Introduce cell_explorer

1 files changed, 1161 insertions, 0 deletions

diff --git a/src/cell_explorer.c b/src/cell_explorer.c
new file mode 100644
index 00000000..70df7d02
--- /dev/null
+++ b/src/cell_explorer.c
@@ -0,0 +1,1161 @@
+/*
+ * cell_explorer.c
+ *
+ * Examine cell parameter histograms
+ *
+ * Copyright © 2014 Deutsches Elektronen-Synchrotron DESY,
+ *                  a research centre of the Helmholtz Association.
+ *
+ * Authors:
+ *   2014 Thomas White <taw@physics.org>
+ *
+ * This program is free software: you can redistribute it and/or modify
+ * it under the terms of the GNU General Public License as published by
+ * the Free Software Foundation, either version 3 of the License, or
+ * (at your option) any later version.
+ *
+ * This program is distributed in the hope that it will be useful,
+ * but WITHOUT ANY WARRANTY; without even the implied warranty of
+ * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
+ * GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License
+ * along with this program.  If not, see <http://www.gnu.org/licenses/>.
+ *
+ */
+
+
+#ifdef HAVE_CONFIG_H
+#include <config.h>
+#endif
+
+#include <stdarg.h>
+#include <stdio.h>
+#include <getopt.h>
+#include <string.h>
+#include <gtk/gtk.h>
+#include <math.h>
+#include <gdk/gdkkeysyms.h>
+
+#include <crystfel/stream.h>
+#include <crystfel/image.h>
+#include <crystfel/utils.h>
+#include <crystfel/index.h>
+
+#include "multihistogram.h"
+
+
+static void show_help(const char *s)
+{
+	printf("Syntax: %s <my.stream>\n\n", s);
+	printf(
+"Examine cell parameter histograms.\n"
+"\n"
+" -h, --help              Display this help message.\n"
+);
+}
+
+
+#define CAT_P (0)
+#define CAT_A (1)
+#define CAT_B (2)
+#define CAT_C (3)
+#define CAT_I (4)
+#define CAT_F (5)
+#define CAT_H (6)
+#define CAT_R (7)
+#define CAT_EXCLUDE (8)
+
+
+typedef struct {
+
+	GtkWidget *da;
+	MultiHistogram *h;
+	double min;
+	double max;
+	int n;
+	const char *units;
+
+	int width;
+	double dmin;  /* Display min/max */
+	double dmax;
+
+	double sel1;
+	double sel2;
+	int show_sel;
+	int erase_sel_on_release;
+
+	double press_x;
+	double press_y;
+	double press_min;
+	int sel;
+
+	struct _cellwindow *parent;
+
+} HistoBox;
+
+
+typedef struct _cellwindow {
+
+	GtkWidget *window;
+	GtkUIManager *ui;
+	GtkActionGroup *action_group;
+
+	GtkWidget *indmlist;
+
+	UnitCell **cells;
+	IndexingMethod *indms;
+	int n_cells;
+
+	IndexingMethod unique_indms[256];
+	int active_indms[256];
+	int n_unique_indms;
+
+	HistoBox *hist_a;
+	HistoBox *hist_b;
+	HistoBox *hist_c;
+	HistoBox *hist_al;
+	HistoBox *hist_be;
+	HistoBox *hist_ga;
+
+	int cols_on[8];
+
+} CellWindow;
+
+
+#define P_COL 0.0, 0.0, 0.0
+#define A_COL 0.0, 0.8, 0.8
+#define B_COL 0.0, 0.0, 0.8
+#define C_COL 0.4, 0.3, 1.0
+#define I_COL 0.0, 0.8, 0.0
+#define F_COL 1.0, 0.3, 1.0
+#define H_COL 0.8, 0.0, 0.0
+#define R_COL 0.6, 0.6, 0.0
+
+static void set_col(cairo_t *cr, CellWindow *w, int cat)
+{
+	if ( w->cols_on[cat] == 0 ) {
+		cairo_set_source_rgb(cr, 0.9, 0.9, 0.9);
+		return;
+	}
+
+	if ( w->cols_on[cat] == 1 ) {
+		cairo_set_source_rgb(cr, 0.0, 0.0, 0.0);
+		return;
+	}
+
+	switch ( cat ) {
+
+		case CAT_P :  cairo_set_source_rgb(cr, P_COL);  break;
+		case CAT_A :  cairo_set_source_rgb(cr, A_COL);  break;
+		case CAT_B :  cairo_set_source_rgb(cr, B_COL);  break;
+		case CAT_C :  cairo_set_source_rgb(cr, C_COL);  break;
+		case CAT_I :  cairo_set_source_rgb(cr, I_COL);  break;
+		case CAT_F :  cairo_set_source_rgb(cr, F_COL);  break;
+		case CAT_H :  cairo_set_source_rgb(cr, H_COL);  break;
