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[jabaws.git] / webservices / compbio / ws / server / TcoffeeWS.java

diff --git a/webservices/compbio/ws/server/TcoffeeWS.java b/webservices/compbio/ws/server/TcoffeeWS.java
index e9bda4d..086d870 100644 (file)
--- a/webservices/compbio/ws/server/TcoffeeWS.java
+++ b/webservices/compbio/ws/server/TcoffeeWS.java
@@ -67,8 +67,7 @@ public class TcoffeeWS implements MsaWS<Tcoffee> {
                        throws JobSubmissionException {\r
                WSUtil.validateFastaInput(sequences);\r
                ConfiguredExecutable<Tcoffee> confTcoffee = init(sequences);\r
-               return WSUtil\r
-                               .align(sequences, confTcoffee, null, "align", getLimit(""));\r
+               return WSUtil.align(sequences, confTcoffee, log, "align", getLimit(""));\r
        }\r
 \r
        ConfiguredExecutable<Tcoffee> init(List<FastaSequence> sequences)\r
@@ -101,7 +100,7 @@ public class TcoffeeWS implements MsaWS<Tcoffee> {
                                Tcoffee.KEY_VALUE_SEPARATOR);\r
                log.info("Setting parameters:" + params);\r
                confTcoffee.addParameters(params);\r
-               return WSUtil.align(sequences, confTcoffee, null, "customAlign",\r
+               return WSUtil.align(sequences, confTcoffee, log, "customAlign",\r
                                getLimit(""));\r
        }\r
 \r
@@ -116,7 +115,7 @@ public class TcoffeeWS implements MsaWS<Tcoffee> {
                ConfiguredExecutable<Tcoffee> confTcoffee = init(sequences);\r
                confTcoffee.addParameters(preset.getOptions());\r
                Limit<Tcoffee> limit = getLimit(preset.getName());\r
-               return WSUtil.align(sequences, confTcoffee, null, "presetAlign", limit);\r
+               return WSUtil.align(sequences, confTcoffee, log, "presetAlign", limit);\r
        }\r
 \r
        @SuppressWarnings("unchecked")\r