BioVeL_workshop_reduced_full_workflowspecies_name00
Limulus polyphemus
2011-11-22 17:59:47.278 GMT
This input takes the name of the species that is under investigation. Note that the name is case sensitive. Additionally you should not add a newline to the end of the name
2011-11-23 16:17:34.54 GMT
serialized_model
The serialization of the model that was created, tested and projected.
2011-11-24 13:24:23.331 GMT
create_model_log
The log from creating the model. This is only output for information.
2011-11-24 12:41:20.928 GMT
img_layer_url
The URL of the result of the model projection. The data referenced by the URL is in ERDAS IMAGINE format
2011-11-24 13:22:12.409 GMT
project_model_log
The log from projecting the model. This is only output for information.
2011-11-24 13:22:36.140 GMT
test_model_log
The log from testing the model. This is only output for information.
2011-11-24 13:22:44.267 GMT
test_model_statistics
An XML document containing statistics for the result of the testing of the model.
2011-11-24 13:24:54.690 GMT
provision_statements
A listing of the providers of the data from GBIF and also of any special terms and conditions applied to the data. This information should be carefully examined before any further analysis or publication of the data.
2011-11-24 13:23:49.411 GMT
confusion_matrix_acceptability
The answer to whether the confusion matrix from testing was acceptable. This could be used as a basis for looping back to choosing the algorithm and/or setting its parameters.
2011-11-24 12:40:35.215 GMT
img_resultcreate_modelcreateModel_configuration0serialized_model00output_log00net.sf.taverna.t2.activitiesdataflow-activity1.3net.sf.taverna.t2.activities.dataflow.DataflowActivitynet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize
1
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry
1.0
1000
5000
0
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invokeproject_modelprojectModel_configuration0output_log00projected_layer_url00net.sf.taverna.t2.activitiesdataflow-activity1.3net.sf.taverna.t2.activities.dataflow.DataflowActivitynet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize
1
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry
1.0
1000
5000
0
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invokeselect_algorithmalgorithm00net.sf.taverna.t2.activitiesdataflow-activity1.3net.sf.taverna.t2.activities.dataflow.DataflowActivitynet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize
1
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry
1.0
1000
5000
0
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invoketest_modeltestModel_configuration0test_statistics00output_log00net.sf.taverna.t2.activitiesdataflow-activity1.3net.sf.taverna.t2.activities.dataflow.DataflowActivitynet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize
1
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry
1.0
1000
5000
0
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invokemake_configuration_of_create_modelalgorithm_xml0layers0points0outputString00net.sf.taverna.t2.activitiesdataflow-activity1.3net.sf.taverna.t2.activities.dataflow.DataflowActivitynet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize
1
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry
1.0
1000
5000
0
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invokeselect_layersSelected_layers00net.sf.taverna.t2.activitiesdataflow-activity1.3net.sf.taverna.t2.activities.dataflow.DataflowActivitynet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize
1
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry
1.0
1000
5000
0
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invokemake_configuration_of_project_modellayers0algorithm_xml0outputString00net.sf.taverna.t2.activitiesdataflow-activity1.3net.sf.taverna.t2.activities.dataflow.DataflowActivitynet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize
1
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry
1.0
1000
5000
0
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invokeallocate_pointspoints0creation_points00testing_points00net.sf.taverna.t2.activitiesbeanshell-activity1.3net.sf.taverna.t2.activities.beanshell.BeanshellActivity
points
0
text/plain
java.lang.String
true
creation_points
0
0
testing_points
0
0
workflow
Blah
2011-11-24 15:16:01.414 GMT
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize
1
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry
1.0
1000
5000
0
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invokefetch_species_points_from_gbifspecies_name0provision_statements00coordinates00net.sf.taverna.t2.activitiesdataflow-activity1.3net.sf.taverna.t2.activities.dataflow.DataflowActivitynet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize
1
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry
1.0
1000
5000
0
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invokemake_configuration_of_test_modellayers0points0algorithm_xml0outputString00net.sf.taverna.t2.activitiesdataflow-activity1.3net.sf.taverna.t2.activities.dataflow.DataflowActivitynet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize
1
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry
1.0
1000
5000
0
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invokeextract_model_algorithmserialized_model0model_algorithm00net.sf.taverna.t2.activitiesdataflow-activity1.3net.sf.taverna.t2.activities.dataflow.DataflowActivitynet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize
1
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry
1.0
1000
5000
0
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invokeshow_confusion_matrixstatistics0answer00net.sf.taverna.t2.activitiesdataflow-activity1.3net.sf.taverna.t2.activities.dataflow.DataflowActivitynet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize
1
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry
1.0
1000
5000
0
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invokeshow_layer_in_browserimg_url0img_result00net.sf.taverna.t2.activitiesdataflow-activity1.3net.sf.taverna.t2.activities.dataflow.DataflowActivitynet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize
1
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry
1.0
1000
5000
0
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invokecreate_modelcreateModel_configurationproject_modelprojectModel_configurationtest_modeltestModel_configurationmake_configuration_of_create_modelalgorithm_xmlmake_configuration_of_create_modellayersmake_configuration_of_create_modelpointsmake_configuration_of_project_modellayersmake_configuration_of_project_modelalgorithm_xmlallocate_pointspointsfetch_species_points_from_gbifspecies_namemake_configuration_of_test_modellayersmake_configuration_of_test_modelpointsmake_configuration_of_test_modelalgorithm_xmlextract_model_algorithmserialized_modelshow_confusion_matrixstatisticsshow_layer_in_browserimg_urlserialized_modelcreate_model_logimg_layer_urlproject_model_logtest_model_logtest_model_statisticsprovision_statementsconfusion_matrix_acceptabilityimg_result
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2011-11-22 13:27:06.29 GMT
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2011-11-22 16:36:54.828 GMT
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2011-11-07 17:32:32.292 GMT
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2011-11-24 15:37:12.746 GMT
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2011-11-24 14:47:44.248 GMT
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2011-11-24 14:57:55.899 GMT
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2011-11-03 14:25:29.699 GMT
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2011-11-17 16:54:15.837 GMT
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2011-11-25 10:07:54.601 GMT
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2011-11-17 16:19:32.394 GMT
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2011-11-21 15:54:18.653 GMT
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2011-11-24 16:24:58.160 GMT
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2011-11-25 10:10:31.303 GMT
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2011-11-17 16:42:45.593 GMT
c616ae46-9c85-41e2-8c1e-5d4a605d3502
2011-11-03 12:59:55.39 GMT
BioVeL workshop reduced full workflow
2011-11-25 11:53:04.828 GMT
77e6b6e7-df8f-46a2-80ac-ad9e21616ec6
2011-11-24 17:44:47.417 GMT
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2011-11-04 12:46:32.979 GMT
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2011-11-03 14:53:19.894 GMT
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2011-11-24 17:49:37.818 GMT
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2011-11-24 16:06:54.684 GMT
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2011-11-24 17:19:27.33 GMT
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2011-11-08 14:55:04.831 GMT
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2011-11-24 15:14:43.215 GMT
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2011-11-24 15:15:07.347 GMT
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2011-11-23 17:57:20.905 GMT
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2011-11-03 13:09:42.1 GMT
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2011-11-17 16:23:58.867 GMT
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2011-11-23 16:18:20.342 GMT
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2011-11-08 13:45:52.748 GMT
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2011-11-25 11:47:05.453 GMT
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2011-11-17 12:50:58.165 GMT
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2011-11-09 09:34:44.475 GMT
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2011-11-24 15:02:12.300 GMT
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2011-11-16 15:10:43.339 GMT
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2011-11-24 12:39:26.164 GMT
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2011-11-03 13:33:39.687 GMT
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2011-11-21 17:50:05.812 GMT
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2011-11-09 11:06:37.861 GMT
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2011-11-21 12:55:19.34 GMT
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2011-11-24 18:04:14.974 GMT
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2011-11-03 13:26:53.969 GMT
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2011-11-21 14:50:38.679 GMT
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2011-11-03 14:27:34.501 GMT
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2011-11-17 12:13:20.91 GMT
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2011-11-16 13:57:54.248 GMT
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2011-11-21 17:07:36.838 GMT
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2011-11-21 15:38:17.843 GMT
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2011-11-09 11:22:57.601 GMT
44804789-f269-41c6-80ef-a5a355f9a616
2011-11-24 15:16:14.639 GMT
The workflow is a reduced version of the main workflow. It can be used to call web services to support biodiversity research.
It fetches data from GBIF. The occurrences are then used to create a model using OpenModeller, test the model and to project the model.