+		case CAT_R :  cairo_set_source_rgb(cr, R_COL);  break;
+
+	}
+}
+
+
+static gboolean destroy_sig(GtkWidget *da, CellWindow *w)
+{
+	gtk_main_quit();
+	return FALSE;
+}
+
+
+static void redraw_all(CellWindow *cw)
+{
+	gtk_widget_queue_draw(cw->hist_a->da);
+	gtk_widget_queue_draw(cw->hist_b->da);
+	gtk_widget_queue_draw(cw->hist_c->da);
+	gtk_widget_queue_draw(cw->hist_al->da);
+	gtk_widget_queue_draw(cw->hist_be->da);
+	gtk_widget_queue_draw(cw->hist_ga->da);
+}
+
+
+/* Calculate a round interval which occurs about three times in span */
+static double calc_tic_interval(double span, int *nm)
+{
+	if ( span / 500.0 > 2 ) { *nm = 5;  return 500.0; }
+	if ( span / 100.0 > 2 ) { *nm = 10;  return 100.0; }
+	if ( span / 50.0 > 2 ) { *nm = 5;  return 50.0; }
+	if ( span / 10.0 > 2 ) { *nm = 10;  return 10.0; }
+	if ( span / 5.0 > 2 ) { *nm = 5;  return 5.0; }
+	if ( span / 1.0 > 2 ) { *nm = 10;  return 1.0; }
+	if ( span / 0.5 > 2 ) { *nm = 5;  return 0.5; }
+	*nm = 10;  return 0.1;
+}
+
+
+static void draw_axis(cairo_t *cr, HistoBox *b, int width, int height)
+{
+	char label[128];
+	double t, ti, mt;
+	int nm;
+	const double ws = width / (b->dmax-b->dmin);
+
+	/* Draw the abscissa */
+	cairo_move_to(cr, 0.0, height-20.5);
+	cairo_line_to(cr, width, height-20.5);
+	cairo_set_line_width(cr, 1.0);
+	cairo_set_source_rgb(cr, 0.0, 0.0, 0.0);
+	cairo_stroke(cr);
+
+	/* Draw major tics (with labels) */
+	t = calc_tic_interval(b->dmax-b->dmin, &nm);
+
+	cairo_set_source_rgb(cr, 0.0, 0.0, 0.0);
+	cairo_set_line_width(cr, 1.0);
+
+	ti = t*trunc(b->dmin/t);
+	for ( ; ti<=b->dmax; ti+=t ) {
+
+		cairo_text_extents_t ext;
+
+		cairo_move_to(cr, ws*(ti-b->dmin), height-20.0);
+		cairo_line_to(cr, ws*(ti-b->dmin), height-12.0);
+		cairo_stroke(cr);
+
+		snprintf(label, 127, "%.1f%s", ti, b->units);
+		cairo_text_extents(cr, label, &ext);
+		cairo_move_to(cr, ws*(ti-b->dmin)-ext.x_advance/2, height-3.0);
+		cairo_show_text(cr, label);
+
+	}
+
+	mt = t / nm;
+
+	cairo_set_source_rgb(cr, 0.0, 0.0, 0.0);
+	cairo_set_line_width(cr, 1.0);
+
+	ti = mt*trunc(b->dmin/mt);
+	for ( ; ti<=b->dmax; ti+=mt ) {
+		cairo_move_to(cr, ws*(ti-b->dmin), height-20.0);
+		cairo_line_to(cr, ws*(ti-b->dmin), height-18.0);
+		cairo_stroke(cr);
+	}
+}
+
+
+static gboolean draw_sig(GtkWidget *da, GdkEventExpose *event, HistoBox *b)
+{
+	int width, height;
+	int i, max;
+	double h_height;
+	cairo_t *cr;
+	double gstep;
+	int *data_p, *data_a, *data_b, *data_c, *data_i, *data_f;
+	int *data_r, *data_h, *data_excl;
+	int start, stop;
+
+	cr = gdk_cairo_create(da->window);
+
+	width = da->allocation.width;
+	height = da->allocation.height;
+	b->width = width;  /* Store for later use when dragging */
+
+	/* Overall background */
+	cairo_rectangle(cr, 0.0, 0.0, width, height);
+	cairo_set_source_rgb(cr, 1.0, 1.0, 1.0);
+	cairo_fill(cr);
+
+	cairo_save(cr);
+
+	cairo_translate(cr, 0.0, height);
+	cairo_scale(cr, 1.0, -1.0);
+
+	data_p = multihistogram_get_data(b->h, CAT_P);
+	data_a = multihistogram_get_data(b->h, CAT_A);
+	data_b = multihistogram_get_data(b->h, CAT_B);
+	data_c = multihistogram_get_data(b->h, CAT_C);
+	data_i = multihistogram_get_data(b->h, CAT_I);
+	data_f = multihistogram_get_data(b->h, CAT_F);
+	data_h = multihistogram_get_data(b->h, CAT_H);
+	data_r = multihistogram_get_data(b->h, CAT_R);
+	data_excl = multihistogram_get_data(b->h, CAT_EXCLUDE);
+
+	max = 0;
+	for ( i=0; i<b->n; i++ ) {
+		int sum;
+		sum = data_p[i] + data_a[i] + data_b[i] + data_c[i]
+		    + data_i[i] + data_f[i] + data_h[i] + data_r[i]
+		    + data_excl[i];
