From 064b38c667ab15290bc73ffe369eeb4c55c3304e Mon Sep 17 00:00:00 2001 From: gmungoc Date: Wed, 18 Apr 2018 12:13:23 +0100 Subject: [PATCH] JAL-2629 corrected cutoff parameter passing to hmmsearch --- src/jalview/hmmer/HMMSearch.java | 6 +++--- 1 file changed, 3 insertions(+), 3 deletions(-) diff --git a/src/jalview/hmmer/HMMSearch.java b/src/jalview/hmmer/HMMSearch.java index 7413d14..d4c9656 100644 --- a/src/jalview/hmmer/HMMSearch.java +++ b/src/jalview/hmmer/HMMSearch.java @@ -160,7 +160,7 @@ public class HMMSearch extends HmmerCommand } else if (MessageManager.getString("label.seq_e_value").equals(name)) { - args.add("--incE"); + args.add("-E"); args.add(arg.getValue()); } else if (MessageManager.getString("label.seq_score").equals(name)) @@ -168,10 +168,10 @@ public class HMMSearch extends HmmerCommand args.add("-incT"); args.add(arg.getValue()); } - else if (MessageManager.getString("label.dom_e_value_desc") + else if (MessageManager.getString("label.dom_e_value") .equals(name)) { - args.add("--incdomE"); + args.add("--domE"); args.add(arg.getValue()); } else if (MessageManager.getString("label.dom_score").equals(name)) -- 1.7.10.2