The projection of the model is currently a "native projection" i.e. it uses the same layers as those used to create the model. The services within the workflow will allow non-native projections
2011-11-25 11:21:13.989 GMT
cfe79801-3b4c-4393-bc33-3915b4873f30
2011-11-29 17:42:08.57 GMT
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2011-11-22 17:48:22.30 GMT
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2011-11-17 11:55:28.437 GMT
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2011-11-09 10:10:10.871 GMT
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2011-11-17 13:11:30.4 GMT
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2011-11-07 17:40:32.173 GMT
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2011-11-22 17:40:39.881 GMT
f3a1bbb8-34dc-4ac9-a31f-d47fedce3d76
2011-11-04 10:57:46.263 GMT
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2011-11-03 13:59:25.164 GMT
c32da442-7cf8-4061-953a-9908b798e760
2011-11-07 10:54:30.715 GMT
Alan R Williams
2011-11-23 16:12:26.867 GMT
333a2d0f-1bbd-4b9a-8a8c-e6adf0260ab7
2011-11-24 13:46:16.601 GMT
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2011-11-24 13:51:07.58 GMT
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2011-11-22 13:33:25.559 GMT
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2011-11-17 14:53:20.298 GMT
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2011-11-24 14:27:22.908 GMT
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2011-11-22 17:18:45.718 GMT
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2011-11-23 16:35:58.199 GMT
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2011-11-22 18:00:20.815 GMT
186e29cd-fa9b-4fe9-9fbe-b63a5b0ffa46
2011-11-22 17:52:44.681 GMT
991093de-e208-49cc-ac86-34afb723b786
2011-11-24 15:07:59.454 GMT
Collate_testModel_configurationalgorithm_xml00
The algorithm produced by creating the model
2011-11-24 17:35:00.193 GMT
layers00
The layers that were used to create the model
2011-11-24 17:34:41.633 GMT
points00
The newline separate list of points that will be used to test the model
2011-11-24 17:34:28.905 GMT
outputString
The configuration for testing the model
2011-11-24 17:35:14.328 GMT
Transform_XML_with_parametersalgorithm_xml0layers0sourceString0xsltString0points0outputString00net.sf.taverna.t2.activitieslocalworker-activity1.3net.sf.taverna.t2.activities.localworker.LocalworkerActivity
sourceString
0
text/plain
java.lang.String
true
xsltString
0
text/plain
java.lang.String
true
algorithm_xml
0
text/plain
java.lang.String
true
layers
0
text/plain
java.lang.String
true
points
0
text/plain
java.lang.String
true
outputString
0
0
workflow
net.sourceforge.taverna.scuflworkers.xml.XSLTWorkerWithParameters
UserNameHere
2011-11-22 16:15:21.170 GMT
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize
1
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry
1.0
1000
5000
0
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invokeget_testModel_templateurl0contents00net.sf.taverna.t2.activitieslocalworker-activity1.3net.sf.taverna.t2.activities.localworker.LocalworkerActivity
url
0
'text/x-taverna-web-url'
java.lang.String
true
base
0
'text/x-taverna-web-url'
java.lang.String
true
contents
0
'text/plain,text/html'
0
workflow
org.embl.ebi.escience.scuflworkers.java.WebPageFetcher
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize
1
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry
1.0
1000
5000
0
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invoketemplate_urlvalue00net.sf.taverna.t2.activitiesstringconstant-activity1.3net.sf.taverna.t2.activities.stringconstant.StringConstantActivity
http://www.myexperiment.org/files/629/download/testModel.xml
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize
1
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry
1.0
1000
5000
0
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invokeget_testModel_xslturl0contents00net.sf.taverna.t2.activitieslocalworker-activity1.3net.sf.taverna.t2.activities.localworker.LocalworkerActivity
url
0
'text/x-taverna-web-url'
java.lang.String
true
base
0
'text/x-taverna-web-url'
java.lang.String
true
contents
0
'text/plain,text/html'
0
workflow
org.embl.ebi.escience.scuflworkers.java.WebPageFetcher
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize
1
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry
1.0
1000
5000
0
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invokexslt_urlvalue00net.sf.taverna.t2.activitiesstringconstant-activity1.3net.sf.taverna.t2.activities.stringconstant.StringConstantActivity
http://www.myexperiment.org/files/630/download/testModel.xslt
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize
1
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry
1.0
1000
5000
0
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeTransform_XML_with_parametersalgorithm_xmlTransform_XML_with_parameterslayersTransform_XML_with_parameterssourceStringTransform_XML_with_parametersxsltStringTransform_XML_with_parameterspointsget_testModel_templateurlget_testModel_xslturloutputString
a9493d1d-8cb3-4e40-be5c-668e29fbbf26
2011-11-09 10:47:52.596 GMT
e8f208a2-8d8f-495e-b436-b002c6dac8f4
2011-11-22 17:59:02.407 GMT
Alan R Williams
2011-11-09 11:05:06.260 GMT
aeaeca45-0d05-49b7-9ad9-ac2e820e3c3a
2011-11-22 16:23:40.504 GMT
ed588357-d0f9-467b-b854-96947a3d473c
2011-11-24 17:35:47.442 GMT
3a06e122-efe8-415a-aa4f-7d5abbedfdb8
2011-11-08 10:07:47.83 GMT
16fd0dc8-1267-4821-9e26-cbe833a1984b
2011-11-08 10:03:05.798 GMT
05c1ce41-efe3-47ae-8371-ed777db004df
2011-11-08 09:58:17.549 GMT
48be834d-93a0-45fd-ba13-d9972ac6af04
2011-11-07 17:53:28.939 GMT
30642a24-fd7b-46f9-a930-61844d797758
2011-11-09 11:05:21.634 GMT
Collate testModel configuration
2011-11-22 16:13:33.764 GMT
66a21078-c153-423c-b1e2-f9813164b338
2011-11-08 13:47:29.339 GMT
5aaef25f-9aed-4202-8730-d974e5f365d8
2011-11-07 17:43:29.41 GMT
bebefb5e-e30a-4bc9-99e3-34717cb5e9e7
2011-11-08 15:47:26.786 GMT
b4afd708-476e-49fb-882f-3e7fc48a1f38
2011-11-21 14:50:18.631 GMT
Workflow37input_ticket00output_progressgetProgressparameters0parameters00net.sf.taverna.t2.activitieswsdl-activity1.3net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://openmodeller.cria.org.br/ws/1.0/extras/ws1.wsdl
getProgress
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize
1
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry
1.0
1000
5000
0
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokegetProgress_inputticket0output00net.sf.taverna.t2.activitieswsdl-activity1.3net.sf.taverna.t2.activities.wsdl.xmlsplitter.XMLInputSplitterActivity
ticket
0
'text/plain'
false
output
0
'text/xml'
0
<s:extensions xmlns:s="http://org.embl.ebi.escience/xscufl/0.1alpha"><s:complextype optional="false" unbounded="false" typename="getProgress" name="parameters" qname="{http://openmodeller.cria.org.br/ws/1.0}getProgress"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="ticket" qname=">getProgress>ticket" /></s:elements></s:complextype></s:extensions>
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize
1
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry
1.0
1000
5000
0
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokegetProgress_outputinput0progress00net.sf.taverna.t2.activitieswsdl-activity1.3net.sf.taverna.t2.activities.wsdl.xmlsplitter.XMLOutputSplitterActivity
input
0
'text/xml'
java.lang.String
false
progress
0
'text/plain'
0
<s:extensions xmlns:s="http://org.embl.ebi.escience/xscufl/0.1alpha"><s:complextype optional="false" unbounded="false" typename="getProgressResponse" name="parameters" qname="{http://openmodeller.cria.org.br/ws/1.0}getProgressResponse"><s:elements><s:basetype optional="false" unbounded="false" typename="int" name="progress" qname=">getProgressResponse>progress" /></s:elements></s:complextype></s:extensions>
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize
1
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry
1.0
1000
5000
0
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokegetProgressparametersgetProgress_inputticketgetProgress_outputinputoutput_progress
a37634cb-267e-4153-ad7a-c927a979494a
2011-11-01 11:23:26.24 GMT
Show_png_in_browserimg_url00
The URL of the layer projected
2011-11-24 18:02:04.512 GMT
img_resultchange_to_png_urlimg_url0png_url00net.sf.taverna.t2.activitiesbeanshell-activity1.3net.sf.taverna.t2.activities.beanshell.BeanshellActivity
img_url
0
text/plain
java.lang.String
true
png_url
0
0
workflow
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize
1
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry
1.0
1000
5000
0
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invokeshow_in_browserurl0net.sf.taverna.t2.activitiesbeanshell-activity1.3net.sf.taverna.t2.activities.beanshell.BeanshellActivity
url
0
text/plain
java.lang.String
true
answer
0
0
workflow
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize
1
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry
1.0
1000
5000
0
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeGet_Image_From_URLurl0image00net.sf.taverna.t2.activitieslocalworker-activity1.3net.sf.taverna.t2.activities.localworker.LocalworkerActivity
url
0
'text/x-taverna-web-url'
java.lang.String
true
base
0
'text/x-taverna-web-url'
java.lang.String
true
image
0
'image/*'
0
workflow
org.embl.ebi.escience.scuflworkers.java.WebImageFetcher
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize
1
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry
1.0
1000
5000
0
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invokechange_to_png_urlimg_urlshow_in_browserurlGet_Image_From_URLurlimg_result
b1142da8-cab0-46ec-96b6-da47704400a3
2011-11-24 12:34:53.489 GMT
This workflow takes the URL of the layer produced by model projection and shows a corresponding PNG in the user's browser
2011-11-24 18:01:50.40 GMT
9c8b0e61-a4b1-46ac-96de-fbcd5a346c8b
2011-11-24 12:37:20.65 GMT
1533153d-6638-4877-b5b8-82c11bb907c9
2011-11-24 12:32:35.628 GMT
Show png in browser
2011-11-24 12:37:42.55 GMT
45d8b799-0c67-4b0c-ad3c-518c44c7223f
2011-11-24 18:02:08.312 GMT
Alan R Williams
2011-11-24 12:37:48.678 GMT
7e484539-a626-4b54-b27f-a01ecc42d1af
2011-11-25 10:07:28.404 GMT
fa0b3914-4617-4c1a-9079-29ef20f78fae
2011-11-24 12:34:32.473 GMT
e674205f-4a2d-4a3b-acbd-7f63923c95d3
2011-11-24 12:37:52.695 GMT
Make_configuration_of_create_modelpoints00
A string containing the newline separated list of points to be used to create the model
2011-11-24 17:36:39.465 GMT
algorithm_xml00
The XML of the algorithm specification
2011-11-24 17:15:45.780 GMT
layers00
A string containing a newline separated list of the ids of the layers to be used to create the model
2011-11-24 17:15:30.28 GMT
outputString
The configuration for the creation of a model