+		if ( sum > max ) max = sum;
+	}
+
+	h_height = height - 20.0;
+	cairo_translate(cr, 0.0, 20.0);
+
+	cairo_scale(cr, width, h_height);
+	gstep = (b->max-b->min)/b->n;
+
+	/* Start with first visible bin */
+	if ( b->dmin > b->min ) {
+		start = (b->dmin - b->min)/gstep;
+		start--;
+	} else {
+		start = 0;
+	}
+	if ( b->dmax < b->max ) {
+		stop = (b->dmax - b->min)/gstep;
+		stop++;
+	} else {
+		stop = b->n;
+	}
+	for ( i=start; i<stop; i++ ) {
+
+		double hp = (double)data_p[i] / max;
+		double ha = (double)data_a[i] / max;
+		double hb = (double)data_b[i] / max;
+		double hc = (double)data_c[i] / max;
+		double hi = (double)data_i[i] / max;
+		double hf = (double)data_f[i] / max;
+		double hh = (double)data_h[i] / max;
+		double hr = (double)data_r[i] / max;
+		double he = (double)data_excl[i] / max;
+		double x = b->min+i*gstep;
+		double x2, w2;
+		double s;
+
+		x2 = (x - b->dmin)/(b->dmax - b->dmin);
+		w2 = gstep/(b->dmax - b->dmin);
+
+		s = 0.0;
+
+		cairo_rectangle(cr, x2, s, w2, hp);
+		set_col(cr, b->parent, CAT_P);
+		cairo_fill(cr);
+		s += hp;
+
+		cairo_rectangle(cr, x2, s, w2, ha);
+		set_col(cr, b->parent, CAT_A);
+		cairo_fill(cr);
+		s += ha;
+
+		cairo_rectangle(cr, x2, s, w2, hb);
+		set_col(cr, b->parent, CAT_B);
+		cairo_fill(cr);
+		s += hb;
+
+		cairo_rectangle(cr, x2, s, w2, hc);
+		set_col(cr, b->parent, CAT_C);
+		cairo_fill(cr);
+		s += hc;
+
+		cairo_rectangle(cr, x2, s, w2, hi);
+		set_col(cr, b->parent, CAT_I);
+		cairo_fill(cr);
+		s += hi;
+
+		cairo_rectangle(cr, x2, s, w2, hf);
+		set_col(cr, b->parent, CAT_F);
+		cairo_fill(cr);
+		s += hf;
+
+		cairo_rectangle(cr, x2, s, w2, hh);
+		set_col(cr, b->parent, CAT_H);
+		cairo_fill(cr);
+		s += hh;
+
+		cairo_rectangle(cr, x2, s, w2, hr);
+		set_col(cr, b->parent, CAT_R);
+		cairo_fill(cr);
+		s += hr;
+
+		cairo_rectangle(cr, x2, s, w2, he);
+		cairo_set_source_rgb(cr, 0.9, 0.9, 0.9);
+		cairo_fill(cr);
+
+	}
+
+	if ( b->show_sel ) {
+		cairo_set_source_rgba(cr, 1.0, 0.0, 0.0, 0.2);
+		cairo_rectangle(cr, (b->sel1-b->dmin)/(b->dmax - b->dmin), 0.0,
+		                    (b->sel2-b->sel1)/(b->dmax - b->dmin), 1.0);
+		cairo_fill(cr);
+	}
+
+	cairo_restore(cr);
+
+	draw_axis(cr, b, width, height);
+
+	cairo_destroy(cr);
+
+	return FALSE;
+}
+
+
+static void centered_text(cairo_t *cr, double x, double sq, const char *t)
+{
+	cairo_text_extents_t ext;
+
+	cairo_set_font_size(cr, sq-5.0);
+	cairo_text_extents(cr, t, &ext);
+
+	cairo_move_to(cr, x+(sq-ext.x_advance)/2.0, sq-(sq-ext.height)/2.0);
+	cairo_set_source_rgb(cr, 1.0, 1.0, 1.0);
+
+	cairo_show_text(cr, t);
+}
+
+
+static gboolean keyconf_sig(GtkWidget *key, GdkEventConfigure *event,
+                            CellWindow *w)
+{
+	gtk_widget_set_size_request(GTK_WIDGET(key), 8*event->height, -1);
+	return FALSE;
+}
+
+
+static gint keyclick_sig(GtkWidget *widget, GdkEventButton *event,
+                         CellWindow *w)
+{
+	int width, cat;
+
+	/* Ignore extra events for double click */
+	if ( event->type != GDK_BUTTON_PRESS ) return FALSE;
+
+	width = widget->allocation.width;
+
+	cat = 8*event->x / width;
+
+	if ( cat == 0 ) {
+		/* Special handling for P so that it doesn't go
+		 * black->black->grey */
+		w->cols_on[cat] = (w->cols_on[cat]+1) % 2;
+	} else {
+		w->cols_on[cat] = (w->cols_on[cat]+1) % 3;
+	}
+
+	gtk_widget_queue_draw(widget);
+	redraw_all(w);
+
+	return TRUE;
+}
+
+
+
+static gboolean keydraw_sig(GtkWidget *da, GdkEventExpose *event, CellWindow *w)
+{
+	int width, height;
+	cairo_t *cr;
+	double x;
+
+	cr = gdk_cairo_create(da->window);
+
+	width = da->allocation.width;
