Index: /trunk/ppSub/src/ppSubMatchPSFs.c
===================================================================
--- /trunk/ppSub/src/ppSubMatchPSFs.c	(revision 24333)
+++ /trunk/ppSub/src/ppSubMatchPSFs.c	(revision 24334)
@@ -21,4 +21,21 @@
 
 #include "ppSub.h"
+
+// Normalise a region on an image
+static void normaliseRegion(psImage *image, // Image to normalise
+                            const psRegion *region, // Region of image to normalise
+                            float norm  // Normalisation
+                            )
+{
+    if (!image) {
+        return;
+    }
+    psAssert(region, "Expect region");
+    psImage *subImage = psImageSubset(image, *region); // Sub-image
+    psBinaryOp(subImage, subImage, "*", psScalarAlloc(norm, PS_TYPE_F32));
+    psFree(subImage);
+    return;
+}
+
 
 bool ppSubMatchPSFs(ppSubData *data)
@@ -177,4 +194,49 @@
     }
 
+    // Need to be careful with the normalisation
+    // We will normalise everything to the normalisation of the *input* image
+    {
+        // Since the entries are MULTI, we have to retrieve them differently
+        psMetadataIterator *regIter = psMetadataIteratorAlloc(inConv->analysis, PS_LIST_HEAD,
+                                                              "^" PM_SUBTRACTION_ANALYSIS_REGION "$");
+        psMetadataIterator *modeIter = psMetadataIteratorAlloc(inConv->analysis, PS_LIST_HEAD,
+                                                              "^" PM_SUBTRACTION_ANALYSIS_MODE "$");
+        psMetadataIterator *normIter = psMetadataIteratorAlloc(inConv->analysis, PS_LIST_HEAD,
+                                                              "^" PM_SUBTRACTION_ANALYSIS_NORM "$");
+        psMetadataItem *regItem;        // Item with region
+        while ((regItem = psMetadataGetAndIncrement(regIter))) {
+            psAssert(regItem->type == PS_DATA_REGION && regItem->data.V, "Expect region type");
+            psRegion *region = regItem->data.V; // Region of interest
+            psMetadataItem *modeItem = psMetadataGetAndIncrement(modeIter); // Item with mode
+            psAssert(modeItem && modeItem->type == PS_TYPE_S32, "Expect subtraction mode");
+            pmSubtractionMode mode = modeItem->data.S32; // Subtraction mode
+            psMetadataItem *normItem = psMetadataGetAndIncrement(normIter); // Item with normalisation
+            psAssert(normItem && normItem->type == PS_TYPE_F32 && isfinite(normItem->data.F32),
+                     "Expect normalisation");
+            float norm = normItem->data.F32; // Normalisation
+
+            switch (mode) {
+              case PM_SUBTRACTION_MODE_1: // Convolved the input to match template
+              case PM_SUBTRACTION_MODE_DUAL: // Convolved both; template should have flux conserved
+                psLogMsg("ppSub", PS_LOG_INFO, "Correcting image for normalisation of %f\n", norm);
+                normaliseRegion(inConv->image, region, 1.0 / norm);
+                normaliseRegion(refConv->image, region, 1.0 / norm);
+                normaliseRegion(inConv->variance, region, 1.0 / PS_SQR(norm));
+                normaliseRegion(refConv->variance, region, 1.0 / PS_SQR(norm));
+                break;
+              case PM_SUBTRACTION_MODE_2:       // Convolved the template to match input
+                // We're already happy!
+                psLogMsg("ppSub", PS_LOG_INFO, "Image normalisation is correct\n");
+                break;
+              default:
+                psAbort("Invalid subtraction mode: %x", mode);
+            }
+        }
+        psFree(regIter);
+        psFree(modeIter);
+        psFree(normIter);
+    }
+
+
     pmConceptsCopyFPA(inConv->parent->parent->parent, inRO->parent->parent->parent, true, true);
     pmConceptsCopyFPA(refConv->parent->parent->parent, refRO->parent->parent->parent, true, true);