2011-11-24 17:19:14.805 GMT
Transform_XML_with_parametersalgorithm_xml0layers0points0sourceString0xsltString0outputString00net.sf.taverna.t2.activitieslocalworker-activity1.3net.sf.taverna.t2.activities.localworker.LocalworkerActivity
sourceString
0
text/plain
java.lang.String
true
xsltString
0
text/plain
java.lang.String
true
points
0
text/plain
java.lang.String
true
algorithm_xml
0
text/plain
java.lang.String
true
layers
0
text/plain
java.lang.String
true
outputString
0
0
workflow
net.sourceforge.taverna.scuflworkers.xml.XSLTWorkerWithParameters
UserNameHere
2011-11-08 15:47:10.18 GMT
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize
1
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry
1.0
1000
5000
0
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invokeget_createModel_templateurl0contents00net.sf.taverna.t2.activitieslocalworker-activity1.3net.sf.taverna.t2.activities.localworker.LocalworkerActivity
url
0
'text/x-taverna-web-url'
java.lang.String
true
base
0
'text/x-taverna-web-url'
java.lang.String
true
contents
0
'text/plain,text/html'
0
workflow
org.embl.ebi.escience.scuflworkers.java.WebPageFetcher
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize
1
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry
1.0
1000
5000
0
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invoketemplate_urlvalue00net.sf.taverna.t2.activitiesstringconstant-activity1.3net.sf.taverna.t2.activities.stringconstant.StringConstantActivity
http://www.myexperiment.org/files/624/download/createModel.xml
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize
1
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry
1.0
1000
5000
0
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invokeget_createModel_xslturl0contents00net.sf.taverna.t2.activitieslocalworker-activity1.3net.sf.taverna.t2.activities.localworker.LocalworkerActivity
url
0
'text/x-taverna-web-url'
java.lang.String
true
base
0
'text/x-taverna-web-url'
java.lang.String
true
contents
0
'text/plain,text/html'
0
workflow
org.embl.ebi.escience.scuflworkers.java.WebPageFetcher
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize
1
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry
1.0
1000
5000
0
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invokexslt_urlvalue00net.sf.taverna.t2.activitiesstringconstant-activity1.3net.sf.taverna.t2.activities.stringconstant.StringConstantActivity
http://www.myexperiment.org/files/625/download/createModel.xslt
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize
1
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry
1.0
1000
5000
0
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeTransform_XML_with_parametersalgorithm_xmlTransform_XML_with_parameterslayersTransform_XML_with_parameterspointsTransform_XML_with_parameterssourceStringTransform_XML_with_parametersxsltStringget_createModel_templateurlget_createModel_xslturloutputString
48be834d-93a0-45fd-ba13-d9972ac6af04
2011-11-07 17:53:28.939 GMT
30e64fae-99d1-4729-9053-30ba146a35b6
2011-11-17 16:22:14.914 GMT
3a06e122-efe8-415a-aa4f-7d5abbedfdb8
2011-11-08 10:07:47.83 GMT
b038cfbf-e179-4dc2-9489-3496268ce800
2011-11-17 16:19:25.177 GMT
60aa178f-f770-4163-b6de-36ec65f77ef6
2011-11-17 16:23:54.23 GMT
9467268a-8e36-4486-84dd-49b943de5813
2011-11-24 17:36:07.353 GMT
66a21078-c153-423c-b1e2-f9813164b338
2011-11-08 13:47:29.339 GMT
Alan R Williams
2011-11-24 17:17:36.156 GMT
5aaef25f-9aed-4202-8730-d974e5f365d8
2011-11-07 17:43:29.41 GMT
8ef6d2f8-6046-4a66-a0c0-83411cd02621
2011-11-21 13:47:52.374 GMT
4bf37799-e0a1-4729-bc88-3104b9593e03
2011-11-24 17:19:18.317 GMT
b3c564e3-f56c-4eb2-bd97-72038ab188eb
2011-11-24 17:36:45.998 GMT
This workflow creates the configuration for the creation of a model.
2011-11-24 17:18:12.997 GMT
bebefb5e-e30a-4bc9-99e3-34717cb5e9e7
2011-11-08 15:47:26.786 GMT
05c1ce41-efe3-47ae-8371-ed777db004df
2011-11-08 09:58:17.549 GMT
16fd0dc8-1267-4821-9e26-cbe833a1984b
2011-11-08 10:03:05.798 GMT
Make configuration of create model
2011-11-24 17:17:45.149 GMT
Collate_projectModel_configurationalgorithm_xml00
The algorithm produced by creating the model
2011-11-24 17:48:42.501 GMT
layers00
A newline separated list of the ids of the layers to be used in projecting the model
2011-11-24 17:46:32.237 GMT
outputString
The configuration for projecting the model using OpenModeller
2011-11-24 17:48:55.500 GMT
Transform_XML_with_parametersalgorithm_xml0layers0sourceString0xsltString0outputString00net.sf.taverna.t2.activitieslocalworker-activity1.3net.sf.taverna.t2.activities.localworker.LocalworkerActivity
sourceString
0
text/plain
java.lang.String
true
xsltString
0
text/plain
java.lang.String
true
algorithm_xml
0
text/plain
java.lang.String
true
layers
0
text/plain
java.lang.String
true
outputString
0
0
workflow
net.sourceforge.taverna.scuflworkers.xml.XSLTWorkerWithParameters
UserNameHere
2011-11-09 10:47:18.79 GMT
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize
1
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry
1.0
1000
5000
0
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invokeget_projectModel_templateurl0contents00net.sf.taverna.t2.activitieslocalworker-activity1.3net.sf.taverna.t2.activities.localworker.LocalworkerActivity
url
0
'text/x-taverna-web-url'
java.lang.String
true
base
0
'text/x-taverna-web-url'
java.lang.String
true
contents
0
'text/plain,text/html'
0
workflow
org.embl.ebi.escience.scuflworkers.java.WebPageFetcher
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize
1
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry
1.0
1000
5000
0
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invoketemplate_urlvalue00net.sf.taverna.t2.activitiesstringconstant-activity1.3net.sf.taverna.t2.activities.stringconstant.StringConstantActivity
http://www.myexperiment.org/files/626/download/projectModel.xml
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize
1
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry
1.0
1000
5000
0
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invokeget_projectModel_xslturl0contents00net.sf.taverna.t2.activitieslocalworker-activity1.3net.sf.taverna.t2.activities.localworker.LocalworkerActivity
url
0
'text/x-taverna-web-url'
java.lang.String
true
base
0
'text/x-taverna-web-url'
java.lang.String
true
contents
0
'text/plain,text/html'
0
workflow
org.embl.ebi.escience.scuflworkers.java.WebPageFetcher
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize
1
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry
1.0
1000
5000
0
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invokexslt_urlvalue00net.sf.taverna.t2.activitiesstringconstant-activity1.3net.sf.taverna.t2.activities.stringconstant.StringConstantActivity
http://www.myexperiment.org/files/627/download/projectModel.xslt
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize
1
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry
1.0
1000
5000
0
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeTransform_XML_with_parametersalgorithm_xmlTransform_XML_with_parameterslayersTransform_XML_with_parameterssourceStringTransform_XML_with_parametersxsltStringget_projectModel_templateurlget_projectModel_xslturloutputString
30642a24-fd7b-46f9-a930-61844d797758
2011-11-09 11:05:21.634 GMT
66a21078-c153-423c-b1e2-f9813164b338
2011-11-08 13:47:29.339 GMT
b4afd708-476e-49fb-882f-3e7fc48a1f38
2011-11-21 14:50:18.631 GMT
48be834d-93a0-45fd-ba13-d9972ac6af04
2011-11-07 17:53:28.939 GMT
bebefb5e-e30a-4bc9-99e3-34717cb5e9e7
2011-11-08 15:47:26.786 GMT
557921c2-c68e-44f7-9d9b-ec018cf5174a
2011-11-24 17:48:59.382 GMT
This workflow creates a configuration that can be used for model projection
2011-11-24 17:46:08.300 GMT
Collate projectModel configuration
2011-11-09 11:05:15.932 GMT
a9493d1d-8cb3-4e40-be5c-668e29fbbf26
2011-11-09 10:47:52.596 GMT
5aaef25f-9aed-4202-8730-d974e5f365d8
2011-11-07 17:43:29.41 GMT
16fd0dc8-1267-4821-9e26-cbe833a1984b
2011-11-08 10:03:05.798 GMT
Alan R Williams
2011-11-09 11:05:06.260 GMT
05c1ce41-efe3-47ae-8371-ed777db004df
2011-11-08 09:58:17.549 GMT
3a06e122-efe8-415a-aa4f-7d5abbedfdb8
2011-11-08 10:07:47.83 GMT
Fetch_species_points_from_GBIFspecies_name00
Limulus polyphemus
2011-11-24 15:32:44.714 GMT
This input takes the name of the species that is under investigation. Note that the name is case sensitive. Additionally you should not add a newline to the end of the name
2011-11-24 15:32:36.635 GMT
coordinates
A string containing a newline separated list of the positions of occurrences of the species
2011-11-24 15:33:46.778 GMT
provision_statements
A listing of the providers of the data from GBIF and also of any special terms and conditions applied to the data. This information should be carefully examined before any further analysis or publication of the data.
2011-11-24 15:33:09.866 GMT
show_gbif_agreementnet.sf.taverna.t2.activitiesbeanshell-activity1.3net.sf.taverna.t2.activities.beanshell.BeanshellActivity
answer
0
0
workflow
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize
1
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry
1.0
1000
5000
0
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invokeextract_occurrencesxml_text0nodelistAsXML11net.sf.taverna.t2.activitiesxpath-activity1.3net.sf.taverna.t2.activities.xpath.XPathActivity
<?xml version="1.0" encoding="UTF-8"?>
<?xml-stylesheet type="text/xsl" href="http://data.gbif.org/ws/rest/occurrence/stylesheet"?><gbif:gbifResponse xmlns:gbif="http://portal.gbif.org/ws/response/gbif" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:to="http://rs.tdwg.org/ontology/voc/TaxonOccurrence#" xmlns:tc="http://rs.tdwg.org/ontology/voc/TaxonConcept#" xmlns:tn="http://rs.tdwg.org/ontology/voc/TaxonName#" xmlns:tcom="http://rs.tdwg.org/ontology/voc/Common#" xsi:schemaLocation="http://portal.gbif.org/ws/response/gbif http://data.gbif.org/ws/rest/occurrence/schema http://purl.org/dc/elements/1.1/ http://data.gbif.org/schema/dc.xsd http://purl.org/dc/terms/ http://data.gbif.org/schema/dcterms.xsd http://www.w3.org/1999/02/22-rdf-syntax-ns# http://data.gbif.org/schema/rdf.xsd http://www.w3.org/2002/07/owl# http://data.gbif.org/schema/owl.xsd http://rs.tdwg.org/ontology/voc/Common# http://data.gbif.org/schema/tcom.xsd http://rs.tdwg.org/ontology/voc/TaxonOccurrence# http://data.gbif.org/schema/TaxonOccurrence.xsd http://rs.tdwg.org/ontology/voc/TaxonConcept# http://data.gbif.org/schema/TaxonConcept.xsd http://rs.tdwg.org/ontology/voc/TaxonName# http://data.gbif.org/schema/TaxonName.xsd">
<gbif:header>
<gbif:help>http://data.gbif.org/ws/rest/occurrence/help
</gbif:help>
<gbif:request>list</gbif:request>
<gbif:statements>-
This document contains data shared through the GBIF Network - see http://data.gbif.org/ for more information.
