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Refactoring (renaming) 2 classes: AsyncJobRunner.java -> AsyncClusterRunner.java and JobRunner.java -> ClusterRunner.java

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Refactoring: rename duplicated Util classes

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RNAStruct replaced by RNAStructScoreManager. Why does webservice getAnnotation method still return a ScoreManager Not an RNAStructScoreManager?!?

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    ./RNAalifoldParametersTester.java
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Alifold results are now parsed and stored in a ScoreManager object

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Webservice which implements FoldWS and returns String. Parameters.xml file updated in line with the RunnerConfig schema.

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    ./RNAalifoldParametersTester.java
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Simple datamodel for RNAalifold.exe output and method to convert from fasta to clustal format and write clustal input files.

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Parameters Tester updated. Untested webservice code. generate xsd/wsdl?

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Basic Testing Setup, no getResults method yet

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    ./RNAalifoldParametersTester.java
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RNAalifold.java runner and RNAalifoldTester incomplete

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    ./RNAalifoldTester.java
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