanup.c	(revision 21495)
+++ branches/cnb_branch_20090215/psastro/src/psastroCleanup.c	(revision 21536)
@@ -6,6 +6,6 @@
  *
  *  @author IfA
- *  @version $Revision: 1.8 $ $Name: not supported by cvs2svn $
- *  @date $Date: 2009-02-09 21:25:34 $
+ *  @version $Revision: 1.8.2.1 $ $Name: not supported by cvs2svn $
+ *  @date $Date: 2009-02-19 17:59:50 $
  *  Copyright 2009 Institute for Astronomy, University of Hawaii
  */
@@ -16,5 +16,5 @@
 
     psFree (config);
-    pmAstromVisualClose ();
+    pmVisualClose ();
 
     psTimerStop ();
Index: branches/cnb_branch_20090215/psastro/src/psastroVisual.c
===================================================================
--- branches/cnb_branch_20090215/psastro/src/psastroVisual.c	(revision 21495)
+++ 	(revision )
@@ -1,1320 +1,0 @@
-/** @file psastroVisual.c
- *
- *  @brief Diagnostic plots for psastro
- *
- *  @ingroup libpsastro
- *
- *  @author IfA
- *  @version $Revision: 1.3 $ $Name: not supported by cvs2svn $
- *  @date $Date: 2009-02-07 02:03:34 $
- *  Copyright 2009 Institute for Astronomy, University of Hawaii
- */
-
-#ifdef HAVE_CONFIG_H
-#include <config.h>
-#endif
-
-# include "psastroInternal.h"
-# include <string.h>
-# include <stdlib.h>
-# include <stdio.h>
-
-# if (HAVE_KAPA)
-# include <kapa.h>
-
-# define KAPAX  700
-# define KAPAY  700
-
-//variables to determine when things are plotted
-static bool isVisual             = false;
-static bool plotRawStars         = true;
-static bool plotRefStars         = false;
-static bool plotLumFunc          = true;
-static bool plotRemoveClumps     = true;
-static bool plotOneChipFit       = true;
-static bool plotFixChips         = true;
-static bool plotAstromGuessCheck = true;
-static bool plotMosaicMatches    = true;
-static bool plotCommonScale      = true;
-static bool plotMosaicOneChip    = true;
-
-// variables to store plotting window indices
-static int kapa = -1;
-static int kapa2 = -1;
-
-// helper routine prototypes
-bool psastroVisualInitGraph (int kapa, KapaSection *section, Graphdata *graphdata);
-bool psastroVisualTriplePlot (int kapa, Graphdata *graphdata, psVector *xVec, psVector *yVec, psVector *zVec, bool increasing);
-bool psastroVisualScaleGraphdata(Graphdata *graphdata, psVector *xVec, psVector *yVec, bool clip);
-bool psastroVisualTripleOverplot (int kapa, Graphdata *graphdata, psVector *xVec, psVector *yVec, psVector *zVec, bool increasing);
-bool psastroVisualCreateScaleVec (psVector *zVec, psVector *zScale, bool increasing);
-bool psastroVisualResidPlot (psArray *rawstars, psArray *refstars, psArray *match, psMetadata *recipe, char *title);
-
-
-/*****************************/
-/** Initialization Routines **/
-/*****************************/
-
-/**  
- * start or stop plotting 
- */
-bool psastroSetVisual (bool mode) {
-    isVisual = mode;
-    return true;
-}
-
-
-/** 
- * open, name, and resize a window if necessary
- */
-bool psastroVisualInitWindow( int *kapid, char *name ) {
-    if (*kapid == -1) {
-        *kapid = KapaOpenNamedSocket("kapa", name);
-        if (*kapid == -1) {
-            fprintf (stderr, "failure to open kapa; visual mode disabled\n");
-            isVisual = false;
-            return false;
-        }
-        KapaResize (*kapid, KAPAX, KAPAY);
-    }
-    return true;
-}
-
-
-/** 
- * ask the user how to proceed
- */
-bool psastroVisualAskUser( bool *plotflag ) {
-    char key[10];
-    fprintf (stdout, "[c]ontinue? [s]kip the rest of these plots? [a]bort all visual plots?");
-    if (!fgets(key, 8, stdin)) {
-        psWarning("Unable to read option");
-    }
-    if (key[0] == 's') {
-        *plotflag = false;
-    }
-    if (key[0] == 'a') {
-        psastroSetVisual(false);
-        pmAstromSetVisual(false);
-    }
-    return true;
-}
-
-
-/** 
- * destroy windows at the end of a run
- */
-bool psastroVisualClose() {
-    if(kapa != -1)
-        KiiClose(kapa);
-    if (kapa2 != -1)
-        KiiClose(kapa2);
-    return true;
-}
-
-
-/***********************/
-/** Plotting Routines **/
-/***********************/
-
-
-/**
- * Plot raw stars as determined from first pass astrometry fit
- * Called within psastroAstromGeuss
- */
-bool psastroVisualPlotRawStars (psArray *rawstars, pmFPA *fpa, pmChip *chip, psMetadata *recipe)
-{
-    // make sure we want to plot this
-    if (!plotRawStars || !isVisual) return true;
-
-    //set up plot region
-    if (!psastroVisualInitWindow (&kapa, "psastro:plots"))
-        return false;
-    Graphdata graphdata;
-    KapaSection section;
-
-    KapaInitGraph (&graphdata);
-    KapaClearPlots (kapa);
-
-    graphdata.color = KapaColorByName ("black");
-    graphdata.ptype = 7;
-    graphdata.size = 0.5;
-    graphdata.style = 2;
-
-    section.dx = 0.4;
-    section.dy = 0.4;
-
-    //initialize and populate plotting vectors
-    bool status = false;
-    float iMagMin = psMetadataLookupF32 (&status, recipe, "PSASTRO.PLOT.INST.MAG.MIN");
-    float iMagMax = psMetadataLookupF32 (&status, recipe, "PSASTRO.PLOT.INST.MAG.MAX");
-
-    psVector *xVec = psVectorAlloc (rawstars->n, PS_TYPE_F32);
-    psVector *yVec = psVectorAlloc (rawstars->n, PS_TYPE_F32);
-    psVector *zVec = psVectorAlloc (rawstars->n, PS_TYPE_F32);
-
-    section.x = 0.0;
-    section.y = 0.5;
-    section.name = NULL;
-    psStringAppend (&section.name, "a0");
-    KapaSetSection (kapa, &section);
-    psFree (section.name);
-
-    //Chip coordinates
-    int n = 0;
-    for (int i = 0; i < rawstars->n; i++) {
-        pmAstromObj *raw = rawstars->data[i];
-        if (!isfinite(raw->Mag)) continue;
-        if (raw->Mag < iMagMin) continue;
-        if (raw->Mag > iMagMax) continue;
-
-        xVec->data.F32[n] = raw->chip->x;
-        yVec->data.F32[n] = raw->chip->y;
-        zVec->data.F32[n] = raw->Mag;