+	height = da->allocation.height;
+
+	/* Overall background */
+	cairo_rectangle(cr, 0.0, 0.0, width, height);
+	cairo_set_source_rgb(cr, 1.0, 1.0, 1.0);
+	cairo_fill(cr);
+
+	x = 0.0;
+	cairo_rectangle(cr, x, 0.0, height, height);
+	set_col(cr, w, CAT_P);
+	cairo_fill(cr);
+	centered_text(cr, x, height, "P");
+
+	x += height;
+	cairo_rectangle(cr, x, 0.0, height, height);
+	set_col(cr, w, CAT_A);
+	cairo_fill(cr);
+	centered_text(cr, x, height, "A");
+
+	x += height;
+	cairo_rectangle(cr, x, 0.0, height, height);
+	set_col(cr, w, CAT_B);
+	cairo_fill(cr);
+	centered_text(cr, x, height, "B");
+
+	x += height;
+	cairo_rectangle(cr, x, 0.0, height, height);
+	set_col(cr, w, CAT_C);
+	cairo_fill(cr);
+	centered_text(cr, x, height, "C");
+
+	x += height;
+	cairo_rectangle(cr, x, 0.0, height, height);
+	set_col(cr, w, CAT_I);
+	cairo_fill(cr);
+	centered_text(cr, x, height, "I");
+
+	x += height;
+	cairo_rectangle(cr, x, 0.0, height, height);
+	set_col(cr, w, CAT_F);
+	cairo_fill(cr);
+	centered_text(cr, x, height, "F");
+
+	x += height;
+	cairo_rectangle(cr, x, 0.0, height, height);
+	set_col(cr, w, CAT_H);
+	cairo_fill(cr);
+	centered_text(cr, x, height, "H");
+
+	x += height;
+	cairo_rectangle(cr, x, 0.0, height, height);
+	set_col(cr, w, CAT_R);
+	cairo_fill(cr);
+	centered_text(cr, x, height, "R");
+
+	return FALSE;
+}
+
+
+static int check_exclude(HistoBox *h, double v)
+{
+	double min, max;
+
+	if ( !h->show_sel ) return 0;
+
+	if ( h->sel1 > h->sel2 ) {
+		min = h->sel2;
+		max = h->sel1;
+	} else {
+		min = h->sel1;
+		max = h->sel2;
+	}
+
+	if ( v < min ) return 1;
+	if ( v > max ) return 1;
+
+	return 0;
+}
+
+
+static void scan_cells(CellWindow *w)
+{
+	int i;
+	UnitCell **cells = w->cells;
+	int n_cells = w->n_cells;
+
+	multihistogram_delete_all_values(w->hist_a->h);
+	multihistogram_delete_all_values(w->hist_b->h);
+	multihistogram_delete_all_values(w->hist_c->h);
+	multihistogram_delete_all_values(w->hist_al->h);
+	multihistogram_delete_all_values(w->hist_be->h);
+	multihistogram_delete_all_values(w->hist_ga->h);
+
+	multihistogram_set_num_bins(w->hist_a->h, w->hist_a->n);
+	multihistogram_set_num_bins(w->hist_b->h, w->hist_b->n);
+	multihistogram_set_num_bins(w->hist_c->h, w->hist_c->n);
+	multihistogram_set_num_bins(w->hist_al->h, w->hist_al->n);
+	multihistogram_set_num_bins(w->hist_be->h, w->hist_be->n);
+	multihistogram_set_num_bins(w->hist_ga->h, w->hist_ga->n);
+
+	for ( i=0; i<n_cells; i++ ) {
+
+		double a, b, c, al, be, ga;
+		int cat, j;
+		int ignore = 0;
+
+		for ( j=0; j<w->n_unique_indms; j++ ) {
+			if ( w->unique_indms[j] == w->indms[i] ) {
+				if ( !w->active_indms[j] ) ignore = 1;
+			}
+		}
+
+		if ( ignore ) continue;
+
+		cell_get_parameters(cells[i], &a, &b, &c, &al, &be, &ga);
+		a *= 1e10;  b *= 1e10;  c *= 1e10;
+		al = rad2deg(al);  be = rad2deg(be);  ga = rad2deg(ga);
+
+		switch ( cell_get_centering(cells[i]) ) {
+			case 'P' : cat = 1<<CAT_P; break;
+			case 'A' : cat = 1<<CAT_A; break;
+			case 'B' : cat = 1<<CAT_B; break;
+			case 'C' : cat = 1<<CAT_C; break;
+			case 'I' : cat = 1<<CAT_I; break;
+			case 'F' : cat = 1<<CAT_F; break;
+			case 'H' : cat = 1<<CAT_H; break;
+			case 'R' : cat = 1<<CAT_R; break;
+			default : abort();
+		}
+
+		if ( check_exclude(w->hist_a, a) ||
+		     check_exclude(w->hist_b, b) ||
+		     check_exclude(w->hist_c, c) ||
+		     check_exclude(w->hist_al, al) ||
+		     check_exclude(w->hist_be, be) ||
+		     check_exclude(w->hist_ga, ga) )
+		{
+			cat = 1<<CAT_EXCLUDE;
+		}
+
+		multihistogram_add_value(w->hist_a->h, a, cat);
