[Taverna-hackers] Flow error on taverna workbench 2.2.0

Thu, 10 Mar 2011 06:10:55 -0800 

I have a flow that works in taverna 2.1.2 but fails to open on 2.2.0.
The error shown says that an element of type
*net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.RetryConfig
*should be followed by an attribute, > o />.

Looking at the flow file itself (an xml) i see that some
net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.RetryConfigis
followed by a !
(net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.RetryConfig!)
Could this be the error? How can I correct it?*

*I send the flow attached and copied down here.

<workflow xmlns="http://taverna.sf.net/2008/xml/t2flow"; version="1"
producedBy="taverna-2.1.2"><dataflow
id="1092a2a8-5a3a-48e1-8ce6-fd9ad9efcc94"
role="top"><name>Workflow7</name><inputPorts><port><name>sequence</name><depth>0</depth><granularDepth>0</granularDepth><annotations><annotation_chain
encoding="xstream"><net.sf.taverna.t2.annotation.AnnotationChainImpl
xmlns="">
  <annotationAssertions>
    <net.sf.taverna.t2.annotation.AnnotationAssertionImpl>
      <annotationBean
class="net.sf.taverna.t2.annotation.annotationbeans.ExampleValue">
        <text>&gt;gi|74663652|sp|Q874A6|Q874A6_9APHY RBPa precursor
MAFKQLLTAALSIALALPFSQAAITRRVACPDGVNTATNAACCALFAVRDDIQQNLFDGGECGEEVHESL
RLTFHDAIGISPSLAATGKFGGGGADGSIMIFDDIEPNFHANNGVDEIINAQKPFVAKHNMTAGDFIQFA
GAVGVSNCPGAPQLSFFLGRPAATQPAPDGLVPEPFDSVTDILNRFADAGGFTIQEVVWLLASHSIAAAD
HVDPTIPGSPFDSTPEIFDTQFFVETLLKGTLFPGTSGNQGEVESPLAGEIRLQSDADFARDSRTACEWQ
SFVNNQPRMQVLFKAAMQKLSILGHDLTQMIDCSDVIPVPPSTAVRGSHLPAGNTLDDIEQACASTPFPS
LTADPGPATSVAPVPPS