-        n++;
-    }
-    xVec->n = yVec->n = zVec->n = n;
-
-    KapaSendLabel(kapa, "Chip", KAPA_LABEL_XP);
-    KapaSendLabel(kapa, "X", KAPA_LABEL_XM);
-    KapaSendLabel(kapa, "Y", KAPA_LABEL_YM);
-    psastroVisualTriplePlot (kapa, &graphdata, xVec, yVec, zVec, false);
-
-    //Focal Plane Coordinates
-    section.x = 0.5;
-    section.y = 0.5;
-    section.name = NULL;
-    psStringAppend (&section.name, "a1");
-    KapaSetSection (kapa, &section);
-    psFree (section.name);
-
-    n = 0;
-    for (int i = 0; i < rawstars->n; i++) {
-        pmAstromObj *raw = rawstars->data[i];
-        if (!isfinite(raw->Mag)) continue;
-        if (raw->Mag < iMagMin) continue;
-        if (raw->Mag > iMagMax) continue;
-
-        xVec->data.F32[n] = raw->FP->x;
-        yVec->data.F32[n] = raw->FP->y;
-        zVec->data.F32[n] = raw->Mag;
-        n++;
-    }
-    xVec->n = yVec->n = zVec->n = n;
-
-    KapaSendLabel (kapa, "Focal Plane", KAPA_LABEL_XP);
-    KapaSendLabel (kapa, "L", KAPA_LABEL_XM);
-    KapaSendLabel (kapa, "M", KAPA_LABEL_YM);
-    psastroVisualTriplePlot (kapa, &graphdata, xVec, yVec, zVec, false);
-
-    // Tangent Plane Coordinates
-    section.x = 0.0;
-    section.y = 0.0;
-    section.name = NULL;
-    psStringAppend (&section.name, "a2");
-    KapaSetSection (kapa, &section);
-    psFree (section.name);
-
-    n = 0;
-    for (int i = 0; i < rawstars->n; i++) {
-        pmAstromObj *raw = rawstars->data[i];
-        if (!isfinite(raw->Mag)) continue;
-        if (raw->Mag < iMagMin) continue;
-        if (raw->Mag > iMagMax) continue;
-
-        xVec->data.F32[n] = raw->TP->x;
-        yVec->data.F32[n] = raw->TP->y;
-        zVec->data.F32[n] = raw->Mag;
-        n++;
-    }
-    xVec->n = yVec->n = zVec->n = n;
-
-    KapaSendLabel (kapa, "Tangential Plane", KAPA_LABEL_XP);
-    KapaSendLabel (kapa, "P", KAPA_LABEL_XM);
-    KapaSendLabel (kapa, "Q", KAPA_LABEL_YM);
-    psastroVisualTriplePlot (kapa, &graphdata, xVec, yVec, zVec, false);
-
-    //sky coordinates
-    section.x = 0.5;
-    section.y = 0.0;
-    section.name = NULL;
-    psStringAppend (&section.name, "a3");
-    KapaSetSection (kapa, &section);
-    psFree (section.name);
-
-    n = 0;
-    for (int i = 0; i < rawstars->n; i++) {
-        pmAstromObj *raw = rawstars->data[i];
-        if (!isfinite(raw->Mag)) continue;
-        if (raw->Mag < iMagMin) continue;
-        if (raw->Mag > iMagMax) continue;
-
-        xVec->data.F32[n] = DEG_RAD*raw->sky->r;
-        yVec->data.F32[n] = DEG_RAD*raw->sky->d;
-        zVec->data.F32[n] = raw->Mag;
-        n++;
-    }
-    xVec->n = yVec->n = zVec->n = n;
-
-    KapaSendLabel (kapa, "Sky", KAPA_LABEL_XP);
-    KapaSendLabel(kapa, "RA", KAPA_LABEL_XM);
-    KapaSendLabel(kapa, "Dec", KAPA_LABEL_YM);
-    psastroVisualTriplePlot (kapa, &graphdata, xVec, yVec, zVec, false);
-
-    // flip x (East increase to left)
-    SWAP (graphdata.xmin, graphdata.xmax);
-    KapaSetLimits (kapa, &graphdata);
-
-    // plot label
-    section.x = 0.0;
-    section.y = 0.0;
-    section.dx = .95;
-    section.dy = .95;
-    section.name = NULL;
-    psStringAppend (&section.name, "a5");
-    KapaSetSection (kapa, &section);
-    KapaSendLabel (kapa, "Raw Star Selection - Initial Astrometry", KAPA_LABEL_XP);
-    psFree (section.name);
-
-    // pause and wait for user input:
-    psastroVisualAskUser( &plotRawStars );
-
-    psFree (xVec);
-    psFree (yVec);
-    psFree (zVec);
-    return true;
-}
-
-
-/**
- * plot the location of references stars over the entire fpa
- * invoked during psastroChooseRefStars
- */
-bool psastroVisualPlotRefStars (psArray *refstars, psMetadata *recipe)
-{
-    //make sure we want to plot this
-    if (!isVisual || !plotRefStars) return true;
-
-    //set up plotting variables
-    if (!psastroVisualInitWindow (&kapa, "psastro:plots"))
-        return false;
-
-    Graphdata graphdata;
-    KapaInitGraph (&graphdata);
-    KapaClearSections (kapa);
-
-    graphdata.color = KapaColorByName ("black");
-    graphdata.ptype = 7;
-    graphdata.size = 0.5;
-    graphdata.style = 2;
-
-    //initialize and populate plot vectors
-    bool status = false;
-    float rMagMin = psMetadataLookupF32 (&status, recipe, "PSASTRO.PLOT.REF.MAG.MIN");
-    float rMagMax = psMetadataLookupF32 (&status, recipe, "PSASTRO.PLOT.REF.MAG.MAX");
-
-    psVector *xVec = psVectorAlloc (refstars->n, PS_TYPE_F32);
-    psVector *yVec = psVectorAlloc (refstars->n, PS_TYPE_F32);
-    psVector *zVec = psVectorAlloc (refstars->n, PS_TYPE_F32);
-
-    int n = 0;
-    for (int i = 0; i < refstars->n; i++) {
-        pmAstromObj *ref = refstars->data[i];
-        if (!isfinite(ref->Mag)) continue;
-        if (ref->Mag > rMagMax) continue;
-        if (ref->Mag < rMagMin) continue;
-
-        xVec->data.F32[n] = DEG_RAD*ref->sky->r;
-        yVec->data.F32[n] = DEG_RAD*ref->sky->d;
-        zVec->data.F32[n] = ref->Mag;
-        n++;
-    }
-    xVec->n = yVec->n = zVec->n = n;
-
-    KapaSendLabel (kapa, "RA", KAPA_LABEL_XM);
-    KapaSendLabel (kapa, "Dec", KAPA_LABEL_YM);
-    KapaSendLabel (kapa, "Reference Stars", KAPA_LABEL_XP);
-    psastroVisualTriplePlot(kapa, &graphdata, xVec, yVec, zVec, false);
-
-    // flip x (East increase to left)
-    SWAP (graphdata.xmin, graphdata.xmax);
-    KapaSetLimits (kapa, &graphdata);
-
-    // pause and wait for user input:
-    psastroVisualAskUser(&plotRefStars);
-
-    psFree (xVec);
-    psFree (yVec);
-    psFree (zVec);
-    return true;
-}
-
-
-/**
- * Plot the two luminosity functions created within psastroRefStarSubset
- * The luminosity functions are used to select a subset of reference stars,
- * so we plot the cutoff that defines this subset
- */
-bool psastroVisualPlotLuminosityFunction (psVector *lnMag,   ///< Log(n) for each magnitude bin