All usage of these data must be in accordance with the GBIF Data Use Agreement - see http://www.gbif.org/DataProviders/Agreements/DUA
Please cite these data as follows:
UK National Biodiversity Network, Centre for Environmental Data and Recording - Marine Data from Northern Ireland (accessed through GBIF data portal, http://data.gbif.org/datasets/resource/11861, 2011-11-17)
UK National Biodiversity Network, Countryside Council for Wales - Sublittoral Marine data from Countryside Council for Wales (CCW) Technical Support (Research & Monitoring) Contracts, Wales (accessed through GBIF data portal, http://data.gbif.org/datasets/resource/11991, 2011-11-17)
UK National Biodiversity Network, Joint Nature Conservation Committee - Marine Nature Conservation Review (MNCR) and associated benthic marine data held and managed by JNCC (accessed through GBIF data portal, http://data.gbif.org/datasets/resource/912, 2011-11-17)
UK National Biodiversity Network, Marine Biological Association - Marine survey data (Professional) held by <i>MarLIN</i>. (accessed through GBIF data portal, http://data.gbif.org/datasets/resource/946, 2011-11-17)
UK National Biodiversity Network, Marine Conservation Society - Seasearch Marine Surveys (accessed through GBIF data portal, http://data.gbif.org/datasets/resource/845, 2011-11-17)
-
</gbif:statements>
<gbif:stylesheet>http://data.gbif.org/ws/rest/occurrence/stylesheet</gbif:stylesheet>
<gbif:parameter name="maxresults" value="10"/>
<gbif:parameter name="request" value="list"/>
<gbif:parameter name="service" value="occurrence"/>
<gbif:parameter name="format" value="brief"/>
<gbif:parameter name="scientificname" value="Modiolus modiolus"/>
<gbif:parameter name="mode" value="raw"/>
<gbif:nextRequestUrl>http://data.gbif.org/ws/rest/occurrence/list?startindex=10&maxresults=10&format=brief&scientificname=Modiolus+modiolus&mode=raw</gbif:nextRequestUrl>
<gbif:summary start="0" totalMatched="10" next="10" totalReturned="10"/>
</gbif:header><gbif:dataProviders>
<gbif:dataProvider gbifKey="172" rdf:about="http://data.gbif.org/ws/rest/provider/get/172">
<gbif:name>UK National Biodiversity Network</gbif:name>
<gbif:dataResources>
<gbif:dataResource gbifKey="11861" rdf:about="http://data.gbif.org/ws/rest/resource/get/11861">
<gbif:name>Centre for Environmental Data and Recording - Marine Data from Northern Ireland</gbif:name>
<gbif:rights>Access Constraints: There are no access constraints Use Constraints: None</gbif:rights>
<gbif:occurrenceRecords>
<to:TaxonOccurrence gbifKey="323531092" rdf:about="http://data.gbif.org/ws/rest/occurrence/get/323531092">
<to:catalogNumber>145943277</to:catalogNumber>
<to:decimalLatitude>54.44282927260804</to:decimalLatitude>
<to:decimalLongitude>-5.615833607594176</to:decimalLongitude>
<to:earliestDateCollected>1995-05-03</to:earliestDateCollected>
<to:latestDateCollected>1995-05-03</to:latestDateCollected>
<to:identifiedTo>
<to:Identification>
<to:taxon>
<tc:TaxonConcept gbifKey="58377981" rdf:about="http://data.gbif.org/ws/rest/taxon/get/58377981">
<tc:hasName>
<tn:TaxonName>
<tn:nameComplete>Modiolus modiolus</tn:nameComplete>
<tn:scientific>true</tn:scientific>
</tn:TaxonName>
</tc:hasName>
</tc:TaxonConcept>
</to:taxon>
<to:taxonName>Modiolus modiolus</to:taxonName>
</to:Identification>
</to:identifiedTo>
</to:TaxonOccurrence>
</gbif:occurrenceRecords>
</gbif:dataResource>
<gbif:dataResource gbifKey="11991" rdf:about="http://data.gbif.org/ws/rest/resource/get/11991">
<gbif:name>Countryside Council for Wales - Sublittoral Marine data from Countryside Council for Wales (CCW) Technical Support (Research & Monitoring) Contracts, Wales</gbif:name>
<gbif:rights>Access Constraints: CCW is legally obliged to give public access to the data and information which it holds unless specific legal exceptions apply, for example, if the data is personal or if release of the data would result in environmental harm. <br /><br /> This dataset may certain sensitive species and/or habitats for which detailed location data may be restricted. These include:- <ul> <li>King Scallop <i>Pecten maximus</i> (below 20km square) </li> <li>Queen Scallop <i>Aequipecten opercularis</i> (below 20km square) </li> <li>Native Oyster <i>Ostrea edulis</i> (below 20km square) </li> <li>Crayfish <i>Palinurus elephas</i> (below 20km square) </li> <li>Seahorse <i>Hippocampus guttulatus</i> (below 20km square) </li> <li>Short snouted seahorse <i>Hippocampus hippocampus</i> (below 20km square) </li> <li>Grey seal <i>Helichoerus grypus</i> (below 5km square) </li> <li>Harbour porpoise <i>Phocoena phocoena</i>(below 10km square) </li> <li>Bottlenose dolphin <i>Tursiops truncates</i>(below 10km square) </li> <li>Oyster bed habitat IMX.Ost (biotope code) (below 20km square) </li> </ul> Sensitive data may be made available under licence to approved individuals and organisations on request. Please apply for sensitive access via the Gateway. Use Constraints: There are no use restrictions on this dataset. <br /> © CCGC/CCW 2001 <br /> Recipients may re-use, reproduce, disseminate this dataset free of charge in any format or medium, provided they do so accurately, acknowledging both the source and CCW's copyright, and do not use it in a misleading context. It is the recipients responsibility to ensure the data is fit for the intended purpose and fairly interpreted. Advice on interpretation should be sought where required. To avoid re-using old data, users should periodically re-source the latest version from the original source.</gbif:rights>
<gbif:occurrenceRecords>
<to:TaxonOccurrence gbifKey="294933820" rdf:about="http://data.gbif.org/ws/rest/occurrence/get/294933820">
<to:catalogNumber>139196404</to:catalogNumber>
<to:country>GB</to:country>
<to:decimalLatitude>52.94180800474127</to:decimalLatitude>
<to:decimalLongitude>-4.633669135631383</to:decimalLongitude>
<to:earliestDateCollected>1999-06-08</to:earliestDateCollected>
<to:latestDateCollected>1999-06-08</to:latestDateCollected>
<to:identifiedTo>
<to:Identification>
<to:taxon>
<tc:TaxonConcept gbifKey="58618581" rdf:about="http://data.gbif.org/ws/rest/taxon/get/58618581">
<tc:hasName>
<tn:TaxonName>
<tn:nameComplete>Modiolus modiolus</tn:nameComplete>
<tn:scientific>true</tn:scientific>
</tn:TaxonName>
</tc:hasName>
</tc:TaxonConcept>
</to:taxon>
<to:taxonName>Modiolus modiolus</to:taxonName>
</to:Identification>
</to:identifiedTo>
</to:TaxonOccurrence>
</gbif:occurrenceRecords>
</gbif:dataResource>
<gbif:dataResource gbifKey="912" rdf:about="http://data.gbif.org/ws/rest/resource/get/912">
<gbif:name>Joint Nature Conservation Committee - Marine Nature Conservation Review (MNCR) and associated benthic marine data held and managed by JNCC</gbif:name>
<gbif:rights>Access Constraints: There are no access constraints to this dataset. All data are fully publicly available. Use Constraints: There are no constraints on how these data may be used other than those covered by the standard Gateway Terms and Conditions.</gbif:rights>
<gbif:occurrenceRecords>
<to:TaxonOccurrence gbifKey="298749237" rdf:about="http://data.gbif.org/ws/rest/occurrence/get/298749237">
<to:catalogNumber>14601661</to:catalogNumber>
<to:decimalLatitude>56.48062265316592</to:decimalLatitude>
<to:decimalLongitude>-6.146047631138913</to:decimalLongitude>
<to:earliestDateCollected>1983-06-08</to:earliestDateCollected>
<to:latestDateCollected>1983-06-08</to:latestDateCollected>
<to:identifiedTo>
<to:Identification>
<to:taxon>
<tc:TaxonConcept gbifKey="52316695" rdf:about="http://data.gbif.org/ws/rest/taxon/get/52316695">
<tc:hasName>
<tn:TaxonName>
<tn:nameComplete>Modiolus modiolus</tn:nameComplete>
<tn:scientific>true</tn:scientific>
</tn:TaxonName>
</tc:hasName>
</tc:TaxonConcept>
</to:taxon>
<to:taxonName>Modiolus modiolus</to:taxonName>
</to:Identification>
</to:identifiedTo>
</to:TaxonOccurrence>
<to:TaxonOccurrence gbifKey="298748288" rdf:about="http://data.gbif.org/ws/rest/occurrence/get/298748288">
<to:catalogNumber>14601500</to:catalogNumber>
<to:decimalLatitude>57.87090097326982</to:decimalLatitude>
<to:decimalLongitude>-5.115339089385152</to:decimalLongitude>
<to:earliestDateCollected>1991-05-17</to:earliestDateCollected>
<to:latestDateCollected>1991-05-17</to:latestDateCollected>
<to:identifiedTo>
<to:Identification>
<to:taxon>
<tc:TaxonConcept gbifKey="52316695" rdf:about="http://data.gbif.org/ws/rest/taxon/get/52316695">
<tc:hasName>
<tn:TaxonName>