&gt;gi|121808615|sp|Q3SC77|Q3SC77_9APHY Versatile peroxidase
MAFKQLAAALSIALALPFSQAAITRRVACPDGVNTATNAACCALFAVRDDIQQNLFDGGECGEEVHESLR
LTFHDAIGISPSIAATGKFGGGGADGSIMIFDDIEPNFHANNGVDEIISAQKPFVAKHNMTAGDFIQFAG
AVGVSNCPGAPQLSFFLGRPAATQPAPDGLVPEPFDSVTDILNRFADAGGFTTQEVVWLLASHSIAAADH
VDPTIPGSPFDSTPEIFDTQFFVETLLKGTLFPGTSGNQGEVESPLAGEIRLQSDADFARDSRTACEWQS
FVNNQPRMQVLFKAAMQKLSILGHDLTQMIDCSDVIPVPPSTAVRGSHLPAGNTLDDIEQACASTPFPTL
TADPGPATSVAPVPPS</text>
      </annotationBean>
      <date>2011-03-03 21:34:45.78 UYST</date>
      <creators />
      <curationEventList />
    </net.sf.taverna.t2.annotation.AnnotationAssertionImpl>
  </annotationAssertions>
</net.sf.taverna.t2.annotation.AnnotationChainImpl></annotation_chain></annotations></port><port><name>params</name><depth>0</depth><granularDepth>0</granularDepth><annotations><annotation_chain
encoding="xstream"><net.sf.taverna.t2.annotation.AnnotationChainImpl
xmlns="">
  <annotationAssertions>
    <net.sf.taverna.t2.annotation.AnnotationAssertionImpl>
      <annotationBean
class="net.sf.taverna.t2.annotation.annotationbeans.ExampleValue">
        <text>-OUTPUTTREE=nj</text>
      </annotationBean>
      <date>2011-03-02 01:02:32.125 UYST</date>
      <creators />
      <curationEventList />
    </net.sf.taverna.t2.annotation.AnnotationAssertionImpl>
  </annotationAssertions>
</net.sf.taverna.t2.annotation.AnnotationChainImpl></annotation_chain><annotation_chain
encoding="xstream"><net.sf.taverna.t2.annotation.AnnotationChainImpl
xmlns="">
  <annotationAssertions>
    <net.sf.taverna.t2.annotation.AnnotationAssertionImpl>
      <annotationBean
class="net.sf.taverna.t2.annotation.annotationbeans.ExampleValue">
        <text>-OUTPUTTREE=nj -KIMURA=1 -TREE=1</text>
      </annotationBean>
      <date>2011-03-02 01:03:20.828 UYST</date>
      <creators />
      <curationEventList />
    </net.sf.taverna.t2.annotation.AnnotationAssertionImpl>
  </annotationAssertions>
</net.sf.taverna.t2.annotation.AnnotationChainImpl></annotation_chain><annotation_chain
encoding="xstream"><net.sf.taverna.t2.annotation.AnnotationChainImpl
xmlns="">
  <annotationAssertions>
    <net.sf.taverna.t2.annotation.AnnotationAssertionImpl>
      <annotationBean
class="net.sf.taverna.t2.annotation.annotationbeans.ExampleValue">
        <text>-OUTPUTTREE=nj -KIMURA=1</text>
      </annotationBean>
      <date>2011-03-02 01:06:46.31 UYST</date>
      <creators />
      <curationEventList />
    </net.sf.taverna.t2.annotation.AnnotationAssertionImpl>
  </annotationAssertions>
</net.sf.taverna.t2.annotation.AnnotationChainImpl></annotation_chain><annotation_chain
encoding="xstream"><net.sf.taverna.t2.annotation.AnnotationChainImpl
xmlns="">
  <annotationAssertions>
    <net.sf.taverna.t2.annotation.AnnotationAssertionImpl>
      <annotationBean
class="net.sf.taverna.t2.annotation.annotationbeans.ExampleValue">
        <text>-outputtree=nj  -KIMURA=1</text>
      </annotationBean>
      <date>2011-03-02 01:05:45.203 UYST</date>
      <creators />
      <curationEventList />
    </net.sf.taverna.t2.annotation.AnnotationAssertionImpl>
  </annotationAssertions>
</net.sf.taverna.t2.annotation.AnnotationChainImpl></annotation_chain><annotation_chain
encoding="xstream"><net.sf.taverna.t2.annotation.AnnotationChainImpl
xmlns="">
  <annotationAssertions>
    <net.sf.taverna.t2.annotation.AnnotationAssertionImpl>
      <annotationBean
class="net.sf.taverna.t2.annotation.annotationbeans.ExampleValue">
        <text>-outputtree=nj  -KIMURA=1 -TREE=1</text>
      </annotationBean>
      <date>2011-03-02 01:05:17.296 UYST</date>
      <creators />
      <curationEventList />
    </net.sf.taverna.t2.annotation.AnnotationAssertionImpl>
  </annotationAssertions>
</net.sf.taverna.t2.annotation.AnnotationChainImpl></annotation_chain><annotation_chain
encoding="xstream"><net.sf.taverna.t2.annotation.AnnotationChainImpl
xmlns="">
  <annotationAssertions>
    <net.sf.taverna.t2.annotation.AnnotationAssertionImpl>
      <annotationBean
class="net.sf.taverna.t2.annotation.annotationbeans.ExampleValue">
        <text>-OUTPUTTREE=nj  -KIMURA=1</text>
      </annotationBean>
      <date>2011-03-02 01:05:58.250 UYST</date>
      <creators />
      <curationEventList />
    </net.sf.taverna.t2.annotation.AnnotationAssertionImpl>
  </annotationAssertions>
</net.sf.taverna.t2.annotation.AnnotationChainImpl></annotation_chain><annotation_chain
encoding="xstream"><net.sf.taverna.t2.annotation.AnnotationChainImpl
xmlns="">
  <annotationAssertions>
    <net.sf.taverna.t2.annotation.AnnotationAssertionImpl>
      <annotationBean
class="net.sf.taverna.t2.annotation.annotationbeans.ExampleValue">
        <text>-OUTPUTTREE=nj -KIMURA=1</text>
      </annotationBean>
      <date>2011-03-02 01:02:49.812 UYST</date>
      <creators />
      <curationEventList />
    </net.sf.taverna.t2.annotation.AnnotationAssertionImpl>
  </annotationAssertions>
</net.sf.taverna.t2.annotation.AnnotationChainImpl></annotation_chain></annotations></port></inputPorts><outputPorts><port><name>result</name><annotations
/></port><port><name>result2</name><annotations
/></port></outputPorts><processors><processor><name>analyzeSimple</name><inputPorts><port><name>query</name><depth>0</depth></port></inputPorts><outputPorts><port><name>Result</name><depth>0</depth><granularDepth>0</granularDepth></port></outputPorts><annotations
/><activities><activity><raven><group>net.sf.taverna.t2.activities</group><artifact>wsdl-activity</artifact><version>1.1</version></raven><class>net.sf.taverna.t2.activities.wsdl.WSDLActivity</class><inputMap><map
from="query" to="query" /></inputMap><outputMap><map from="Result"