-                                          psVector *Mag,     ///< magnitude bins
-                                          pmLumFunc *lumFunc,///< Fit to the reference star luminosity function
-                                          pmLumFunc *rawFunc ///< Fit to the raw star luminoisty function
-                                          )
-{
-
-    // make sure we want to plot this
-    if ( !isVisual || !plotLumFunc ) return true;
-
-    //set up plotting variables
-    if ( !psastroVisualInitWindow (&kapa, "psastro:plots"))
-        return false;
-
-    Graphdata graphdata;
-    KapaSection section1 = {"s1", .1, .1, .85, .35};
-    KapaSection section2 =  {"s2", .1, .5, .85, .35};
-    KapaSection section;
-    if(rawFunc == NULL)
-        section = section1;
-    else
-        section = section2;
-    if (rawFunc == NULL)
-        KapaClearPlots(kapa);
-    KapaInitGraph(&graphdata);
-
-    //Determine Plot Limits
-    psastroVisualScaleGraphdata(&graphdata, Mag, lnMag, false);
-
-    //Make a line for the fit
-    float x[2] = {graphdata.xmin, graphdata.xmax};
-    float y[2] = {lumFunc->offset + x[0] * lumFunc->slope,
-                 lumFunc->offset + x[1] * lumFunc->slope};
-
-    //Plot Data
-    KapaSetSection(kapa, &section);
-    KapaSetLimits(kapa, &graphdata);
-
-    KapaSetFont (kapa, "helvetica", 14);
-    KapaBox (kapa, &graphdata);
-    KapaSendLabel (kapa, "Magnitude", KAPA_LABEL_XM);
-    KapaSendLabel (kapa, "Log(N)", KAPA_LABEL_YM);
-    if (rawFunc == NULL)
-        KapaSendLabel (kapa, "Raw Star Luminosity Function", KAPA_LABEL_XP);
-    else
-        KapaSendLabel (kapa,
-                       "Reference Star Luminosity Function, Shifted Raw Fit, and Cutoff",
-                       KAPA_LABEL_XP);
-    graphdata.color=KapaColorByName("black");
-    graphdata.style = 1;
-    KapaPrepPlot (kapa, lnMag->n, &graphdata);
-    KapaPlotVector(kapa, lnMag->n,   Mag->data.F32, "x");
-    KapaPlotVector(kapa, lnMag->n, lnMag->data.F32, "y");
-
-    //Overplot fit
-    graphdata.style=0;
-    KapaPrepPlot(kapa,2,&graphdata);
-    KapaPlotVector(kapa, 2, x, "x");
-    KapaPlotVector(kapa, 2, y, "y");
-
-    //If rawFunc was supplied, overplot the raw star fit + cutoff
-    if( rawFunc != NULL) {
-        double mRef = 0.5*(lumFunc->mMin + lumFunc->mMax);
-        double logRho = mRef * lumFunc->slope + lumFunc->offset;
-        double mRaw = (logRho - rawFunc->offset) / rawFunc->slope;
-        double deltaM = mRef - mRaw;
-        double mRefMax = rawFunc->mMax + deltaM;
-
-        float xraw[2] = {rawFunc->mMin + deltaM, rawFunc->mMax + deltaM};
-        float yraw[2] = {rawFunc->offset + (rawFunc->slope) * rawFunc->mMin,
-                        rawFunc->offset + (rawFunc->slope) * rawFunc->mMax};
-        float x[2] = {mRefMax, mRefMax};
-        float y[2] = {graphdata.ymin, graphdata.ymax};
-        graphdata.color= KapaColorByName("red");
-        KapaPrepPlot(kapa, 2, &graphdata);
-        KapaPlotVector(kapa, 2, x, "x");
-        KapaPlotVector(kapa, 2, y, "y");
-        KapaPrepPlot (kapa, 2, &graphdata);
-        KapaPlotVector (kapa, 2, xraw, "x");
-        KapaPlotVector (kapa, 2, yraw, "y");
-
-        // pause and wait for user input:
-        psastroVisualAskUser (&plotLumFunc);
-    }
-    return true;
-} // end of psastroVisualPlotLuminosityFunction
-
-
-/**
- * Plot the stars in a region, and indicate which stars are part of 'clumps'
- * These stars are flagged during astrometric fitting, since dense regions are
- * harder to cross-match than sparse ones. Called during psastroRemoveClumps.
- */
-bool psastroVisualPlotRemoveClumps (psArray *input, ///< Array containing the field stars
-                                    psImage *count, ///< A 2D histogram of the field star distribution
-                                    int scale,      ///< The pixel size of the histogram
-                                    float limit     ///< The minimum numuber of stars in a bin flagged as a clump
-                                    )
-{
-
-    //make sure we want to plot this
-    if (!isVisual || !plotRemoveClumps) return true;
-
-    //set up plot variables
-    if ( !psastroVisualInitWindow (&kapa, "psastro:plots")) return false;
-
-    KapaSection section;
-    Graphdata graphdata;
-    section.x = 0;
-    section.dx = .9;
-    section.y = 0;
-    section.dy = .9;
-    section.name = NULL;
-    psStringAppend( &section.name, "a0");
-    KapaInitGraph(&graphdata);
-    KapaSetSection(kapa, &section);
-    psFree(section.name);
-
-    graphdata.ptype = 7;
-    graphdata.size = 0.5;
-    graphdata.style = 2;
-    graphdata.color = KapaColorByName ("black");
-    KapaClearPlots(kapa);
-
-    //set up plot vectors
-    float Xmin = +FLT_MAX;
-    float Xmax = -FLT_MAX;
-    float Ymin = +FLT_MAX;
-    float Ymax = -FLT_MAX;
-    psVector *xVec = psVectorAlloc (input->n, PS_TYPE_F32);
-    psVector *yVec = psVectorAlloc (input->n, PS_TYPE_F32);
-
-    //determine boundaries for histogram bin calculation
-    int n = 0;
-    for (int i=0; i< input->n; i++) {
-        pmAstromObj *obj = (pmAstromObj *)input->data[i];
-        if (!isfinite(obj->FP->x)) continue;
-        if (!isfinite(obj->FP->y)) continue;
-        xVec->data.F32[n] = obj->FP->x;
-        yVec->data.F32[n] = obj->FP->y;
-        Xmin = PS_MIN (Xmin, xVec->data.F32[n]);
-        Xmax = PS_MAX (Xmax, xVec->data.F32[n]);
-        Ymin = PS_MIN (Ymin, yVec->data.F32[n]);
-        Ymax = PS_MAX (Ymax, yVec->data.F32[n]);
-        n++;
-    }
-    xVec->n = yVec->n = n;
-
-    //plot stars
-    graphdata.xmax = Xmax;
-    graphdata.xmin = Xmin;
-    graphdata.ymax = Ymax;
-    graphdata.ymin = Ymin;
-    KapaSetLimits (kapa, &graphdata);