+		multihistogram_add_value(w->hist_b->h, b, cat);
+		multihistogram_add_value(w->hist_c->h, c, cat);
+		multihistogram_add_value(w->hist_al->h, al, cat);
+		multihistogram_add_value(w->hist_be->h, be, cat);
+		multihistogram_add_value(w->hist_ga->h, ga, cat);
+
+	}
+}
+
+
+static void check_minmax(HistoBox *h, double val)
+{
+	if ( val > h->max ) h->max = val;
+	if ( val < h->min ) h->min = val;
+}
+
+
+static void set_minmax(HistoBox *h)
+{
+	multihistogram_set_min(h->h, h->min);
+	multihistogram_set_max(h->h, h->max);
+}
+
+
+static void scan_minmax(CellWindow *w)
+{
+	int i;
+
+	for ( i=0; i<w->n_cells; i++ ) {
+
+		double a, b, c, al, be, ga;
+		int j;
+		int found = 0;
+
+		cell_get_parameters(w->cells[i], &a, &b, &c, &al, &be, &ga);
+		a *= 1e10;  b *= 1e10;  c *= 1e10;
+		al = rad2deg(al);  be = rad2deg(be);  ga = rad2deg(ga);
+
+		check_minmax(w->hist_a, a);
+		check_minmax(w->hist_b, b);
+		check_minmax(w->hist_c, c);
+		check_minmax(w->hist_al, al);
+		check_minmax(w->hist_be, be);
+		check_minmax(w->hist_ga, ga);
+
+		for ( j=0; j<w->n_unique_indms; j++ ) {
+			if ( w->indms[i] == w->unique_indms[j] ) {
+				found = 1;
+				break;
+			}
+		}
+		if ( !found ) {
+			if ( w->n_unique_indms > 255 ) {
+				fprintf(stderr, "Too many indexing methods\n");
+			} else {
+				IndexingMethod m = w->indms[i];
+				w->unique_indms[w->n_unique_indms++] = m;
+			}
+		}
+
+	}
+
+	set_minmax(w->hist_a);
+	set_minmax(w->hist_b);
+	set_minmax(w->hist_c);
+	set_minmax(w->hist_al);
+	set_minmax(w->hist_be);
+	set_minmax(w->hist_ga);
+}
+
+
+static void add_ui_sig(GtkUIManager *ui, GtkWidget *widget,
+                       GtkContainer *container)
+{
+	gtk_box_pack_start(GTK_BOX(container), widget, FALSE, FALSE, 0);
+	if ( GTK_IS_TOOLBAR(widget) ) {
+		gtk_toolbar_set_show_arrow(GTK_TOOLBAR(widget), TRUE);
+	}
+}
+
+
+static gint quit_sig(GtkWidget *widget, CellWindow *w)
+{
+	gtk_main_quit();
+	return FALSE;
+}
+
+
+static gint about_sig(GtkWidget *widget, CellWindow *w)
+{
+	GtkWidget *window;
+
+	const gchar *authors[] = {
+		"Thomas White <taw@physics.org>",
+		NULL
+	};
+
+	window = gtk_about_dialog_new();
+	gtk_window_set_transient_for(GTK_WINDOW(window), GTK_WINDOW(w->window));
+
+	gtk_about_dialog_set_name(GTK_ABOUT_DIALOG(window),
+	        "Unit Cell Explorer");
+	gtk_about_dialog_set_version(GTK_ABOUT_DIALOG(window), "0.0.1");
+	gtk_about_dialog_set_copyright(GTK_ABOUT_DIALOG(window),
+		"© 2014 Deutsches Elektronen-Synchrotron DESY, "
+		"a research centre of the Helmholtz Association.");
+	gtk_about_dialog_set_comments(GTK_ABOUT_DIALOG(window),
+		"Examine unit cell distributions");
+	gtk_about_dialog_set_website(GTK_ABOUT_DIALOG(window),
+		"http://www.desy.de/~twhite/crystfel");
+	gtk_about_dialog_set_authors(GTK_ABOUT_DIALOG(window), authors);
+
+	g_signal_connect(window, "response", G_CALLBACK(gtk_widget_destroy),
+			 NULL);
+
+	gtk_widget_show_all(window);
+
+	return 0;
+}
+
+
+static void add_menu_bar(CellWindow *w, GtkWidget *vbox)
+{
+	GError *error = NULL;
+
+	const char *ui = "<ui> <menubar name=\"cellwindow\">"
+		"<menu name=\"file\" action=\"FileAction\">"
+		"	<menuitem name=\"quit\" action=\"QuitAction\" />"
+		"</menu>"
+		"<menu name=\"help\" action=\"HelpAction\">"
+		"	<menuitem name=\"about\" action=\"AboutAction\" />"
+		"</menu>"
+		"</menubar></ui>";
+
+	GtkActionEntry entries[] = {
+
+		{ "FileAction", NULL, "_File", NULL, NULL, NULL },
+		{ "QuitAction", GTK_STOCK_QUIT, "_Quit", NULL, NULL,
+			G_CALLBACK(quit_sig) },
+
+		{ "HelpAction", NULL, "_Help", NULL, NULL, NULL },
