X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fws%2Fjws2%2Fjabaws2%2FJws2InstanceFactory.java;h=c328670a091e4676cfa8b1c03e5bc2b291f6bfc2;hb=dbf124d82413368d7aba34f8e3d8e7ad25167dea;hp=e30488c16fc56f9a83c0fbdc077c3ba3ee82e6ce;hpb=ab43013b7e357b84b4abade0dba949668dfb2a0e;p=jalview.git diff --git a/src/jalview/ws/jws2/jabaws2/Jws2InstanceFactory.java b/src/jalview/ws/jws2/jabaws2/Jws2InstanceFactory.java index e30488c..c328670 100644 --- a/src/jalview/ws/jws2/jabaws2/Jws2InstanceFactory.java +++ b/src/jalview/ws/jws2/jabaws2/Jws2InstanceFactory.java @@ -1,6 +1,6 @@ /* - * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.2b1) - * Copyright (C) 2014 The Jalview Authors + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $$Year-Rel$$ The Jalview Authors * * This file is part of Jalview. * @@ -20,9 +20,6 @@ */ package jalview.ws.jws2.jabaws2; -import jalview.ws.jws2.AAConClient; -import jalview.ws.jws2.JPred301Client; -import jalview.ws.jws2.RNAalifoldClient; import jalview.ws.uimodel.AlignAnalysisUIText; import java.util.HashMap; @@ -35,9 +32,11 @@ public class Jws2InstanceFactory private static HashMap aaConGUI; private static HashSet ignoreGUI; + private static String category_rewrite(String cat_name) { - return (cat_name != null && cat_name.equals("Prediction")) ? "Secondary Structure Prediction" + return (cat_name != null && cat_name.equals("Prediction")) + ? "Secondary Structure Prediction" : cat_name; } @@ -45,16 +44,13 @@ public class Jws2InstanceFactory { if (aaConGUI == null) { - aaConGUI = new HashMap(); + aaConGUI = new HashMap<>(); aaConGUI.put(compbio.ws.client.Services.AAConWS.toString(), - AAConClient.getAlignAnalysisUITest()); + AAConClient.getAlignAnalysisUIText()); aaConGUI.put(compbio.ws.client.Services.RNAalifoldWS.toString(), - RNAalifoldClient.getAlignAnalysisUITest()); - // disable the JPred301 client in jalview ... - ignoreGUI = new HashSet(); - ignoreGUI.add(compbio.ws.client.Services.JpredWS.toString()); - aaConGUI.put(compbio.ws.client.Services.JpredWS.toString(), - JPred301Client.getAlignAnalysisUITest()); + RNAalifoldClient.getAlignAnalysisUIText()); + // ignore list for JABAWS services not supported in jalview ... + ignoreGUI = new HashSet<>(); } } @@ -70,6 +66,7 @@ public class Jws2InstanceFactory init(); return (ignoreGUI.contains(serviceType.toString())); } + /** * construct a service instance and configure it with any additional * properties needed so Jalview can access it correctly @@ -88,7 +85,7 @@ public class Jws2InstanceFactory init(); Jws2Instance svc = new Jws2Instance(jwsservers, serviceType, category_rewrite(name), description, service); - svc.aaui = aaConGUI.get(serviceType.toString()); + svc.setAlignAnalysisUI(aaConGUI.get(serviceType.toString())); return svc; }