-    KapaSetFont (kapa, "helvetica", 14);
-
-    KapaBox (kapa, &graphdata);
-
-    KapaSendLabel (kapa, "L (pixels)", KAPA_LABEL_XM);
-    KapaSendLabel (kapa, "M (pixels)", KAPA_LABEL_YM);
-    KapaSendLabel (kapa, "Regions Flagged as Clumps (Red Boxes)",
-                   KAPA_LABEL_XP);
-
-    KapaPrepPlot (kapa, xVec->n, &graphdata);
-    KapaPlotVector (kapa, xVec->n, xVec->data.F32, "x");
-    KapaPlotVector (kapa, yVec->n, yVec->data.F32, "y");
-
-    graphdata.color = KapaColorByName ("red");
-    graphdata.style = 1;
-
-    //overplot clumpy regions excluded from analysis
-    for(int i = 0; i < count->numCols; i++) {
-        for (int j = 0; j < count->numRows; j++) {
-            if(count->data.U32[j][i] <= limit) continue; //not a clump
-            float Xbot = (i - 5) * scale + Xmin;
-            float Ybot = (j - 5) * scale + Ymin;
-            if(Xbot < graphdata.xmin || Xbot > graphdata.xmax ||
-               Ybot < graphdata.ymin || Ybot > graphdata.ymax) continue;
-            float x[5] = {Xbot, Xbot + scale, Xbot + scale, Xbot, Xbot};
-            float y[5] = {Ybot, Ybot, Ybot + scale, Ybot + scale, Ybot};
-            KapaPrepPlot (kapa, 5, &graphdata);
-            KapaPlotVector (kapa, 5, x, "x");
-            KapaPlotVector (kapa, 5, y, "y");
-        }
-    }
-
-    //ask for user input and finish
-    psastroVisualAskUser (&plotRemoveClumps);
-    psFree (xVec);
-    psFree (yVec);
-
-    return true;
-}
-
-
-/**
- * Assess the goodness of fit for a signle chip by
- * plotting the fit residuals
- * invoked during psastroOneChipFit
- */
-bool psastroVisualPlotOneChipFit (psArray *rawstars, ///< stars detected in the image
-                                  psArray *refstars, ///< reference stars over the same region
-                                  psArray *match,    ///< contains which rawstars match to which refstars
-                                  psMetadata *recipe ///< data reduction recipe
-                                  )
-{
-
-    //make sure we want to plot this
-    if (!isVisual || !plotOneChipFit)
-        return true;
-
-    //plot the residuals
-    if (!psastroVisualResidPlot(rawstars, refstars, match, recipe, "Single Chip Fit Residuals (Chip Coordinates)"))
-        return false;
-
-    //ask for user input and finish
-    psastroVisualAskUser(&plotOneChipFit);
-    return true;
-}
-
-
-/**
- * Plots the chip corners in the FP before and after chips with inconsistent solutions have been fixed.
- * Invoked during psastroFixChips
- */
-bool psastroVisualPlotFixChips (pmFPAfile *input, ///< focal plane array file
-                                psVector *xOld, ///< old X location of chip cornerss
-                                psVector *yOld ///< old Y location of chip corners
-                                )
-{
-    //make sure we want to plot this
-    if(!isVisual || !plotFixChips) return true;
-
-    if(!psastroVisualInitWindow(&kapa, "psastro:plots")) return false;
-
-    KapaSection section = {"s1", .05, .05, .9, .9};
-    Graphdata graphdata;
-    KapaInitGraph( &graphdata);
-    KapaClearPlots (kapa);
-    graphdata.ptype = 2;
-    graphdata.style = 2;
-
-    psVector *xNew = psVectorAllocEmpty (xOld->n, PS_TYPE_F32);
-    psVector *yNew = psVectorAllocEmpty (yOld->n, PS_TYPE_F32);
-
-    // copy of the code in psastroFixChips that generated xOld, yOld, but for xNew, yNew
-    pmFPAview *view = pmFPAviewAlloc (0);
-
-    pmChip *obsChip = NULL;
-    while ((obsChip = pmFPAviewNextChip (view, input->fpa, 1)) != NULL) {
-        if (!obsChip->process || !obsChip->file_exists || !obsChip->data_exists) { continue; }
-
-        psRegion *region = pmChipPixels (obsChip);
-        psPlane ptCP, ptFP;
-
-        ptCP.x = region->x0; ptCP.y = region->y0;
-        psPlaneTransformApply (&ptFP, obsChip->toFPA, &ptCP);
-	psVectorAppend (xNew, ptFP.x);
-	psVectorAppend (yNew, ptFP.y);
-
-        ptCP.x = region->x0; ptCP.y = region->y1;
-        psPlaneTransformApply (&ptFP, obsChip->toFPA, &ptCP);
-	psVectorAppend (xNew, ptFP.x);
-	psVectorAppend (yNew, ptFP.y);
-
-        ptCP.x = region->x1; ptCP.y = region->y1;
-        psPlaneTransformApply (&ptFP, obsChip->toFPA, &ptCP);
-	psVectorAppend (xNew, ptFP.x);
-	psVectorAppend (yNew, ptFP.y);
-
-        ptCP.x = region->x1; ptCP.y = region->y0;
-        psPlaneTransformApply (&ptFP, obsChip->toFPA, &ptCP);
-	psVectorAppend (xNew, ptFP.x);
-	psVectorAppend (yNew, ptFP.y);
-
-        psFree (region);
-    }
-
-    //set up graph
-    psastroVisualScaleGraphdata(&graphdata, xOld, yOld, true);
-    psastroVisualInitGraph(kapa, &section, &graphdata);
-    KapaSendLabel (kapa, "L (FP)", KAPA_LABEL_XM);
-    KapaSendLabel (kapa, "M (FP)", KAPA_LABEL_YM);
-    KapaSendLabel (kapa, "Chip corners before (black) and after (red) FixChips", KAPA_LABEL_XP);
-    KapaPrepPlot (kapa, xOld->n, &graphdata);
-    KapaPlotVector (kapa, xOld->n, xOld->data.F32, "x");
-    KapaPlotVector (kapa, xOld->n, yOld->data.F32, "y");
-
-    graphdata.ptype = 1;
-    graphdata.color = KapaColorByName("red");
-    KapaPrepPlot (kapa, xNew->n, &graphdata);
-    KapaPlotVector (kapa, xNew->n, xNew->data.F32, "x");
-    KapaPlotVector (kapa, xNew->n, yNew->data.F32, "y");
-
-    psastroVisualAskUser(&plotFixChips);
-    psFree(xNew);
-    psFree(yNew);
-    psFree(view);
-    return true;
-}
-
-
-/**
- *  Plots the fpa chip corners projected on to the tangential plane before and after
- *  the astrometry solution has been applied. In psastroAstromGuessCheck, the old corners
- *  are then fit to the new corners to get a sense at how far off the initial WCS info was
- *  in offset, rotation, and scale. This procedure also plots the residuals of the fit from
- *  old to new coordinates
- */