+		{ "AboutAction", GTK_STOCK_ABOUT, "_About", NULL, NULL,
+			G_CALLBACK(about_sig) },
+
+	};
+	guint n_entries = G_N_ELEMENTS(entries);
+
+	w->action_group = gtk_action_group_new("cellwindow");
+	gtk_action_group_add_actions(w->action_group, entries, n_entries, w);
+
+	w->ui = gtk_ui_manager_new();
+	gtk_ui_manager_insert_action_group(w->ui, w->action_group, 0);
+	g_signal_connect(w->ui, "add_widget", G_CALLBACK(add_ui_sig), vbox);
+	if ( gtk_ui_manager_add_ui_from_string(w->ui, ui, -1, &error) == 0 )
+	{
+		fprintf(stderr, "Error loading message window menu bar: %s\n",
+			error->message);
+		return;
+	}
+
+	gtk_window_add_accel_group(GTK_WINDOW(w->window),
+				   gtk_ui_manager_get_accel_group(w->ui));
+	gtk_ui_manager_ensure_update(w->ui);
+}
+
+
+static void reset_axes(HistoBox *h)
+{
+	/* Fudge factor makes sure that the tic interval calculation falls
+	 * clearly on one side or other of its tests */
+	h->dmin = (nearbyint(h->min/10.0)-1.001)*10.0;
+	h->dmax = (nearbyint(h->max/10.0)+1.001)*10.0;
+
+}
+
+
+static gint press_sig(GtkWidget *widget, GdkEventButton *event, HistoBox *h)
+{
+	h->press_x = event->x;
+	h->press_y = event->y;
+	h->press_min = h->dmin;
+	if ( event->state & GDK_SHIFT_MASK ) {
+		h->sel = 1;
+		h->show_sel = 0;
+	} else {
+		h->sel = 0;
+	}
+	gtk_widget_grab_focus(GTK_WIDGET(h->da));
+	return TRUE;
+}
+
+
+static gint release_sig(GtkWidget *widget, GdkEventButton *event, HistoBox *h)
+{
+	if ( h->sel ) {
+		scan_cells(h->parent);
+		redraw_all(h->parent);
+	}
+	return TRUE;
+}
+
+
+static gint motion_sig(GtkWidget *da, GdkEventMotion *event, HistoBox *h)
+{
+	double span = h->dmax - h->dmin;
+
+	if ( !h->sel ) {
+
+		h->dmin = h->press_min - span*(event->x - h->press_x)/h->width;
+		h->dmax = h->dmin + span;
+
+	} else {
+
+		h->sel1 = h->dmin + span*h->press_x / h->width;
+		h->sel2 = h->dmin + span*event->x / h->width;
+		h->show_sel = 1;
+
+	}
+
+	gtk_widget_queue_draw(h->da);
+
+	if ( event->is_hint ) gdk_window_get_pointer(da->window,
+	                                             NULL, NULL, NULL);
+	return TRUE;
+}
+
+
+static gint scroll_sig(GtkWidget *widget, GdkEventScroll *event, HistoBox *h)
+{
+	double span = h->dmax - h->dmin;
+	double pos = h->dmin + span*event->x/h->width;;
+
+	if ( event->direction == GDK_SCROLL_UP ) {
+		h->dmin = pos - (pos-h->dmin)*0.9;
+		h->dmax = pos + (h->dmax-pos)*0.9;
+	} else if ( event->direction == GDK_SCROLL_DOWN ) {
+		h->dmin = pos - (pos-h->dmin)*1.1;
+		h->dmax = pos + (h->dmax-pos)*1.1;
+	} else {
+		return FALSE;
+	}
+
+	gtk_widget_grab_focus(GTK_WIDGET(h->da));
+	gtk_widget_queue_draw(h->da);
+
+	return TRUE;
+}
+
+
+static gint keypress_sig(GtkWidget *widget, GdkEventKey *event, HistoBox *h)
+{
+	if ( (event->keyval == GDK_R) || (event->keyval == GDK_r) ) {
+		reset_axes(h);
+		gtk_widget_queue_draw(h->da);
+	}
+
+	/* I'm too lazy to press shift */
+	if ( (event->keyval == GDK_plus) || (event->keyval == GDK_equal) ) {
+		h->n *= 2;
+		scan_cells(h->parent);
+		gtk_widget_queue_draw(h->da);
+	}
+
+	if ( (event->keyval == GDK_minus) && (h->n > 1) ) {
+		h->n /= 2;
+		scan_cells(h->parent);
+		gtk_widget_queue_draw(h->da);
+	}
+
+	return FALSE;
+}
+
+
+static HistoBox *histobox_new(CellWindow *w, const char *units)
+{
+	HistoBox *h;
+
+	h = calloc(1, sizeof(HistoBox));
+	if ( h == NULL ) return NULL;
+
+	h->show_sel = 0;
+	h->units = units;
+	h->parent = w;
+	h->min = +INFINITY;
+	h->max = -INFINITY;
+	h->n = 100;  /* Number of bins */
+
+	h->h = multihistogram_new();
+
+	h->da = gtk_drawing_area_new();
+
+	g_object_set(G_OBJECT(h->da), "can-focus", TRUE, NULL);
