Readme contact for vm

README

@@ -51,5 +51,5 @@ Build steps:
 # VM
 
 There is a VirtualBox image with Enhort set up for reference and to test with your own data:
-    (Please contact me to get the VM, it is not ready for distribution, yet)
+    (Please contact me to get a link to the VM)
 

backend/src/main/java/de/thm/run/Testruns.java

-// Copyright (C) 2018 Michael Menzel
-// 
-// This file is part of Enhort. <https://enhort.mni.thm.de>.
-// 
-// Enhort is free software: you can redistribute it and/or modify
-// it under the terms of the GNU General Public License as published by
-// the Free Software Foundation, either version 3 of the License, or
-// (at your option) any later version.
-// 
-// Enhort is distributed in the hope that it will be useful,
-// but WITHOUT ANY WARRANTY; without even the implied warranty of
-// MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
-// GNU General Public License for more details.
-// 
-// You should have received a copy of the GNU General Public License
-// along with Enhort.  If not, see <https://www.gnu.org/licenses/>.  
-package de.thm.run;
-
-@Deprecated
-public class Testruns {
-
-    public static void main(String[] args) {
-
-
-
-
-
-
-        //Sites userDat = new UserData(new File("/home/menzel/Desktop/THM/lfba/projektphase/MLV.bed").toPath());
-        //Sites userDat = new UserData(new File("/home/menzel/Desktop/THM/lfba/projekphase/genomic_sites.sleeping_beauty.hg19.txt"));
-        //Sites userDat = new UserData(new File("/home/menzel/Downloads/sites_andreas/copy.tab").toPath());
-
-        /*
-        Sites userDat = BackgroundModelFactory.createBackgroundModel(7489);
-
-        logger.info(userDat.getPositionCount());
-
-
-        Intersect intersect = new Intersect();
-        TrackFactory.getInstance().loadIntervals();
-
-        InOutTrack track = null;
-        for(Track t: TrackFactory.getInstance().getAllIntervals()){
-
-            if(t.getName().equals("Exons")){
-                track = (InOutTrack) t;
-            }
-        }
-
-        logger.info((Arrays.toString(intersect.getAverageDistance(track, userDat).toArray())));
-
-        Analyse analyse = new Analyse();
-        try {
-            analyse.timing_intersect();
-        } catch (Exception e) {
-            logger.error("Exception {}", e.getMessage(), e);
-        }
-        */
-
-    }
-}