-bool psastroVisualPlotAstromGuessCheck (psVector *cornerPo, ///< P coordinates of chip corners before fitting
-                                        psVector *cornerQo, ///< Q coordinates of chip corners before fitting
-                                        psVector *cornerPn, ///< P coordinates of chip corners after fitting
-                                        psVector *cornerQn, ///< Q coordinates of chip corners after fitting
-                                        psVector *cornerPd, ///< P coordinate residuals of fit from old to new coordinates
-                                        psVector *cornerQd  ///< Q coordinate residuals of fit from old to new coordinates
-                                        )
-{
-
-    //make sure we want to plot this
-    if (!isVisual || !plotAstromGuessCheck) return true;
-
-    //set up graph window
-    if ( !psastroVisualInitWindow (&kapa, "psastro:plots"))
-        return false;
-    Graphdata graphdata;
-    KapaSection section;
-    KapaInitGraph(&graphdata);
-    KapaClearPlots (kapa);
-
-    graphdata.color = KapaColorByName ("black");
-    graphdata.ptype = 2;
-    graphdata.size = 0.5;
-    graphdata.style = 2;
-
-    section.dx = 0.4;
-    section.dy = 0.4;
-
-    //Old Corners
-    section.x = 0.30;
-    section.y = 0.50;
-    section.name = NULL;
-    psStringAppend (&section.name, "a0");
-    KapaSetSection (kapa, &section);
-    psFree(section.name);
-
-    psastroVisualScaleGraphdata (&graphdata, cornerPo, cornerPo, true);
-    KapaSetLimits (kapa, &graphdata);
-    KapaBox (kapa, &graphdata);
-    KapaSendLabel (kapa, "P (Pixels)", KAPA_LABEL_XM);
-    KapaSendLabel (kapa, "Q (Pixels)", KAPA_LABEL_YM);
-    KapaSendLabel (kapa,
-                   "Fiducial Points in the Tangent Plane. Black: Initial Astrometry. Red: Final Astrometry",
-                   KAPA_LABEL_XP);
-    KapaPrepPlot (kapa, cornerPo->n, &graphdata);
-    KapaPlotVector (kapa, cornerPo->n, cornerPo->data.F32, "x");
-    KapaPlotVector (kapa, cornerQo->n, cornerQo->data.F32, "y");
-
-    // New Corners
-    graphdata.color = KapaColorByName("red");
-    graphdata.ptype = 7;
-    graphdata.size = 1.5;
-    KapaPrepPlot (kapa, cornerPn->n, &graphdata);
-    KapaPlotVector (kapa, cornerPn->n, cornerPn->data.F32, "x");
-    KapaPlotVector (kapa, cornerQn->n, cornerQn->data.F32, "y");
-
-    // Residuals
-    psVector *xResid = psVectorAlloc(cornerPn->n, PS_DATA_F32);
-    psVector *yResid = psVectorAlloc(cornerQn->n, PS_DATA_F32);
-    for(int i=0; i < cornerPn->n; i++) {
-        xResid->data.F32[i] = (cornerPd->data.F32[i]);
-        yResid->data.F32[i] = (cornerQd->data.F32[i]);
-    }
-
-    graphdata.color = KapaColorByName("black");
-    graphdata.size=0.5;
-    section.x = 0.3;
-    section.y = 0.0;
-    section.name = NULL;
-    psStringAppend (&section.name, "a1");
-    KapaSetSection (kapa, &section);
-    psFree(section.name);
-
-    psastroVisualScaleGraphdata (&graphdata, xResid, yResid, true);
-    KapaSetLimits (kapa, &graphdata);
-    KapaBox (kapa, &graphdata);
-    KapaSendLabel (kapa, "dP", KAPA_LABEL_XM);
-    KapaSendLabel (kapa, "dQ", KAPA_LABEL_YM);
-    KapaSendLabel (kapa,
-                   "Residual of the Fit from the Initial Astrometry to the Final Astrometry",
-                   KAPA_LABEL_XP);
-    KapaPrepPlot (kapa, cornerPd->n, &graphdata);
-    KapaPlotVector (kapa, cornerPd->n, xResid->data.F32, "x");
-    KapaPlotVector (kapa, cornerQd->n, yResid->data.F32, "y");
-
-    psFree(xResid);
-    psFree(yResid);
-    psastroVisualAskUser (&plotAstromGuessCheck);
-    return true;
-}
-
-
-/**
- * Plots the pixel scales of the fpa before they are
- * equalized in psastroMosaicCommonScale
- */
-bool psastroVisualPlotCommonScale (pmFPA *fpa,         ///< the fpa
-                                   psVector *oldScale  ///< the old pixel scale of each chip in the fpa
-                                   )
-{
-    //make sure we want to plot this
-    if (!isVisual || !plotCommonScale) return false;
-
-    if (!psastroVisualInitWindow(&kapa, "psastro:plots")) return false;
-
-    KapaSection section = {"s1", .05, .05, .9, .9};
-    Graphdata graphdata;
-    psPlane ptCH, ptFP;
-    ptCH.x = 0;
-    ptCH.y = 0;
-    psVector *xVec = psVectorAlloc (oldScale->n, PS_TYPE_F32);
-    psVector *yVec = psVectorAlloc (oldScale->n, PS_TYPE_F32);
-
-    int nobj = 0;
-
-    //project each chip corner to the Focal Plane
-    for(int i = 0; i < fpa->chips->n; i++) {
-        pmChip *chip = fpa->chips->data[i];
-        if (!chip->process || !chip->file_exists) { continue; }
-        if (!chip->toFPA) { continue; }
-
-        psPlaneTransformApply (&ptFP, chip->toFPA, &ptCH);
-        xVec->data.F32[nobj] = ptFP.x;
-        yVec->data.F32[nobj] = ptFP.y;
-        nobj++;
-    }
-
-    //set up plot window
-    KapaInitGraph (&graphdata);
-    KapaClearPlots (kapa);
-    KapaSetSection (kapa, &section);
-    KapaSetFont (kapa, "helvetica", 14);
-    psastroVisualTriplePlot (kapa, &graphdata, xVec, yVec, oldScale, false);
-    KapaSendLabel (kapa, "L (FP)", KAPA_LABEL_XM);
-    KapaSendLabel (kapa, "M (FP)", KAPA_LABEL_YM);
-    KapaSendLabel (kapa, "Old Pixel Scale of FPA Chips (Not to Scale)", KAPA_LABEL_XP);
-
-    psastroVisualAskUser (&plotCommonScale);
-    return true;
-}
-
-
-/**
- *   plot the residuals between raw stars and ref stars after
- *   fitting in psastroMosaicOneChip
- */
-bool psastroVisualPlotMosaicOneChip (psArray *rawstars, psArray *refstars,
-                                     psArray *match, psMetadata *recipe)
-{
-
-    //make sure we want to plot this
-    if (!isVisual || !plotMosaicOneChip) return false;
-
-    //plot the residuals
-    if (!psastroVisualResidPlot(rawstars, refstars, match, recipe, "Single Chip Fit Residuals - Mosaic Mode"))