<tn:nameComplete>Modiolus modiolus</tn:nameComplete>
<tn:scientific>true</tn:scientific>
</tn:TaxonName>
</tc:hasName>
</tc:TaxonConcept>
</to:taxon>
<to:taxonName>Modiolus modiolus</to:taxonName>
</to:Identification>
</to:identifiedTo>
</to:TaxonOccurrence>
<to:TaxonOccurrence gbifKey="298747297" rdf:about="http://data.gbif.org/ws/rest/occurrence/get/298747297">
<to:catalogNumber>14601333</to:catalogNumber>
<to:decimalLatitude>58.05172458870711</to:decimalLatitude>
<to:decimalLongitude>-6.667783219186223</to:decimalLongitude>
<to:earliestDateCollected>1988-07-27</to:earliestDateCollected>
<to:latestDateCollected>1988-07-27</to:latestDateCollected>
<to:identifiedTo>
<to:Identification>
<to:taxon>
<tc:TaxonConcept gbifKey="52316695" rdf:about="http://data.gbif.org/ws/rest/taxon/get/52316695">
<tc:hasName>
<tn:TaxonName>
<tn:nameComplete>Modiolus modiolus</tn:nameComplete>
<tn:scientific>true</tn:scientific>
</tn:TaxonName>
</tc:hasName>
</tc:TaxonConcept>
</to:taxon>
<to:taxonName>Modiolus modiolus</to:taxonName>
</to:Identification>
</to:identifiedTo>
</to:TaxonOccurrence>
</gbif:occurrenceRecords>
</gbif:dataResource>
<gbif:dataResource gbifKey="946" rdf:about="http://data.gbif.org/ws/rest/resource/get/946">
<gbif:name>Marine Biological Association - Marine survey data (Professional) held by <i>MarLIN</i>.</gbif:name>
<gbif:rights>Access Constraints: MarLIN Data available on the NBN is fully available to public users Use Constraints: None</gbif:rights>
<gbif:occurrenceRecords>
<to:TaxonOccurrence gbifKey="297500060" rdf:about="http://data.gbif.org/ws/rest/occurrence/get/297500060">
<to:catalogNumber>71275852</to:catalogNumber>
<to:decimalLatitude>53.23933440719636</to:decimalLatitude>
<to:decimalLongitude>-3.087199030536623</to:decimalLongitude>
<to:earliestDateCollected>1995-03-28</to:earliestDateCollected>
<to:latestDateCollected>1995-03-28</to:latestDateCollected>
<to:identifiedTo>
<to:Identification>
<to:taxon>
<tc:TaxonConcept gbifKey="52362455" rdf:about="http://data.gbif.org/ws/rest/taxon/get/52362455">
<tc:hasName>
<tn:TaxonName>
<tn:nameComplete>Modiolus modiolus</tn:nameComplete>
<tn:scientific>true</tn:scientific>
</tn:TaxonName>
</tc:hasName>
</tc:TaxonConcept>
</to:taxon>
<to:taxonName>Modiolus modiolus</to:taxonName>
</to:Identification>
</to:identifiedTo>
</to:TaxonOccurrence>
<to:TaxonOccurrence gbifKey="297426350" rdf:about="http://data.gbif.org/ws/rest/occurrence/get/297426350">
<to:catalogNumber>71263395</to:catalogNumber>
<to:decimalLatitude>52.43006145035265</to:decimalLatitude>
<to:decimalLongitude>-4.8296283365454675</to:decimalLongitude>
<to:identifiedTo>
<to:Identification>
<to:taxon>
<tc:TaxonConcept gbifKey="52362455" rdf:about="http://data.gbif.org/ws/rest/taxon/get/52362455">
<tc:hasName>
<tn:TaxonName>
<tn:nameComplete>Modiolus modiolus</tn:nameComplete>
<tn:scientific>true</tn:scientific>
</tn:TaxonName>
</tc:hasName>
</tc:TaxonConcept>
</to:taxon>
<to:taxonName>Modiolus modiolus</to:taxonName>
</to:Identification>
</to:identifiedTo>
</to:TaxonOccurrence>
</gbif:occurrenceRecords>
</gbif:dataResource>
<gbif:dataResource gbifKey="845" rdf:about="http://data.gbif.org/ws/rest/resource/get/845">
<gbif:name>Marine Conservation Society - Seasearch Marine Surveys</gbif:name>
<gbif:rights>Access Constraints: There are no access constraints Use Constraints: None. Seasearch/MCS should be acknowledged as the source of data as appropriate</gbif:rights>
<gbif:occurrenceRecords>
<to:TaxonOccurrence gbifKey="297672093" rdf:about="http://data.gbif.org/ws/rest/occurrence/get/297672093">
<to:catalogNumber>123689352</to:catalogNumber>
<to:decimalLatitude>60.25102816897923</to:decimalLatitude>
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<gbif:statements>-
This document contains data shared through the GBIF Network - see http://data.gbif.org/ for more information.
All usage of these data must be in accordance with the GBIF Data Use Agreement - see http://www.gbif.org/DataProviders/Agreements/DUA
Please cite these data as follows:
Botanic Garden and Botanical Museum Berlin-Dahlem, BoBO - Botanic Garden Berlin BDI Observations (accessed through GBIF data portal, http://data.gbif.org/datasets/resource/2402, 2011-11-21)
Field Museum, FMNH Mammals Collections (accessed through GBIF data portal, http://data.gbif.org/datasets/resource/177, 2011-11-21)
GBIF-Spain, Ministerio de Medio Ambiente, y Medio Rural y Marino. Dirección General de Medio Natural y Política Forestal. Inventario Nacional de Biodiversidad 2007, Mamíferos (accessed through GBIF data portal, http://data.gbif.org/datasets/resource/3369, 2011-11-21)
Marine Science Institute, UCSB, Paleobiology Database (accessed through GBIF data portal, http://data.gbif.org/datasets/resource/563, 2011-11-21)
Museum für Naturkunde Berlin, Animal Sound Archive Berlin (accessed through GBIF data portal, http://data.gbif.org/datasets/resource/11698, 2011-11-21)
PANGAEA - Publishing Network for Geoscientific and Environmental Data, Herdengelhoehle taxa and datings (accessed through GBIF data portal, http://data.gbif.org/datasets/resource/6232, 2011-11-21)
PANGAEA - Publishing Network for Geoscientific and Environmental Data, Occurrence of mammalia relicts at site Biedermann (accessed through GBIF data portal, http://data.gbif.org/datasets/resource/6243, 2011-11-21)
PANGAEA - Publishing Network for Geoscientific and Environmental Data, Occurrence of mammalia relicts at site Bocksteinschmiede (accessed through GBIF data portal, http://data.gbif.org/datasets/resource/6068, 2011-11-21)
PANGAEA - Publishing Network for Geoscientific and Environmental Data, Occurrence of mammalia relicts at site Conturines Höhle (accessed through GBIF data portal, http://data.gbif.org/datasets/resource/6272, 2011-11-21)
PANGAEA - Publishing Network for Geoscientific and Environmental Data, Occurrence of mammalia relicts at site Gamssulzenhöhle (accessed through GBIF data portal, http://data.gbif.org/datasets/resource/6233, 2011-11-21)
PANGAEA - Publishing Network for Geoscientific and Environmental Data, Occurrence of mammalia relicts at site Gare de Couze-Serie 2 (accessed through GBIF data portal, http://data.gbif.org/datasets/resource/6277, 2011-11-21)
PANGAEA - Publishing Network for Geoscientific and Environmental Data, Occurrence of mammalia relicts at site Hunas (accessed through GBIF data portal, http://data.gbif.org/datasets/resource/6212, 2011-11-21)
PANGAEA - Publishing Network for Geoscientific and Environmental Data, Occurrence of mammalia relicts at site Kogelstein (accessed through GBIF data portal, http://data.gbif.org/datasets/resource/6238, 2011-11-21)
PANGAEA - Publishing Network for Geoscientific and Environmental Data, Occurrence of mammalia relicts at site Krapina (accessed through GBIF data portal, http://data.gbif.org/datasets/resource/6085, 2011-11-21)
PANGAEA - Publishing Network for Geoscientific and Environmental Data, Occurrence of mammalia relicts at site Kugelsteinhöhle II (accessed through GBIF data portal, http://data.gbif.org/datasets/resource/6189, 2011-11-21)
PANGAEA - Publishing Network for Geoscientific and Environmental Data, Occurrence of mammalia relicts at site Sandalja II (accessed through GBIF data portal, http://data.gbif.org/datasets/resource/6100, 2011-11-21)
PANGAEA - Publishing Network for Geoscientific and Environmental Data, Occurrence of mammalia relicts at site Sernesul Rece Cave (accessed through GBIF data portal, http://data.gbif.org/datasets/resource/6251, 2011-11-21)
PANGAEA - Publishing Network for Geoscientific and Environmental Data, Occurrence of mammalia relicts at site Teufelsbrücke (accessed through GBIF data portal, http://data.gbif.org/datasets/resource/6226, 2011-11-21)
PANGAEA - Publishing Network for Geoscientific and Environmental Data, Occurrence of mammalia relicts at site Trebacki krs (accessed through GBIF data portal, http://data.gbif.org/datasets/resource/6215, 2011-11-21)
PANGAEA - Publishing Network for Geoscientific and Environmental Data, Occurrence of mammalia relicts at site Trou Jadot (accessed through GBIF data portal, http://data.gbif.org/datasets/resource/6237, 2011-11-21)
PANGAEA - Publishing Network for Geoscientific and Environmental Data, Occurrence of mammalia relicts at site Velika Pecina (accessed through GBIF data portal, http://data.gbif.org/datasets/resource/6097, 2011-11-21)