to="Result" /></outputMap><configBean
encoding="xstream"><net.sf.taverna.t2.activities.wsdl.WSDLActivityConfigurationBean
xmlns="">
  <wsdl>http://xml.nig.ac.jp/wsdl/ClustalW.wsdl</wsdl>
  <operation>analyzeSimple</operation>
</net.sf.taverna.t2.activities.wsdl.WSDLActivityConfigurationBean></configBean><annotations
/></activity></activities><dispatchStack><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.1</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize</class><configBean
encoding="xstream"><net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ParallelizeConfig
xmlns="">
  <maxJobs>1</maxJobs>
</net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ParallelizeConfig></configBean></dispatchLayer><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.1</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBounce</class><configBean
encoding="xstream"><null xmlns=""
/></configBean></dispatchLayer><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.1</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failover</class><configBean
encoding="xstream"><null xmlns=""
/></configBean></dispatchLayer><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.1</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry</class><configBean
encoding="xstream"><net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.RetryConfig!
  xmlns="">
  <backoffFactor>1.0</backoffFactor>
  <initialDelay>1000</initialDelay>
  <maxDelay>5000</maxDelay>
  <maxRetries>0</maxRetries>
</net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.RetryConfig></configBean></dispatchLayer><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.1</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invoke</class><configBean
encoding="xstream"><null xmlns=""
/></configBean></dispatchLayer></dispatchStack><iterationStrategyStack><iteration><strategy><cross><port
name="query" depth="0"
/></cross></strategy></iteration></iterationStrategyStack></processor><processor><name>analyzeParam</name><inputPorts><port><name>query</name><depth>0</depth></port><port><name>param</name><depth>0</depth></port></inputPorts><outputPorts><port><name>Result</name><depth>0</depth><granularDepth>0</granularDepth></port></outputPorts><annotations
/><activities><activity><raven><group>net.sf.taverna.t2.activities</group><artifact>wsdl-activity</artifact><version>1.1</version></raven><class>net.sf.taverna.t2!
 .activities.wsdl.WSDLActivity</class><inputMap><map from="param" to="param"
/><map from="query" to="query" /></inputMap><outputMap><map from="Result"
to="Result" /></outputMap><configBean
encoding="xstream"><net.sf.taverna.t2.activities.wsdl.WSDLActivityConfigurationBean
xmlns="">
  <wsdl>http://xml.nig.ac.jp/wsdl/ClustalW.wsdl</wsdl>
  <operation>analyzeParam</operation>
</net.sf.taverna.t2.activities.wsdl.WSDLActivityConfigurationBean></configBean><annotations
/></activity></activities><dispatchStack><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.1</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize</class><configBean
encoding="xstream"><net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ParallelizeConfig
xmlns="">
  <maxJobs>1</maxJobs>
</net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ParallelizeConfig></configBean></dispatchLayer><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.1</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBounce</class><configBean
encoding="xstream"><null xmlns=""
/></configBean></dispatchLayer><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.1</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failover</class><configBean
encoding="xstream"><null xmlns=""
/></configBean></dispatchLayer><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.1</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry</class><configBean
encoding="xstream"><net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.RetryConfig!
  xmlns="">
  <backoffFactor>1.0</backoffFactor>
  <initialDelay>1000</initialDelay>
  <maxDelay>5000</maxDelay>
  <maxRetries>0</maxRetries>
</net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.RetryConfig></configBean></dispatchLayer><dispatchLayer><raven><group>net.sf.taverna.t2.core</group><artifact>workflowmodel-impl</artifact><version>1.1</version></raven><class>net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invoke</class><configBean
encoding="xstream"><null xmlns=""
/></configBean></dispatchLayer></dispatchStack><iterationStrategyStack><iteration><strategy><cross><port
name="query" depth="0" /><port name="param" depth="0"
/></cross></strategy></iteration></iterationStrategyStack></processor></processors><conditions
/><datalinks><datalink><sink
type="processor"><processor>analyzeSimple</processor><port>query</port></sink><source
type="dataflow"><port>sequence</port></source></datalink><datalink><sink
type="processor"><processor>analyzeParam</processor><port>query</port></sink><source
type="dataflow"><port>sequence</port></source></datalink><datalink><sink
type="processor"><processor>analyze!
 Param</processor><port>param</port></sink><source
type="dataflow"><port>params</port></source></datalink><datalink><sink
type="dataflow"><port>result</port></sink><source
type="processor"><processor>analyzeSimple</processor><port>Result</port></source></datalink><datalink><sink
type="dataflow"><port>result2</port></sink><source
type="processor"><processor>analyzeParam</processor><port>Result</port></source></datalink></datalinks><annotations
/></dataflow></workflow>

Attachment: clustalw_ddbj.t2flow
Description: Binary data

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