-        return false;
-
-    //ask for user input and finish
-    psastroVisualAskUser(&plotMosaicOneChip);
-
-    return true;
-}
-
-/** psastroVisualPlotMosaicMatches
- * Plot the matches between raw and reference stars during psastroVisualMosaicSetMatch
- */
-bool psastroVisualPlotMosaicMatches( psArray *rawstars, psArray *refstars,
-                                    psArray *match, int iteration,
-                                    psMetadata *recipe)
-{
-    //make sure we want to plot this
-    if (!isVisual || !plotMosaicMatches) return true;
-
-    char title[60];
-    sprintf(title, "Matches found during psastroMosaicSetMatch iteration %d", iteration);
-
-    if (!psastroVisualResidPlot(rawstars, refstars, match, recipe, title))
-        return false;
-
-    //ask for user input
-    psastroVisualAskUser (&plotMosaicMatches);
-    return true;
-}
-
-
-/*********************/
-/** Helper Routines **/
-/*********************/
-
-
-/** psastroVisualInitGraph (kapa, *section, *graphdata)
- * Initializes graph, sets the section, sets the font,
- * sets the limits, draws the box
- */
-bool psastroVisualInitGraph (int kapa, KapaSection *section, Graphdata *graphdata)
-{
-    KapaSetSection (kapa, section);
-    KapaSetFont (kapa, "helvetica", 14);
-    KapaSetLimits (kapa, graphdata);
-    KapaBox (kapa, graphdata);
-    return true;
-}
-
-
-/** psastroVisualTriplePlot
- * plot 2 vectors whose point sizes are scaled by a third vector
- * autoscales the plot
- */
-bool psastroVisualTriplePlot (int kapid, Graphdata *graphdata, psVector *xVec, psVector *yVec, psVector *zVec, bool increasing)
-{
-    psastroVisualScaleGraphdata (graphdata, xVec, yVec, true);
-    //printf("%f %f %f %f \n",graphdata->xmin, graphdata->xmax, graphdata->ymin, graphdata->ymax);
-    // set the scale vector
-    psVector *zScale = psVectorAlloc (zVec->n, PS_DATA_F32);
-    psastroVisualCreateScaleVec (zVec, zScale, increasing);
-
-    KapaSetFont (kapid, "helvetica", 14);
-    KapaSetLimits(kapid, graphdata);
-    KapaBox (kapid, graphdata);
-
-    // the point size will be scaled from the z vector
-    graphdata->ptype = 7;
-    graphdata->style = 2;
-    graphdata->size = -1;
-    KapaPrepPlot (kapid, xVec->n, graphdata);
-    KapaPlotVector (kapid, xVec->n, xVec->data.F32, "x");
-    KapaPlotVector (kapid, yVec->n, yVec->data.F32, "y");
-    KapaPlotVector (kapid, zVec->n, zScale->data.F32, "z");
-    psFree (zScale);
-    return true;
-}
-
-
-/** psastroVisualTripleOverplot
- * same as above, but does not rescale the plot or redraw the bounding box
- */
-bool psastroVisualTripleOverplot (int kapid, Graphdata *graphdata, psVector *xVec, psVector *yVec, psVector *zVec, bool increasing) {
-
-    // set the scale vector
-    psVector *zScale = psVectorAlloc (zVec->n, PS_DATA_F32);
-    psastroVisualCreateScaleVec (zVec, zScale, increasing);
-
-    KapaSetFont (kapid, "helvetica", 14);
-
-    // the point size will be scaled from the z vector
-    graphdata->size = -1;
-    KapaPrepPlot (kapid, xVec->n, graphdata);
-    KapaPlotVector (kapid, xVec->n, xVec->data.F32, "x");
-    KapaPlotVector (kapid, yVec->n, yVec->data.F32, "y");
-    KapaPlotVector (kapid, zVec->n, zScale->data.F32, "z");
-    psFree (zScale);
-    return true;
-}
-
-
-/** psastroVisualCreateScaleVec
- * create a vector of plot point sizes from a vector
- */
-bool psastroVisualCreateScaleVec (psVector *zVec, psVector *zScale, bool increasing) {
-    // set limits based on data values
-    float zmin = +FLT_MAX;
-    float zmax = -FLT_MAX;
-
-    for (int i = 0; i < zVec->n; i++) {
-        zmin = PS_MIN (zmin, zVec->data.F32[i]);
-        zmax = PS_MAX (zmax, zVec->data.F32[i]);
-    }
-
-    float range = zmax - zmin;
-    if (range == 0.0) {
-        psVectorInit (zScale, 1.0);
-    } else {
-        for (int i = 0; i < zVec->n; i++) {
-            if (increasing) {
-                zScale->data.F32[i] = PS_MIN (1.5, PS_MAX(0.05, 1.5*(zVec->data.F32[i] - zmin)/range));
-            } else {
-                zScale->data.F32[i] = PS_MIN (1.5, PS_MAX(0.05, 1.5*(zmax - zVec->data.F32[i])/range));
-            }
-        }
-    }
-    return true;
-}
-
-
-/** psastroVisualScaleGraphdata
- * Scale the graphdata structure based on x and y coordinates. Use sigma clipping to
- * prevent outliers from making te plot region too big.
- */
-bool psastroVisualScaleGraphdata(Graphdata *graphdata, psVector *xVec, psVector *yVec, bool clip) {
-
-    graphdata->xmin = +FLT_MAX;
-    graphdata->xmax = -FLT_MAX;
-    graphdata->ymin = +FLT_MAX;
-    graphdata->ymax = -FLT_MAX;
-
-    //determine standard deviation of xVec and yVec
-    psStats *statsX = psStatsAlloc(PS_STAT_SAMPLE_MEDIAN | PS_STAT_SAMPLE_STDEV);
-    psStats *statsY = psStatsAlloc(PS_STAT_SAMPLE_MEDIAN | PS_STAT_SAMPLE_STDEV);
-    psVectorStats (statsX, xVec, NULL, NULL, 0);
-    psVectorStats (statsY, yVec, NULL, NULL, 0);
-
-    float xhi = +FLT_MAX, xlo = -FLT_MAX, yhi = +FLT_MAX, ylo = -FLT_MAX;
-    if (clip) {
-        xhi  = statsX->sampleMedian + 3 *statsX->sampleStdev;
-        xlo = statsX->sampleMedian - 3 *statsX->sampleStdev;
-        yhi = statsY->sampleMedian + 3 *statsY->sampleStdev;
-        ylo = statsY->sampleMedian - 3 *statsY->sampleStdev;
-    }
-
-    // abort if there is no good data
-    if (!isfinite(xhi) || !isfinite(xlo) || !isfinite(yhi) || !isfinite(ylo)) {
-        graphdata->xmin = -1;
-        graphdata->ymin  = -1;
-        graphdata->xmax = 1;
-        graphdata->ymax = 1;
-        psFree(statsX);
-        psFree(statsY);
-        return false;
-    }
-
-    for(int i = 0; i < xVec->n; i++) {
-        if (!isfinite(xVec->data.F32[i])) continue;
-        if (xVec->data.F32[i] > xhi || xVec->data.F32[i] < xlo) continue;
