From 1c4fc8c9254b3a815006c445c9b764a6b3aef35c Mon Sep 17 00:00:00 2001
From: Michael Menzel <michael.menzel@mni.thm.de>
Date: Wed, 19 Jun 2019 13:13:27 +0200
Subject: [PATCH] The custom track files folder is now a optional third
 parameter when starting the backend.

---
 .../java/de/thm/genomeData/tracks/TrackFactory.java | 13 +++++++++++--
 1 file changed, 11 insertions(+), 2 deletions(-)

diff --git a/backend/src/main/java/de/thm/genomeData/tracks/TrackFactory.java b/backend/src/main/java/de/thm/genomeData/tracks/TrackFactory.java
index 500cbdd5..d2e45326 100644
--- a/backend/src/main/java/de/thm/genomeData/tracks/TrackFactory.java
+++ b/backend/src/main/java/de/thm/genomeData/tracks/TrackFactory.java
@@ -20,6 +20,7 @@ import de.thm.exception.NoTracksLeftException;
 import de.thm.genomeData.sql.DBConnector;
 import de.thm.misc.ChromosomSizes;
 import de.thm.misc.Genome;
+import de.thm.run.BackendServer;
 import org.slf4j.Logger;
 import org.slf4j.LoggerFactory;
 
@@ -144,11 +145,19 @@ public final class TrackFactory {
         if (System.getenv("HOME").contains("menzel")) {
             try {
 
-                Files.walk(Paths.get("/home/menzel/Desktop/THM/promotion/enhort/dat/stefan/custom"))
+                String customtrackpath;
+
+                if (System.getenv("HOME").contains("menzel")) {
+                    customtrackpath = "/home/menzel/Desktop/THM/promotion/enhort/dat/stefan/custom";
+                } else {
+                    customtrackpath = BackendServer.customtrackpath;
+                }
+
+                Files.walk(Paths.get(customtrackpath))
                .filter(Files::isRegularFile)
                .filter(f -> f.getFileName().toString().endsWith(".bed"))
                .forEach(f -> customTracks.add(new TrackEntry(f.getFileName().toString(),"Custom track: " + f.getFileName(),
-                        "/home/menzel/Desktop/THM/promotion/enhort/dat/stefan/custom/" + f.getFileName().toString(), "inout", Genome.Assembly.GRCh38.toString(), "Unknown", 14003120, "Genetic", 1412123+f.getFileName().hashCode(), "nosource", "nourl")));
+                       customtrackpath + f.getFileName().toString(), "inout", Genome.Assembly.GRCh38.toString(), "Unknown", 14003120, "Genetic", 1412123 + f.getFileName().hashCode(), "nosource", "nourl")));
             } catch (IOException e) {
                 e.printStackTrace();
             }
-- 
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