+	gtk_widget_set_size_request(GTK_WIDGET(h->da), 400, 200);
+	gtk_widget_add_events(GTK_WIDGET(h->da),
+	                      GDK_BUTTON_PRESS_MASK
+	                      | GDK_BUTTON_RELEASE_MASK
+	                      | GDK_BUTTON1_MOTION_MASK
+	                      | GDK_POINTER_MOTION_HINT_MASK
+	                      | GDK_SCROLL_MASK
+	                      | GDK_KEY_PRESS_MASK);
+
+	g_signal_connect(G_OBJECT(h->da), "expose_event", G_CALLBACK(draw_sig),
+	                 h);
+	g_signal_connect(G_OBJECT(h->da), "button-press-event",
+	                 G_CALLBACK(press_sig), h);
+	g_signal_connect(G_OBJECT(h->da), "button-release-event",
+	                 G_CALLBACK(release_sig), h);
+	g_signal_connect(G_OBJECT(h->da), "motion-notify-event",
+	                 G_CALLBACK(motion_sig), h);
+	g_signal_connect(G_OBJECT(h->da), "scroll-event",
+	                 G_CALLBACK(scroll_sig), h);
+	g_signal_connect(G_OBJECT(h->da), "key-press-event",
+	                 G_CALLBACK(keypress_sig), h);
+
+	return h;
+}
+
+
+struct toggle_method
+{
+	int *active;
+	CellWindow *w;
+};
+
+
+static gint indm_toggle_sig(GtkWidget *widget, struct toggle_method *tm)
+{
+	*tm->active = gtk_toggle_button_get_active(GTK_TOGGLE_BUTTON(widget));
+	scan_cells(tm->w);
+	redraw_all(tm->w);
+	return FALSE;
+}
+
+
+static void indexing_method_list(CellWindow *w, GtkWidget *vbox)
+{
+	GtkWidget *key;
+	int j;
+
+	w->indmlist = gtk_hbox_new(FALSE, 5.0);
+	gtk_box_pack_start(GTK_BOX(vbox), w->indmlist, FALSE, FALSE, 5.0);
+	gtk_box_pack_start(GTK_BOX(w->indmlist),
+	                   gtk_label_new("Show results from:"),
+	                   FALSE, FALSE, 5.0);
+
+	key = gtk_drawing_area_new();
+	gtk_box_pack_end(GTK_BOX(w->indmlist), key, FALSE, FALSE, 5.0);
+	gtk_widget_add_events(GTK_WIDGET(key), GDK_BUTTON_PRESS_MASK);
+	g_signal_connect(G_OBJECT(key), "expose_event", G_CALLBACK(keydraw_sig),
+	                 w);
+	g_signal_connect(G_OBJECT(key), "configure-event",
+	                 G_CALLBACK(keyconf_sig), w);
+	g_signal_connect(G_OBJECT(key), "button-press-event",
+	                 G_CALLBACK(keyclick_sig), w);
+
+	for ( j=0; j<w->n_unique_indms; j++ ) {
+
+		GtkWidget *button;
+		char *label;
+		struct toggle_method *tm = malloc(sizeof(struct toggle_method));
+
+		if ( tm == NULL ) {
+			fprintf(stderr, "Failed to allocate toggle method\n");
+			continue;
+		}
+
+		label = indexer_str(w->unique_indms[j]);
+		button = gtk_toggle_button_new_with_label(label);
+		free(label);
+
+		gtk_box_pack_start(GTK_BOX(w->indmlist), button,
+	                           FALSE, FALSE, 5.0);
+
+		gtk_toggle_button_set_active(GTK_TOGGLE_BUTTON(button), TRUE);
+
+		tm->w = w;
+		tm->active = &w->active_indms[j];
+		g_signal_connect(G_OBJECT(button), "toggled",
+		                 G_CALLBACK(indm_toggle_sig), tm);
+
+		w->active_indms[j] = 1;
+
+	}
+
+
+}
+
+
+int main(int argc, char *argv[])
+{
+	int c;
+	Stream *st;
+	int max_cells = 0;
+	char *stream_filename;
+	GtkWidget *box, *vbox;
+	char title[1024];
+	char *bn;
+	CellWindow w;
+	int n_chunks = 0;
+	int i;
+
+	/* Long options */
+	const struct option longopts[] = {
+		{"help",               0, NULL,               'h'},
+		{0, 0, NULL, 0}
+	};
+
+	/* Short options */
+	while ((c = getopt_long(argc, argv, "h",
+	                        longopts, NULL)) != -1) {
+
+		switch (c) {
+
+			case 'h' :
+			show_help(argv[0]);
+			return 0;
+
+			default :
+			return 1;
+
+		}
+
+	}
+
+	/* This isn't great, but necessary to make the command-line UI and file
