From b4ed2878053cbeadf009c6cd08baad7de2adfc10 Mon Sep 17 00:00:00 2001
From: plusik <plusik@10.5.201.65>
Date: Wed, 14 Dec 2016 10:39:03 -0500
Subject: [PATCH] Brought code up-to-date with MSDK

---
 pom.xml                                                      | 2 +-
 .../plots/msspectrum/MsSpectrumPlotWindowController.java     | 5 +++--
 2 files changed, 4 insertions(+), 3 deletions(-)

diff --git a/pom.xml b/pom.xml
index 6452a23..8e2dea4 100644
--- a/pom.xml
+++ b/pom.xml
@@ -180,7 +180,7 @@
 		<dependency>
 			<groupId>io.github.msdk</groupId>
 			<artifactId>msdk-all</artifactId>
-			<version>0.0.7-SNAPSHOT</version>
+			<version>0.0.8-SNAPSHOT</version>
 		</dependency>
 
 	</dependencies>
diff --git a/src/main/java/io/github/mzmine/modules/plots/msspectrum/MsSpectrumPlotWindowController.java b/src/main/java/io/github/mzmine/modules/plots/msspectrum/MsSpectrumPlotWindowController.java
index 3ee3400..1ee7a8c 100644
--- a/src/main/java/io/github/mzmine/modules/plots/msspectrum/MsSpectrumPlotWindowController.java
+++ b/src/main/java/io/github/mzmine/modules/plots/msspectrum/MsSpectrumPlotWindowController.java
@@ -64,7 +64,7 @@
 import io.github.msdk.datamodel.rawdata.MsFunction;
 import io.github.msdk.datamodel.rawdata.MsScan;
 import io.github.msdk.datamodel.rawdata.RawDataFile;
-import io.github.msdk.io.mgf.MgfExportAlgorithm;
+import io.github.msdk.io.mgf.MgfFileExportMethod;
 import io.github.msdk.io.msp.MspExportAlgorithm;
 import io.github.msdk.io.mzml.MzMLFileExportMethod;
 import io.github.msdk.io.txt.TxtExportAlgorithm;
@@ -846,7 +846,8 @@ public void handleExportMGF(Event event) {
         final File finalFile = file;
         new Thread(() -> {
             try {
-                MgfExportAlgorithm.exportSpectra(finalFile, spectra);
+                MgfFileExportMethod mgfEx = new MgfFileExportMethod(spectra, finalFile);
+                mgfEx.execute();
             } catch (Exception e) {
                 MZmineGUI.displayMessage("Unable to export: " + e.getMessage());
                 e.printStackTrace();