Move contents of intensities.{c,h} to peaks.{c,h}

1 files changed, 0 insertions, 149 deletions

diff --git a/src/intensities.c b/src/intensities.c
deleted file mode 100644
index b0eef542..00000000
--- a/src/intensities.c
+++ /dev/null
@@ -1,149 +0,0 @@
-/*
- * intensities.c
- *
- * Extract intensities from patterns
- *
- * (c) 2006-2010 Thomas White <taw@physics.org>
- *
- * Part of CrystFEL - crystallography with a FEL
- *
- */
-
-
-#include <stdlib.h>
-#include <math.h>
-#include <stdio.h>
-#include <assert.h>
-
-#include "image.h"
-#include "intensities.h"
-#include "cell.h"
-#include "sfac.h"
-#include "diffraction.h"
-
-
-#define MAX_HITS (1024)
-
-
-struct reflhit {
-	signed int h;
-	signed int k;
-	signed int l;
-	double min_distance;
-	int x;
-	int y;
-};
-
-
-static double sum_nearby_points(float *data, int width, int x, int y)
-{
-	int dx, dy;
-	double intensity = 0;
-
-	for ( dx=-3; dx<=3; dx++ ) {
-	for ( dy=-3; dy<=3; dy++ ) {
-		intensity += data[(x+dx) + width*(y+dy)];
-	}
-	}
-
-	return intensity;
-}
-
-
-void output_intensities(struct image *image, UnitCell *cell)
-{
-	int x, y;
-	double ax, ay, az;
-	double bx, by, bz;
-	double cx, cy, cz;
-	struct reflhit hits[MAX_HITS];
-	int n_hits = 0;
-	int i;
-
-	cell_get_cartesian(cell, &ax, &ay, &az, &bx, &by, &bz, &cx, &cy, &cz);
-
-	for ( x=0; x<image->width; x++ ) {
-	for ( y=0; y<image->height; y++ ) {
-
-		double hd, kd, ld;  /* Indices with decimal places */
-		double dh, dk, dl;  /* Distances in h,k,l directions */
-		signed int h, k, l;
-		struct rvec q;
-		double dist;
-		int found = 0;
-		int j;
-
-		q = get_q(image, x, y, 1, NULL, 1.0/image->lambda);
-
-		hd = q.u * ax + q.v * ay + q.w * az;
-		kd = q.u * bx + q.v * by + q.w * bz;
-		ld = q.u * cx + q.v * cy + q.w * cz;
-
-		h = (signed int)rint(hd);
-		k = (signed int)rint(kd);
-		l = (signed int)rint(ld);
-
-		dh = hd - h;
-		dk = kd - k;
-		dl = ld - l;
-		dist = sqrt(pow(dh, 2.0) + pow(dk, 2.0) + pow(dl, 2.0));
-		if ( dist > 0.1 ) continue;
-
-		for ( j=0; j<n_hits; j++ ) {
-			if ( (hits[j].h == h) && (hits[j].k == k)
-			                      && (hits[j].l == l) ) {
-
-				if ( dist < hits[j].min_distance ) {
-					hits[j].min_distance = dist;
-					hits[j].x = x;
-					hits[j].y = y;
-				}
-
-				found = 1;
-
-			}
-		}
-
-		if ( !found ) {
-			hits[n_hits].min_distance = dist;
-			hits[n_hits].x = x;
-			hits[n_hits].y = y;
-			hits[n_hits].h = h;
-			hits[n_hits].k = k;
-			hits[n_hits].l = l;
-			n_hits++;
-			assert(n_hits < MAX_HITS);
-		}
-
-	}
-	}
-
-	STATUS("Found %i reflections\n", n_hits);
-
-	/* Explicit printf() used here (not normally allowed) because
-	 * we really want to output to stdout */
-	printf("New pattern: %7.5f %7.5f %7.5f %7.5f\n",
-	       image->orientation.w, image->orientation.x,
-	       image->orientation.y, image->orientation.z);
-	for ( i=0; i<n_hits; i++ ) {
-
-		double intensity;
-
-		/* Bounds check */
-		if ( hits[i].x + 3 >= image->width ) continue;
-		if ( hits[i].x - 3 < 0 ) continue;
-		if ( hits[i].y + 3 >= image->height ) continue;
-		if ( hits[i].y - 3 < 0 ) continue;
-
-		intensity = sum_nearby_points(image->data, image->width,
-		                              hits[i].x, hits[i].y);
-
-		printf("%3i %3i %3i %6f (at %i,%i)\n",
-		       hits[i].h, hits[i].k, hits[i].l, intensity,
-		       hits[i].x, hits[i].y);
-
-	}
-
-	/* Blank line at end */
-	printf("\n");
-}