+	 * formats consistent with the other programs, which all use the C
+	 * locale.  Better would be to have all the programs call
+	 * setlocale(LC_ALL, "") and use the C locale temporarily when reading
+	 * or writing a stream, reflection file, geometry file etc. */
+	gtk_disable_setlocale();
+
+	gtk_init(&argc, &argv);
+
+	if ( argc != (optind+1) ) {
+		fprintf(stderr, "Please provide exactly one stream filename.\n");
+		return 1;
+	}
+	stream_filename = strdup(argv[optind]);
+	st = open_stream_for_read(stream_filename);
+	if ( st == NULL ) {
+		fprintf(stderr, "Failed to open '%s'\n", stream_filename);
+		return 1;
+	}
+
+	w.cells = NULL;
+	w.indms = NULL;
+	w.n_cells = 0;
+	do {
+
+		struct image cur;
+		int i;
+
+		cur.det = NULL;
+
+		if ( read_chunk(st, &cur) != 0 ) {
+			break;
+		}
+
+		image_feature_list_free(cur.features);
+
+		for ( i=0; i<cur.n_crystals; i++ ) {
+
+			RefList *cr_refl;
+			Crystal *cr;
+
+			cr = cur.crystals[i];
+
+			cr_refl = crystal_get_reflections(cr);
+			reflist_free(cr_refl);
+
+			if ( w.n_cells == max_cells ) {
+
+				UnitCell **cells_new;
+				IndexingMethod *indms_new;
+				size_t nsz;
+
+
+				nsz = (max_cells+1024)*sizeof(UnitCell *);
+				cells_new = realloc(w.cells, nsz);
+				if ( cells_new == NULL ) {
+					fprintf(stderr, "Failed to allocate "
+					        "memory for cells.\n");
+					break;
+				}
+
+				nsz = (max_cells+1024)*sizeof(IndexingMethod);
+				indms_new = realloc(w.indms, nsz);
+				if ( indms_new == NULL ) {
+					fprintf(stderr, "Failed to allocate "
+					        "memory for methods.\n");
+					break;
+				}
+
+				max_cells += 1024;
+				w.cells = cells_new;
+				w.indms = indms_new;
+
+			}
+
+			w.cells[w.n_cells] = crystal_get_cell(cr);
+			w.indms[w.n_cells] = cur.indexed_by;
+			w.n_cells++;
+
+			crystal_free(cr);
+
+		}
+
+		fprintf(stderr, "Loaded %i cells from %i chunks\r", w.n_cells,
+		        ++n_chunks);
+
+	} while ( 1 );
+
+	fprintf(stderr, "\n");
+
+	close_stream(st);
+
+	w.cols_on[0] = 1;
+	for ( i=1; i<8; i++ ) w.cols_on[i] = 2;
+
+	w.hist_a = histobox_new(&w, " A");
+	w.hist_b = histobox_new(&w, " A");
+	w.hist_c = histobox_new(&w, " A");
+	w.hist_al = histobox_new(&w, "°");
+	w.hist_be = histobox_new(&w, "°");
+	w.hist_ga = histobox_new(&w, "°");
+
+	w.n_unique_indms = 0;
+
+	scan_minmax(&w);
+	scan_cells(&w);
+	reset_axes(w.hist_a);
+	reset_axes(w.hist_b);
+	reset_axes(w.hist_c);
+	reset_axes(w.hist_al);
+	reset_axes(w.hist_be);
+	reset_axes(w.hist_ga);
+
+	w.window = gtk_window_new(GTK_WINDOW_TOPLEVEL);
+	bn = safe_basename(stream_filename);
+	snprintf(title, 1023, "%s - Unit Cell Explorer", bn);
+	free(bn);
+	gtk_window_set_title(GTK_WINDOW(w.window), title);
+	g_signal_connect(G_OBJECT(w.window), "destroy", G_CALLBACK(destroy_sig),
+	                 &w);
+
+	vbox = gtk_vbox_new(FALSE, 0.0);
+	gtk_container_add(GTK_CONTAINER(w.window), vbox);
+	add_menu_bar(&w, vbox);
+
+	indexing_method_list(&w, vbox);
+
+	box = gtk_hbox_new(FALSE, 0.0);
+	gtk_box_pack_start(GTK_BOX(vbox), box, TRUE, TRUE, 5.0);
+
+	gtk_box_pack_start(GTK_BOX(box), w.hist_a->da, TRUE, TRUE, 5.0);
+	gtk_box_pack_start(GTK_BOX(box), w.hist_b->da, TRUE, TRUE, 5.0);
+	gtk_box_pack_start(GTK_BOX(box), w.hist_c->da, TRUE, TRUE, 5.0);
+
+	box = gtk_hbox_new(FALSE, 0.0);
+	gtk_box_pack_start(GTK_BOX(vbox), box, TRUE, TRUE, 5.0);
+
+	gtk_box_pack_start(GTK_BOX(box), w.hist_al->da, TRUE, TRUE, 5.0);
+	gtk_box_pack_start(GTK_BOX(box), w.hist_be->da, TRUE, TRUE, 5.0);
+	gtk_box_pack_start(GTK_BOX(box), w.hist_ga->da, TRUE, TRUE, 5.0);
+
+	gtk_widget_show_all(w.window);
+	gtk_main();
+
+	return 0;
+}