From 74a1b4a0061dad5edfa4befeaa9b0f00c5eff438 Mon Sep 17 00:00:00 2001
From: Piotr Gawron <piotr.gawron@uni.lu>
Date: Fri, 5 Oct 2018 12:08:22 +0200
Subject: [PATCH] when reaction without index is encountered additional error
handling is added
---
.../converter/model/celldesigner/reaction/ReactionFromXml.java | 3 +++
1 file changed, 3 insertions(+)
diff --git a/converter-CellDesigner/src/main/java/lcsb/mapviewer/converter/model/celldesigner/reaction/ReactionFromXml.java b/converter-CellDesigner/src/main/java/lcsb/mapviewer/converter/model/celldesigner/reaction/ReactionFromXml.java
index d174149dbd..3a0f31449b 100644
--- a/converter-CellDesigner/src/main/java/lcsb/mapviewer/converter/model/celldesigner/reaction/ReactionFromXml.java
+++ b/converter-CellDesigner/src/main/java/lcsb/mapviewer/converter/model/celldesigner/reaction/ReactionFromXml.java
@@ -1105,6 +1105,9 @@ public class ReactionFromXml extends XmlParser {
// but sometimes there is no information about index...
if (index == null) {
index = 0;
+ // remove collinear points (because just by chance we can pickup the wrong
+ // segment which is too small)
+ ld = PolylineDataFactory.removeCollinearPoints(ld);
}
startPoint = reactantConverter.getAnchorPointCoordinates(reactant.getElement(), anchorsByNodes.get(reactant), ld);
endPoint = productConverter.getAnchorPointCoordinates(product.getElement(), anchorsByNodes.get(product),
--
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