From 2977589d2201ade9aa02289a54359288af2ff16e Mon Sep 17 00:00:00 2001
From: Thomas White <taw@physics.org>
Date: Mon, 27 May 2013 17:24:58 +0200
Subject: Fix ReAx stack corruption

---
 libcrystfel/src/index.c |  3 ++-
 libcrystfel/src/reax.c  | 13 +++++++++----
 libcrystfel/src/reax.h  |  4 ++--
 3 files changed, 13 insertions(+), 7 deletions(-)

(limited to 'libcrystfel')

diff --git a/libcrystfel/src/index.c b/libcrystfel/src/index.c
index bd187cf5..8307778d 100644
--- a/libcrystfel/src/index.c
+++ b/libcrystfel/src/index.c
@@ -214,6 +214,7 @@ static int try_indexer(struct image *image, IndexingMethod indm,
 	switch ( indm & INDEXING_METHOD_MASK ) {
 
 		case INDEXING_NONE :
+		return 0;
 		break;
 
 		case INDEXING_DIRAX :
@@ -229,7 +230,7 @@ static int try_indexer(struct image *image, IndexingMethod indm,
 		break;
 
 		case INDEXING_REAX :
-		return reax_index(image, ipriv);
+		return reax_index(ipriv, image);
 		break;
 
 		case INDEXING_GRAINSPOTTER :
diff --git a/libcrystfel/src/reax.c b/libcrystfel/src/reax.c
index 112d91fa..2a599b40 100644
--- a/libcrystfel/src/reax.c
+++ b/libcrystfel/src/reax.c
@@ -48,6 +48,7 @@
 #include "cell.h"
 #include "cell-utils.h"
 #include "index.h"
+#include "reax.h"
 
 
 /* Minimum number of standard deviations above the mean a peak must be in the
@@ -109,6 +110,7 @@ struct reax_private
 	struct dvec *directions;
 	int n_dir;
 	double angular_inc;
+	UnitCell *cell;
 
 	double *fft_in;
 	fftw_complex *fft_out;
@@ -1040,7 +1042,7 @@ static void assemble_cells_from_candidates(struct image *image,
 }
 
 
-void reax_index(IndexingPrivate *pp, struct image *image, UnitCell *cell)
+int reax_index(IndexingPrivate *pp, struct image *image)
 {
 	struct reax_private *p;
 	double *fft_in;
@@ -1060,10 +1062,10 @@ void reax_index(IndexingPrivate *pp, struct image *image, UnitCell *cell)
 	if ( pmax < 1e4 ) {
 		fftw_free(fft_in);
 		fftw_free(fft_out);
-		return;
+		return 0;
 	}
 
-	s = search_all_axes(cell, pmax);
+	s = search_all_axes(p->cell, pmax);
 	find_candidates(p, image->features, pmax, fft_in, fft_out, s,
 	                NULL, image->det);
 
@@ -1071,7 +1073,7 @@ void reax_index(IndexingPrivate *pp, struct image *image, UnitCell *cell)
 //	                        fft_in, fft_out, p->plan, smin, smax,
 //	                        image->det, p);
 
-	assemble_cells_from_candidates(image, s, cell, p);
+	assemble_cells_from_candidates(image, s, p->cell, p);
 
 	for ( i=0; i<s->n_search; i++ ) {
 		free(s->search[i].cand);
@@ -1080,6 +1082,7 @@ void reax_index(IndexingPrivate *pp, struct image *image, UnitCell *cell)
 	free(s);
 	fftw_free(fft_in);
 	fftw_free(fft_out);
+	return 1;
 }
 
 
@@ -1099,6 +1102,8 @@ IndexingPrivate *reax_prepare(IndexingMethod *indm, UnitCell *cell,
 	p = calloc(1, sizeof(*p));
 	if ( p == NULL ) return NULL;
 
+	p->cell = cell;
+
 	/* Flags that ReAx knows about */
 	*indm &= INDEXING_METHOD_MASK | INDEXING_CHECK_PEAKS;
 
diff --git a/libcrystfel/src/reax.h b/libcrystfel/src/reax.h
index f1c57e6c..1b96bd5d 100644
--- a/libcrystfel/src/reax.h
+++ b/libcrystfel/src/reax.h
@@ -46,7 +46,7 @@ extern IndexingPrivate *reax_prepare(IndexingMethod *indm, UnitCell *cell,
 
 extern void reax_cleanup(IndexingPrivate *pp);
 
-extern int reax_index(struct image *image, IndexingPrivate *p);
+extern int reax_index(IndexingPrivate *pp, struct image *image);
 
 #else /* HAVE_FFTW */
 
@@ -61,7 +61,7 @@ static void reax_cleanup(IndexingPrivate *pp)
 {
 }
 
-static int reax_index(struct image *image, IndexingPrivate *p)
+static int reax_index(IndexingPrivate *pp, struct image *image);
 {
 }
 
-- 
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