PANGAEA - Publishing Network for Geoscientific and Environmental Data, Occurrence of mammalia relicts at site Villa Seckendorff (accessed through GBIF data portal, http://data.gbif.org/datasets/resource/6084, 2011-11-21)
PANGAEA - Publishing Network for Geoscientific and Environmental Data, Occurrence of mammalia relicts at site l´Abri de Campalou (accessed through GBIF data portal, http://data.gbif.org/datasets/resource/6156, 2011-11-21)
University of Kansas Biodiversity Research Center, Mammal Collection (accessed through GBIF data portal, http://data.gbif.org/datasets/resource/984, 2011-11-21)
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<gbif:name>University of Kansas Biodiversity Research Center</gbif:name>
<gbif:dataResources>
<gbif:dataResource gbifKey="984" rdf:about="http://data.gbif.org/ws/rest/resource/get/984">
<gbif:name>Mammal Collection</gbif:name>
<gbif:rights>KU data records may be used by individual researchers or research groups, but they may not be repackaged, resold, or redistributed in any form without the express written consent of a curatorial staff member of the KU Mammal Collection. If any of these records are used in an analysis or report, the provenance of the original data must be acknowledged and KUNHM notified. The University of Kansas Museum of Natural History and its staff are not responsible for damages, injury or loss due to the use of these data.</gbif:rights>
<gbif:citation>KU Mammal Collection</gbif:citation>
<gbif:occurrenceRecords>
<to:TaxonOccurrence gbifKey="175820936" rdf:about="http://data.gbif.org/ws/rest/occurrence/get/175820936">
<to:catalogNumber>35435</to:catalogNumber>
<to:country>FRANCE</to:country>
<to:decimalLatitude>45.28</to:decimalLatitude>
<to:decimalLongitude>6.35</to:decimalLongitude>
<to:identifiedTo>
<to:Identification>
<to:taxon>
<tc:TaxonConcept gbifKey="52469496" rdf:about="http://data.gbif.org/ws/rest/taxon/get/52469496">
<tc:hasName>
<tn:TaxonName>
<tn:nameComplete>Marmota marmota</tn:nameComplete>
<tn:specificEpithet>marmota</tn:specificEpithet>
<tn:scientific>true</tn:scientific>
</tn:TaxonName>
</tc:hasName>
</tc:TaxonConcept>
</to:taxon>
<to:taxonName>Marmota marmota</to:taxonName>
</to:Identification>
</to:identifiedTo>
</to:TaxonOccurrence>
</gbif:occurrenceRecords>
</gbif:dataResource>
</gbif:dataResources>
</gbif:dataProvider>
<gbif:dataProvider gbifKey="21" rdf:about="http://data.gbif.org/ws/rest/provider/get/21">
<gbif:name>Botanic Garden and Botanical Museum Berlin-Dahlem</gbif:name>
<gbif:dataResources>
<gbif:dataResource gbifKey="2402" rdf:about="http://data.gbif.org/ws/rest/resource/get/2402">
<gbif:name>BoBO - Botanic Garden Berlin BDI Observations</gbif:name>
<gbif:citation>Güntsch, A. 2003 - (continuously updated): Open observation database at the BGBM Berlin-Dahlem.</gbif:citation>
<gbif:occurrenceRecords>
<to:TaxonOccurrence gbifKey="144028364" rdf:about="http://data.gbif.org/ws/rest/occurrence/get/144028364">
<to:catalogNumber>2</to:catalogNumber>
<to:country>DE</to:country>
<to:decimalLatitude>47.4</to:decimalLatitude>
<to:decimalLongitude>10.2</to:decimalLongitude>
<to:earliestDateCollected>2003-09-16</to:earliestDateCollected>
<to:latestDateCollected>2003-09-16</to:latestDateCollected>
<to:identifiedTo>
<to:Identification>
<to:taxon>
<tc:TaxonConcept gbifKey="55117857" rdf:about="http://data.gbif.org/ws/rest/taxon/get/55117857">
<tc:hasName>
<tn:TaxonName>
<tn:nameComplete>Marmota marmota</tn:nameComplete>
<tn:scientific>true</tn:scientific>
</tn:TaxonName>
</tc:hasName>
</tc:TaxonConcept>
</to:taxon>
<to:taxonName>Marmota marmota</to:taxonName>
</to:Identification>
</to:identifiedTo>
</to:TaxonOccurrence>
</gbif:occurrenceRecords>
</gbif:dataResource>
</gbif:dataResources>
</gbif:dataProvider>
</gbif:dataProviders>
</gbif:gbifResponse>
/gbif:gbifResponse/gbif:header/gbif:statements
to
http://rs.tdwg.org/ontology/voc/TaxonOccurrence#
tn
http://rs.tdwg.org/ontology/voc/TaxonName#
gbif
http://portal.gbif.org/ws/response/gbif
tc
http://rs.tdwg.org/ontology/voc/TaxonConcept#
rdf
http://www.w3.org/1999/02/22-rdf-syntax-ns#
tcom
http://rs.tdwg.org/ontology/voc/Common#
xsi
http://www.w3.org/2001/XMLSchema-instance
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize
1
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry
1.0
1000
5000
0
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invokeextract_single_statementsstringlist1concatenated00net.sf.taverna.t2.activitieslocalworker-activity1.3net.sf.taverna.t2.activities.localworker.LocalworkerActivity
stringlist
1
l('text/plain')
java.lang.String
true
seperator
0
'text/plain'
java.lang.String
true
concatenated
0
'text/plain'
0
workflow
org.embl.ebi.escience.scuflworkers.java.StringListMerge
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize
1
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry
1.0
1000
5000
0
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeFetch_occurrence_dataspecies_name0responseBody00net.sf.taverna.t2.activitiesrest-activity1.3net.sf.taverna.t2.activities.rest.RESTActivity
GET
http://data.gbif.org/ws/rest/occurrence/list?scientificname={species_name}&coordinatestatus=true&maxresults=100000&mode=processed
application/xml
application/xml
String
false
false
true
species_name
java.lang.String
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize
1
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry
1.0
1000
5000
0
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invokeextract_occurrencesxml_textextract_longitudexml_textextract_latitudexml_textfind_coordinateslongitudefind_coordinateslatitudeextract_statementsxml_textextract_single_statementsstringlistFetch_occurrence_dataspecies_namecoordinatesprovision_statements
eae4566c-44bb-43b6-a6b7-7736749d50c8
2011-11-17 14:01:54.825 GMT
e64a89e1-52d9-4588-993e-06f8de03e3a1
2011-11-21 17:15:31.381 GMT
5826d322-a09d-423f-aed7-6b655750ff8a
2011-11-17 14:07:26.824 GMT
f14ed3b2-64c7-4dfc-a5a0-f23462e6f3a4
2011-11-25 11:27:51.921 GMT
8b877f7d-90cc-43e9-a1f6-0c810610aa31
2011-11-03 12:45:21.747 GMT
This workflow fetches the occurrences for a species from GBIF. The occurrences are shown in Google Earth and once the bounding box is accepted, the Darwin data is downloaded. Because the data can be paged a second looping workflow is used.
2011-11-24 15:31:07.938 GMT
aaab4c87-abe0-4db5-b6a2-f449716dbc70
2011-11-24 16:06:49.43 GMT
51c12166-0f9c-4199-a419-5552f10e5e1f
2011-11-17 15:45:17.577 GMT
07cb38e2-4a96-4080-a2e4-a560ec9b124a
2011-11-17 13:46:53.330 GMT
4ab3e078-3db2-485d-be63-0ce305a3926d
2011-11-17 12:00:23.185 GMT
775334f2-f73b-42bf-986b-ef7268def668
2011-11-21 12:32:57.732 GMT
f9ffb510-ed48-476f-a739-15e6b2f60e3b
2011-11-07 17:32:01.367 GMT
753e5f58-a472-4142-b95d-d9573f36b332
2011-11-17 16:00:02.727 GMT
4e091213-f944-4900-af40-f1dd4e4aa72a
2011-11-25 10:10:24.708 GMT
bdb03d43-9cdf-4a1b-acee-f8d21e671fe1
2011-11-21 17:26:12.311 GMT
d0c8880c-b38a-4ee4-8061-42965d700245
2011-11-21 17:06:36.557 GMT
13892249-4c2b-4578-b7e4-dcb1e312a0b9
2011-11-21 17:14:43.428 GMT
351fb7ca-e305-4961-b18f-47dc2c9224a2
2011-11-03 12:43:48.107 GMT
d550d218-7bb0-4160-a1e5-a95757e1563a
2011-11-21 16:42:25.616 GMT
6cf87b8a-5621-46bc-8533-ff5389736788
2011-11-17 14:32:52.466 GMT
4c14f208-62d0-48fc-982d-973de92b5af8
2011-11-17 15:56:30.871 GMT
99a8f0fb-952e-429d-a7b7-fe2950c6b325
2011-11-24 16:24:47.960 GMT
6914be67-5995-424f-b3a0-171a841c30f3
2011-11-24 16:53:04.423 GMT
c635fe47-2b02-47ce-a88a-0a1a4013a2b6
2011-11-17 14:50:30.653 GMT
4576ead4-e1ce-4853-a8e5-aaadc5c8fb0a
2011-11-24 16:18:52.769 GMT
e708cf8d-2460-4578-8171-53a5ac4af38c
2011-11-21 16:52:48.127 GMT
3f08bd3d-135d-4d06-9820-daa78fabbd99
2011-11-24 16:53:36.455 GMT
c9834706-55ee-4354-ab2f-591ef80bbbf0
2011-11-17 14:53:13.779 GMT
5ed0b5f0-ca2a-4615-8241-cff70ccf757f
2011-11-24 15:37:08.1 GMT
f07b59a3-98e9-476d-bd92-bef49502c1f2
2011-11-24 15:40:46.359 GMT
Fetch species points from GBIF
2011-11-24 15:29:19.211 GMT
a1f4395d-caea-4cea-91aa-30b17c94e913
2011-11-21 16:51:15.306 GMT
6d073164-cb1a-4848-9bc6-5d4e6c748659
2011-11-17 12:16:32.275 GMT
97ec1853-97d9-4428-8d22-ae608ce49b52
2011-11-17 12:13:02.467 GMT
6d654295-02a8-4d47-bcc8-75bc97a6849b
2011-11-21 16:54:16.359 GMT
Alan R Williams
2011-11-24 15:29:24.274 GMT
7521fb4e-e928-4140-a6b7-c3b1ef42e1c5
2011-11-24 16:46:20.968 GMT
Test_modeltestModel_configuration00
The configuration to use to test the model
2011-11-24 17:39:14.746 GMT
output_progress
The progress in creating the model. This should be -2 (failure) or 100 (success) for the looping to have finished.