-        graphdata->xmin = PS_MIN (graphdata->xmin, xVec->data.F32[i]);
-        graphdata->xmax = PS_MAX (graphdata->xmax, xVec->data.F32[i]);
-    }
-
-    for (int i = 0; i < yVec->n; i++) {
-        if (!isfinite(xVec->data.F32[i])) continue;
-        if (yVec->data.F32[i] > yhi || yVec->data.F32[i] < ylo) continue;
-        graphdata->ymin = PS_MIN (graphdata->ymin, yVec->data.F32[i]);
-        graphdata->ymax = PS_MAX (graphdata->ymax, yVec->data.F32[i]);
-    }
-
-    // add a whitespace border
-    float range = graphdata->xmax - graphdata->xmin;
-    if (range == 0) range = 1;
-    graphdata->xmin -= .05 * range;
-    graphdata->xmax += .05 * range;
-
-    range = graphdata->ymax - graphdata->ymin;
-    if (range == 0) range = 1;
-    graphdata->ymin -= .05 * range;
-    graphdata->ymax += .05 * range;
-
-    psFree (statsX);
-    psFree (statsY);
-    return true;
-}
-
-
-/** psastroVisualResdiPlot
- * Plots the residuals between matched raw and reference stars. Used to assess the quality of an
- * astrometry solution
- */
-bool psastroVisualResidPlot (psArray *rawstars, psArray *refstars, psArray *match, psMetadata *recipe, char *title) {
-
-    //set up the first window
-    if (!psastroVisualInitWindow( &kapa, "psastro:plots")) return false;
-
-    //initialize graph information
-    Graphdata graphdata;
-    KapaSection section;
-
-    KapaInitGraph (&graphdata);
-    KapaClearPlots (kapa);
-
-    graphdata.color = KapaColorByName ("black");
-    graphdata.ptype = 7;
-    graphdata.size = 0.5;
-    graphdata.style = 2;
-
-    section.dx = 0.4;
-    section.dy = 0.4;
-
-    //initialize and populate the plotting vectors
-    bool status = false;
-    float iMagMin = psMetadataLookupF32 (&status, recipe, "PSASTRO.PLOT.INST.MAG.MIN");
-    float iMagMax = psMetadataLookupF32 (&status, recipe, "PSASTRO.PLOT.INST.MAG.MAX");
-    float rMagMin = psMetadataLookupF32 (&status, recipe, "PSASTRO.PLOT.REF.MAG.MIN");
-    float rMagMax = psMetadataLookupF32 (&status, recipe, "PSASTRO.PLOT.REF.MAG.MAX");
-
-    psVector *xVec = psVectorAlloc (match->n, PS_TYPE_F32);
-    psVector *yVec = psVectorAlloc (match->n, PS_TYPE_F32);
-    psVector *zVec = psVectorAlloc (match->n, PS_TYPE_F32);
-
-    // X vs dX
-    section.x = 0.0;
-    section.y = 0.5;
-    section.name = NULL;
-    psStringAppend (&section.name, "a0");
-    KapaSetSection (kapa, &section);
-    psFree (section.name);
-
-    int n = 0;
-    for (int i = 0; i < match->n; i++) {
-        pmAstromMatch *pair = match->data[i];
-        pmAstromObj *raw = rawstars->data[pair->raw];
-        pmAstromObj *ref = refstars->data[pair->ref];
-
-        if (!isfinite(raw->Mag)) continue;
-        if (raw->Mag < iMagMin) continue;
-        if (raw->Mag > iMagMax) continue;
-        if (ref->Mag < rMagMin) continue;
-        if (ref->Mag > rMagMax) continue;
-
-        xVec->data.F32[n] = raw->chip->x;
-        yVec->data.F32[n] = raw->chip->x - ref->chip->x;
-        zVec->data.F32[n] = raw->Mag;
-        n++;
-    }
-    xVec->n = yVec->n = zVec->n = n;
-
-    KapaSendLabel (kapa, "X", KAPA_LABEL_XM);
-    KapaSendLabel (kapa, "dX", KAPA_LABEL_YM);
-    psastroVisualTriplePlot (kapa, &graphdata, xVec, yVec, zVec, false);
-
-    // X vs dY
-    section.x = 0.5;
-    section.y = 0.5;
-    section.name = NULL;
-    psStringAppend (&section.name, "a1");
-    KapaSetSection (kapa, &section);
-    psFree (section.name);
-
-    n = 0;
-    for (int i = 0; i < match->n; i++) {
-        pmAstromMatch *pair = match->data[i];
-        pmAstromObj *raw = rawstars->data[pair->raw];
-        pmAstromObj *ref = refstars->data[pair->ref];
-
-        if (!isfinite(raw->Mag)) continue;
-        if (raw->Mag < iMagMin) continue;
-        if (raw->Mag > iMagMax) continue;
-        if (ref->Mag < rMagMin) continue;
-        if (ref->Mag > rMagMax) continue;
-
-        xVec->data.F32[n] = raw->chip->x;
-        yVec->data.F32[n] = raw->chip->y - ref->chip->y;
-        zVec->data.F32[n] = raw->Mag;
-        n++;
-    }
-    xVec->n = yVec->n = zVec->n = n;
-
-    KapaSendLabel (kapa, "X", KAPA_LABEL_XM);
-    KapaSendLabel (kapa, "dY", KAPA_LABEL_YM);
-    psastroVisualTriplePlot (kapa, &graphdata, xVec, yVec, zVec, false);
-
-    // Y vs dX
-    section.x = 0.0;
-    section.y = 0.0;
-    section.name = NULL;
-    psStringAppend (&section.name, "a2");
-    KapaSetSection (kapa, &section);
-    psFree (section.name);
-
-    n = 0;
-    for (int i = 0; i < match->n; i++) {
-        pmAstromMatch *pair = match->data[i];
-        pmAstromObj *raw = rawstars->data[pair->raw];
-        pmAstromObj *ref = refstars->data[pair->ref];
-
-        if (!isfinite(raw->Mag)) continue;
-        if (raw->Mag < iMagMin) continue;
-        if (raw->Mag > iMagMax) continue;
-        if (ref->Mag < rMagMin) continue;
-        if (ref->Mag > rMagMax) continue;
-
-        xVec->data.F32[n] = raw->chip->y;
-        yVec->data.F32[n] = raw->chip->x - ref->chip->x;
-        zVec->data.F32[n] = raw->Mag;
-        n++;
-    }
-    xVec->n = yVec->n = zVec->n = n;
-
-    KapaSendLabel (kapa, "Y", KAPA_LABEL_XM);
-    KapaSendLabel (kapa, "dX", KAPA_LABEL_YM);
-    psastroVisualTriplePlot (kapa, &graphdata, xVec, yVec, zVec, false);
-
-    // Y vs dY
-    section.x = 0.5;
-    section.y = 0.0;
-    section.name = NULL;
-    psStringAppend (&section.name, "a3");
-    KapaSetSection (kapa, &section);
-    psFree (section.name);
-
-    n = 0;
-    for (int i = 0; i < match->n; i++) {
-        pmAstromMatch *pair = match->data[i];
-        pmAstromObj *raw = rawstars->data[pair->raw];
-        pmAstromObj *ref = refstars->data[pair->ref];
-
-        if (!isfinite(raw->Mag)) continue;
-        if (raw->Mag < iMagMin) continue;
-        if (raw->Mag > iMagMax) continue;
