Bugfix GenotypeGVCFs params

Author: bbimber

SequenceAnalysis/src/org/labkey/sequenceanalysis/analysis/GenotypeGVCFHandler.java

@@ -356,7 +356,7 @@ private File runGenotypeGVCFs(PipelineJob job, JobContext ctx, ProcessVariantsHa
                 toolParams.add(f.getPath());
             }
 
-            if (ctx.getParams().get("variantCalling.GenotypeGVCFs.allowOldRmsMappingData") != null)
+            if (ctx.getParams().optBoolean("variantCalling.GenotypeGVCFs.allowOldRmsMappingData", false))
             {
                 toolParams.add("--allow-old-rms-mapping-quality-annotation-data");
             }

omerointegration/src/org/labkey/omerointegration/OmeroServer.java

@@ -134,15 +134,13 @@ private String getProperty(String name)
     private ExperimenterData connect(Gateway gateway, URL url) throws Exception
     {
         LoginCredentials cred = new LoginCredentials();
-        cred.getServer().setHostname(url.getHost());
+        cred.getServer().setHost(url.getHost());
         if (url.getPort() > 0) {
             cred.getServer().setPort(url.getPort());
         }
         cred.getUser().setUsername(getOmeroUser());
         cred.getUser().setPassword(getOmeroPassword());
-        ExperimenterData user = gateway.connect(cred);
-
-        return user;
+        return gateway.connect(cred);
     }
 
     public void getThumbnail(String omeroId, HttpServletResponse response)