2011-11-24 17:43:17.964 GMT
output_log
The log of the model testing. This is output for information.
2011-11-24 17:42:16.371 GMT
test_statistics
An XML string containing details of the results of the test
2011-11-24 17:44:05.139 GMT
loop_until_progress_completeinput_ticket0output_progress00net.sf.taverna.t2.activitiesdataflow-activity1.3net.sf.taverna.t2.activities.dataflow.DataflowActivitynet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize
1
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Loop
<activity xmlns="http://taverna.sf.net/2008/xml/t2flow"><raven><group>net.sf.taverna.t2.activities</group><artifact>beanshell-activity</artifact><version>1.3</version></raven><class>net.sf.taverna.t2.activities.beanshell.BeanshellActivity</class><inputMap /><outputMap /><configBean encoding="xstream"><net.sf.taverna.t2.activities.beanshell.BeanshellActivityConfigurationBean xmlns="">
<inputs>
<net.sf.taverna.t2.workflowmodel.processor.activity.config.ActivityInputPortDefinitionBean>
<name>output_progress</name>
<depth>0</depth>
<mimeTypes class="java.util.Collections$EmptyList" />
<handledReferenceSchemes class="java.util.Collections$EmptyList" reference="../mimeTypes" />
<translatedElementType>java.lang.String</translatedElementType>
<allowsLiteralValues>true</allowsLiteralValues>
</net.sf.taverna.t2.workflowmodel.processor.activity.config.ActivityInputPortDefinitionBean>
</inputs>
<outputs>
<net.sf.taverna.t2.workflowmodel.processor.activity.config.ActivityOutputPortDefinitionBean>
<name>loop</name>
<depth>0</depth>
<mimeTypes />
<granularDepth>0</granularDepth>
</net.sf.taverna.t2.workflowmodel.processor.activity.config.ActivityOutputPortDefinitionBean>
</outputs>
<classLoaderSharing>workflow</classLoaderSharing>
<localDependencies />
<artifactDependencies />
<script>loop = "" + !(output_progress.equals("-2") ||
output_progress.equals("100"));
if ("true".matches(loop)) {
Thread.sleep(30000);
}</script>
<dependencies />
</net.sf.taverna.t2.activities.beanshell.BeanshellActivityConfigurationBean></configBean><annotations /></activity>
true
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry
1.0
1000
5000
0
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokegetLogparameters0parameters00net.sf.taverna.t2.activitieswsdl-activity1.3net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://openmodeller.cria.org.br/ws/1.0/extras/ws1.wsdl
getLog
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize
1
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry
1.0
30000
30000
20
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokegetLog_inputticket0output00net.sf.taverna.t2.activitieswsdl-activity1.3net.sf.taverna.t2.activities.wsdl.xmlsplitter.XMLInputSplitterActivity
ticket
0
'text/plain'
false
output
0
'text/xml'
0
<s:extensions xmlns:s="http://org.embl.ebi.escience/xscufl/0.1alpha"><s:complextype optional="false" unbounded="false" typename="getLog" name="parameters" qname="{http://openmodeller.cria.org.br/ws/1.0}getLog"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="ticket" qname=">getLog>ticket" /></s:elements></s:complextype></s:extensions>
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize
1
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry
1.0
1000
5000
0
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokegetLog_outputinput0log00net.sf.taverna.t2.activitieswsdl-activity1.3net.sf.taverna.t2.activities.wsdl.xmlsplitter.XMLOutputSplitterActivity
input
0
'text/xml'
java.lang.String
false
log
0
'text/plain'
0
<s:extensions xmlns:s="http://org.embl.ebi.escience/xscufl/0.1alpha"><s:complextype optional="false" unbounded="false" typename="getLogResponse" name="parameters" qname="{http://openmodeller.cria.org.br/ws/1.0}getLogResponse"><s:elements><s:basetype optional="false" unbounded="false" typename="string" name="log" qname=">getLogResponse>log" /></s:elements></s:complextype></s:extensions>
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize
1
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry
1.0
1000
5000
0
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvoketestModelparameters0parameters00net.sf.taverna.t2.activitieswsdl-activity1.3net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://openmodeller.cria.org.br/ws/1.0/extras/ws1.wsdl
testModel
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize
1
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry
1.0
1000
5000
0
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvoketestModel_outputinput0ticket00net.sf.taverna.t2.activitieswsdl-activity1.3net.sf.taverna.t2.activities.wsdl.xmlsplitter.XMLOutputSplitterActivity
input
0
'text/xml'
java.lang.String
false
ticket
0
'text/plain'
0
<s:extensions xmlns:s="http://org.embl.ebi.escience/xscufl/0.1alpha"><s:complextype optional="false" unbounded="false" typename="testModelResponse" name="parameters" qname="{http://openmodeller.cria.org.br/ws/1.0}testModelResponse"><s:elements><s:basetype optional="false" unbounded="false" typename="string" name="ticket" qname=">testModelResponse>ticket" /></s:elements></s:complextype></s:extensions>
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize
1
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry
1.0
1000
5000
0
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokegetTestResultparameters0parameters00net.sf.taverna.t2.activitieswsdl-activity1.3net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://openmodeller.cria.org.br/ws/1.0/extras/ws1.wsdl
getTestResult
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize
1
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry
1.0
30000
30000
20
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokegetTestResult_outputinput0TestResultEnvelope00net.sf.taverna.t2.activitieswsdl-activity1.3net.sf.taverna.t2.activities.wsdl.xmlsplitter.XMLOutputSplitterActivity
input
0
'text/xml'
java.lang.String
false
TestResultEnvelope
0
'text/xml'
0
<s:extensions xmlns:s="http://org.embl.ebi.escience/xscufl/0.1alpha"><s:complextype optional="false" unbounded="false" typename="testResponse" name="parameters" qname="{http://openmodeller.cria.org.br/ws/1.0}testResponse"><s:elements><s:complextype optional="true" unbounded="false" typename="TestResultEnvelope" name="TestResultEnvelope" qname="{http://openmodeller.cria.org.br/xml/1.0}>testResponse>TestResultEnvelope"><s:elements><s:complextype optional="true" unbounded="false" typename="ModelStatisticsType" name="Statistics" qname="{http://openmodeller.cria.org.br/xml/1.0}TestResultEnvelopeType>Statistics"><s:elements><s:complextype optional="true" unbounded="false" typename=">ModelStatisticsType>ConfusionMatrix" name="ConfusionMatrix" qname="{http://openmodeller.cria.org.br/xml/1.0}ModelStatisticsType>ConfusionMatrix"><s:elements /><s:attributes><s:attribute optional="false" unbounded="false" typename=">ModelStatisticsType>ConfusionMatrix>Threshold" name="Threshold" qname=">ModelStatisticsType>ConfusionMatrix>Threshold" /><s:attribute optional="false" unbounded="false" typename=">ModelStatisticsType>ConfusionMatrix>Accuracy" name="Accuracy" qname=">ModelStatisticsType>ConfusionMatrix>Accuracy" /><s:attribute optional="false" unbounded="false" typename=">ModelStatisticsType>ConfusionMatrix>OmissionError" name="OmissionError" qname=">ModelStatisticsType>ConfusionMatrix>OmissionError" /><s:attribute optional="false" unbounded="false" typename=">ModelStatisticsType>ConfusionMatrix>CommissionError" name="CommissionError" qname=">ModelStatisticsType>ConfusionMatrix>CommissionError" /><s:attribute optional="true" unbounded="false" typename=">ModelStatisticsType>ConfusionMatrix>TruePositives" name="TruePositives" qname=">ModelStatisticsType>ConfusionMatrix>TruePositives" /><s:attribute optional="true" unbounded="false" typename=">ModelStatisticsType>ConfusionMatrix>FalsePositives" name="FalsePositives" qname=">ModelStatisticsType>ConfusionMatrix>FalsePositives" /><s:attribute optional="true" unbounded="false" typename=">ModelStatisticsType>ConfusionMatrix>TrueNegatives" name="TrueNegatives" qname=">ModelStatisticsType>ConfusionMatrix>TrueNegatives" /><s:attribute optional="true" unbounded="false" typename=">ModelStatisticsType>ConfusionMatrix>FalseNegatives" name="FalseNegatives" qname=">ModelStatisticsType>ConfusionMatrix>FalseNegatives" /></s:attributes></s:complextype><s:complextype optional="true" unbounded="false" typename=">ModelStatisticsType>RocCurve" name="RocCurve" qname="{http://openmodeller.cria.org.br/xml/1.0}ModelStatisticsType>RocCurve"><s:elements /><s:attributes><s:attribute optional="false" unbounded="false" typename=">ModelStatisticsType>RocCurve>Auc" name="Auc" qname=">ModelStatisticsType>RocCurve>Auc" /><s:attribute optional="false" unbounded="false" typename=">ModelStatisticsType>RocCurve>Points" name="Points" qname=">ModelStatisticsType>RocCurve>Points" /></s:attributes></s:complextype></s:elements></s:complextype></s:elements></s:complextype></s:elements></s:complextype></s:extensions>