-        if (ref->Mag < rMagMin) continue;
-        if (ref->Mag > rMagMax) continue;
-
-        xVec->data.F32[n] = raw->chip->y;
-        yVec->data.F32[n] = raw->chip->y - ref->chip->y;
-        zVec->data.F32[n] = raw->Mag;
-        n++;
-    }
-    xVec->n = yVec->n = zVec->n = n;
-
-    KapaSendLabel (kapa, "Y", KAPA_LABEL_XM);
-    KapaSendLabel (kapa, "dY", KAPA_LABEL_YM);
-    pmKapaPlotVectorTriple_AutoLimits_OpenGraph (kapa, &graphdata, xVec, yVec, zVec, false);
-
-    section.x = 0.0;
-    section.y = 0.0;
-    section.dx = 0.95;
-    section.dy = 0.95;
-    section.name = NULL;
-    psStringAppend (&section.name, "a5");
-    KapaSetSection (kapa, &section);
-    KapaSendLabel (kapa, title, KAPA_LABEL_XP);
-    psFree (section.name);
-
-
-    // X vs Y plot (different window)
-    if (!psastroVisualInitWindow( &kapa2, "psastro:plots"))
-        return false;
-
-    KapaInitGraph (&graphdata);
-    KapaClearPlots (kapa2);
-
-    graphdata.color = KapaColorByName ("black");
-    graphdata.ptype = 2;
-    graphdata.style = 2;
-
-    psFree (xVec);
-    psFree (yVec);
-    psFree (zVec);
-
-    xVec = psVectorAlloc (rawstars->n, PS_TYPE_F32);
-    yVec = psVectorAlloc (rawstars->n, PS_TYPE_F32);
-    zVec = psVectorAlloc (rawstars->n, PS_TYPE_F32);
-
-    // X vs Y by mag (raw)
-    n = 0;
-    for (int i = 0; i < rawstars->n; i++) {
-        pmAstromObj *raw = rawstars->data[i];
-        if (!isfinite(raw->Mag)) continue;
-        if (raw->Mag < iMagMin) continue;
-        if (raw->Mag > iMagMax) continue;
-
-        xVec->data.F32[n] = raw->chip->x;
-        yVec->data.F32[n] = raw->chip->y;
-        zVec->data.F32[n] = raw->Mag;
-        n++;
-    }
-    xVec->n = yVec->n = zVec->n = n;
-
-    KapaSendLabel (kapa2, "X", KAPA_LABEL_XM);
-    KapaSendLabel (kapa2, "Y", KAPA_LABEL_YM);
-    KapaSendLabel (kapa2,
-                   "Chip Coordinates. Black = Raw Stars. Red = Ref Stars. Blue = Matched Stars"
-                   , KAPA_LABEL_XP);
-    psastroVisualTriplePlot (kapa2, &graphdata, xVec, yVec, zVec, false);
-
-    // X vs Y by mag (ref)
-    psFree (xVec);
-    psFree (yVec);
-    psFree (zVec);
-
-    xVec = psVectorAlloc (refstars->n, PS_TYPE_F32);
-    yVec = psVectorAlloc (refstars->n, PS_TYPE_F32);
-    zVec = psVectorAlloc (refstars->n, PS_TYPE_F32);
-
-    graphdata.color = KapaColorByName ("red");
-    graphdata.ptype = 7;
-    graphdata.style = 2;
-
-    n = 0;
-    for (int i = 0; i < refstars->n; i++) {
-        pmAstromObj *ref = refstars->data[i];
-        if (!isfinite(ref->Mag)) continue;
-        if (ref->Mag < rMagMin) continue;
-        if (ref->Mag > rMagMax) continue;
-
-        xVec->data.F32[n] = ref->chip->x;
-        yVec->data.F32[n] = ref->chip->y;
-        zVec->data.F32[n] = ref->Mag;
-        n++;
-    }
-    xVec->n = yVec->n = zVec->n = n;
-    psastroVisualTripleOverplot (kapa2, &graphdata, xVec, yVec, zVec, false);
-
-    //rescale the graph to include all points
-    float xmin = graphdata.xmin;
-    float ymin = graphdata.ymin;
-    float xmax = graphdata.xmax;
-    float ymax = graphdata.ymax;
-    psastroVisualScaleGraphdata(&graphdata, xVec, yVec, true);
-    graphdata.xmin = PS_MIN(xmin, graphdata.xmin);
-    graphdata.ymin = PS_MIN(ymin, graphdata.ymin);
-    graphdata.xmax = PS_MAX(xmax, graphdata.xmax);
-    graphdata.ymax = PS_MAX(ymax, graphdata.ymax);
-    KapaSetLimits (kapa2, &graphdata);
-
-    //overplot matched stars in blue
-    psFree (xVec);
-    psFree (yVec);
-    psFree (zVec);
-
-    xVec = psVectorAlloc (match->n, PS_TYPE_F32);
-    yVec = psVectorAlloc (match->n, PS_TYPE_F32);
-    zVec = psVectorAlloc (match->n, PS_TYPE_F32);
-
-    graphdata.color = KapaColorByName ("blue");
-    n = 0;
-    for (int i = 0; i < match->n; i++) {
-        pmAstromMatch *pair = match->data[i];
-        pmAstromObj *raw = rawstars->data[pair->raw];
-        pmAstromObj *ref = refstars->data[pair->ref];
-        if (raw->Mag < iMagMin) continue;
-        if (raw->Mag > iMagMax) continue;
-        if (ref->Mag < rMagMin) continue;
-        if (ref->Mag > rMagMax) continue;
-
-        xVec->data.F32[n] = raw->chip->x;
-        yVec->data.F32[n] = raw->chip->y;
-        zVec->data.F32[n] = iMagMin;
-        n++;
-    }
-    xVec->n = yVec->n = zVec->n = n;
-    psastroVisualTripleOverplot (kapa2, &graphdata, xVec, yVec, zVec, false);
-
-    psFree (xVec);
-    psFree (yVec);
-    psFree (zVec);
-    return true;
-}
-
-// END OF PROGRAM
-#else
-
-bool psastroSetVisual (bool mode) {return true};
-bool psastroVisualClose() {return true};
-bool psastroVisualPlotLuminosityFunction (psVector *lnMag, psVector *Mag, pmLumFunc *lumFunc, pmLumFunc *rawFunc) {return true};
-bool psastroVisualPlotRawStars (psArray *rawstars, pmFPA *fpa, pmChip *chip, psMetadata *recipe) {return true};
-bool psastroVisualPlotRefStars (psArray *refstars, psMetadata *recipe) {return true};
-bool psastroVisualPlotRemoveClumps (psArray *input, psImage *count, int scale, float limit) {return true};
-bool psastroVisualPlotFixChips (pmFPAfile *input, psVector *xOld, psVector *yOld) {return true};
-bool psastroVisualPlotOneChipFit (psArray *rawstars, psArray *refstars, psArray *match, psMetadata *recipe) {return true};
-bool psastroVisualPlotAstromGuessCheck (psVector *cornerPo, psVector *cornerQo, psVector *cornerPn, psVector *cornerQn, psVector *cornerPd, psVector *cornerQd) {return true};
-bool psastroVisualPlotMosaicOneChip (psArray *rawstars, psArray *refstars, psArray *match, psMetadata *recipe) {return true};
-bool psastroVisualPlotCommonScale (pmFPA *fpa, psVector *oldScale) {return true};
-bool psastroVisualPlotMosaicMatches (psArray *rawstars, psArray *refstars, psArray *match, int iteration, psMetadata *recipe) {return true};
-
-# endif
-