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize
1
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry
1.0
1000
5000
0
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokegetTestResult_TestResultEnvelopeinput0Statistics00net.sf.taverna.t2.activitieswsdl-activity1.3net.sf.taverna.t2.activities.wsdl.xmlsplitter.XMLOutputSplitterActivity
input
0
'text/xml'
java.lang.String
false
Statistics
0
'text/xml'
0
<s:extensions xmlns:s="http://org.embl.ebi.escience/xscufl/0.1alpha"><s:complextype optional="true" unbounded="false" typename="TestResultEnvelope" name="TestResultEnvelope" qname="{http://openmodeller.cria.org.br/xml/1.0}>testResponse>TestResultEnvelope"><s:elements><s:complextype optional="true" unbounded="false" typename="ModelStatisticsType" name="Statistics" qname="{http://openmodeller.cria.org.br/xml/1.0}TestResultEnvelopeType>Statistics"><s:elements><s:complextype optional="true" unbounded="false" typename=">ModelStatisticsType>ConfusionMatrix" name="ConfusionMatrix" qname="{http://openmodeller.cria.org.br/xml/1.0}ModelStatisticsType>ConfusionMatrix"><s:elements /><s:attributes><s:attribute optional="false" unbounded="false" typename=">ModelStatisticsType>ConfusionMatrix>Threshold" name="Threshold" qname=">ModelStatisticsType>ConfusionMatrix>Threshold" /><s:attribute optional="false" unbounded="false" typename=">ModelStatisticsType>ConfusionMatrix>Accuracy" name="Accuracy" qname=">ModelStatisticsType>ConfusionMatrix>Accuracy" /><s:attribute optional="false" unbounded="false" typename=">ModelStatisticsType>ConfusionMatrix>OmissionError" name="OmissionError" qname=">ModelStatisticsType>ConfusionMatrix>OmissionError" /><s:attribute optional="false" unbounded="false" typename=">ModelStatisticsType>ConfusionMatrix>CommissionError" name="CommissionError" qname=">ModelStatisticsType>ConfusionMatrix>CommissionError" /><s:attribute optional="true" unbounded="false" typename=">ModelStatisticsType>ConfusionMatrix>TruePositives" name="TruePositives" qname=">ModelStatisticsType>ConfusionMatrix>TruePositives" /><s:attribute optional="true" unbounded="false" typename=">ModelStatisticsType>ConfusionMatrix>FalsePositives" name="FalsePositives" qname=">ModelStatisticsType>ConfusionMatrix>FalsePositives" /><s:attribute optional="true" unbounded="false" typename=">ModelStatisticsType>ConfusionMatrix>TrueNegatives" name="TrueNegatives" qname=">ModelStatisticsType>ConfusionMatrix>TrueNegatives" /><s:attribute optional="true" unbounded="false" typename=">ModelStatisticsType>ConfusionMatrix>FalseNegatives" name="FalseNegatives" qname=">ModelStatisticsType>ConfusionMatrix>FalseNegatives" /></s:attributes></s:complextype><s:complextype optional="true" unbounded="false" typename=">ModelStatisticsType>RocCurve" name="RocCurve" qname="{http://openmodeller.cria.org.br/xml/1.0}ModelStatisticsType>RocCurve"><s:elements /><s:attributes><s:attribute optional="false" unbounded="false" typename=">ModelStatisticsType>RocCurve>Auc" name="Auc" qname=">ModelStatisticsType>RocCurve>Auc" /><s:attribute optional="false" unbounded="false" typename=">ModelStatisticsType>RocCurve>Points" name="Points" qname=">ModelStatisticsType>RocCurve>Points" /></s:attributes></s:complextype></s:elements></s:complextype></s:elements></s:complextype></s:extensions>
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize
1
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry
1.0
1000
5000
0
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invokeloop_until_progress_completeinput_ticketgetLogparametersgetLog_inputticketgetLog_outputinputtestModelparameterstestModel_outputinputgetTestResultparametersgetTestResult_outputinputgetTestResult_TestResultEnvelopeinputoutput_progressoutput_logtest_statistics
92ddda76-d9d3-432d-89c1-14299c1cc81f
2011-11-22 17:10:23.70 GMT
29f37aee-a378-48a7-b93a-5ff8a905ad56
2011-11-01 11:57:39.12 GMT
Alan R Williams
2011-11-24 17:38:18.474 GMT
This workflow uses OpenModeller to test a model using the specified configuration
2011-11-24 17:38:53.514 GMT
e9de109a-5135-4c3c-839d-dcf82bc3fa30
2011-11-01 15:04:23.263 GMT
677ba6d4-bf6c-4662-9e5f-9e78df98f55f
2011-11-01 12:41:25.944 GMT
6a5d90c7-3533-4f74-bf8d-99e70dcc20bd
2011-11-29 17:39:36.745 GMT
78eb0e64-0b62-4d9f-9615-0ab55248c180
2011-11-01 12:32:31.796 GMT
4da4102f-8671-42d1-ae5e-4242853ccd68
2011-11-01 16:20:19.589 GMT
Test model
2011-11-24 17:38:13.898 GMT
73913773-e684-4aa6-9beb-ff6adc8f30ee
2011-11-01 11:34:44.825 GMT
df90423c-27c5-43a9-87fe-1274eede8691
2011-11-22 16:34:54.535 GMT
8bee7949-a15c-4580-89b1-cb93766a45ca
2011-11-01 16:23:20.128 GMT
d96bdc79-0b84-4acf-8640-a0d121389834
2011-11-04 12:44:11.745 GMT
355cef2e-25d4-4536-ae04-ee179ea5ba69
2011-11-01 11:50:16.51 GMT
81f8e562-7c82-43f3-b930-d5e03b8eaf41
2011-11-01 12:37:04.176 GMT
1fd43924-92a7-463f-a883-72ead95d64ba
2011-11-01 12:42:22.377 GMT
6499f3c4-752b-4a0c-8d5f-58e243657e79
2011-11-24 17:44:13.748 GMT
d2e85856-ff10-44f7-81fe-39e7b8cc8f93
2011-11-24 17:57:32.279 GMT
b5972b2a-dd73-4e14-9e66-bf5e29f814e3
2011-11-01 13:58:36.479 GMT
e72ddcf7-8ffb-413b-9039-e0b5ce3cc011
2011-11-01 11:17:19.381 GMT
Select_layersSelected_layers
A string containing a newline separated list of the ids of the selected layers
2011-11-24 17:10:24.83 GMT
Select_layersxmltext0chosen_layers00net.sf.taverna.t2.activitiesbeanshell-activity1.3net.sf.taverna.t2.activities.beanshell.BeanshellActivity
xmltext
0
text/plain
java.lang.String
true
chosen_layers
0
0
workflow
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize
1
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry
1.0
1000
5000
0
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokegetLayersparameters00net.sf.taverna.t2.activitieswsdl-activity1.3net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://openmodeller.cria.org.br/ws/1.0/extras/ws1.wsdl
getLayers
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize
1
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry
1.0
1000
5000
0
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeSelect_layersxmltextSelected_layers
2f93271b-22fc-4838-8b2a-057e78322e07
2011-11-08 14:42:36.732 GMT
9cfbf68e-ac6e-45c0-ae53-374460e4d148
2011-11-07 11:54:36.400 GMT
d32b58a8-99a3-4598-bc4e-656b6cafaa55
2011-11-07 11:36:51.623 GMT
52a149c2-2ce9-4f24-b4f2-1bc74f2d28d8
2011-11-07 11:05:30.780 GMT
2bbb15ab-3387-46c2-bd96-32d2f79a22f3
2011-11-21 13:37:05.322 GMT
67472115-8219-4de3-b4e2-ede5105ac731
2011-11-07 12:02:24.974 GMT
86d0e4db-2c83-40d1-b18a-54ed0815ff2d
2011-11-07 10:55:20.725 GMT
5f96a22d-8aef-4456-a84e-e4cc01b80896
2011-11-07 16:24:48.124 GMT
629176dd-28f1-4b22-9474-1e68df4442c1
2011-11-07 15:46:55.768 GMT
5a2d744b-db17-4c9f-8981-701dfb7142a6
2011-11-07 16:46:37.332 GMT
This workflow shows fetches the layers from OpenModeller and shows a dialog in which users can select layers from a tree.
2011-11-24 17:09:34.885 GMT
c07daca4-8161-4713-9659-3ef75ae1aa46
2011-11-07 11:55:55.166 GMT
cfbfdc63-f7e7-4392-b124-df1de76434b3
2011-11-07 13:56:15.576 GMT
95f96259-0e60-4ef4-af9f-1cf2818f3894
2011-11-07 13:39:31.533 GMT
d15a9a08-cb9b-4b98-ae14-60b4dd30b594
2011-11-21 13:38:47.423 GMT
Alan R Williams
2011-11-07 16:46:26.145 GMT
14234341-3c07-4ef7-af07-78191a6e6ad6
2011-11-07 14:54:33.283 GMT
7a7019ef-563c-4e89-b5a3-c3576e5ed376
2011-11-07 13:30:14.92 GMT
9033309a-2ccf-4ac3-b8f2-afdbd8f234e3
2011-11-07 13:45:04.958 GMT
97e6d776-e39d-428c-8c09-b3838a2d965f
2011-11-07 15:50:30.125 GMT
ef7866ee-d163-4ac4-b417-991487162f7c
2011-11-07 11:41:26.910 GMT
415533a7-8775-4780-839a-75323d1ea754
2011-11-07 14:26:07.664 GMT
6179d62d-5218-47ec-aeb4-a81d7fa49f31
2011-11-07 11:05:04.342 GMT
bfa45783-9527-47c8-8036-b01e2132a6f3
2011-11-07 13:29:30.988 GMT
d683a64b-489a-4788-9ba6-d2db9b09b3e0
2011-11-07 13:43:45.173 GMT
f57ea8fb-1353-46c7-8e07-ab015f3ab1b1
2011-11-07 15:07:34.308 GMT
0210fd73-50d9-4fc3-b537-4d46a4bf8dea
2011-11-24 17:10:29.524 GMT
9e188118-e36e-441f-ad72-65896446123a
2011-11-07 11:37:34.475 GMT
d10aacd8-cc60-4b3c-8ada-84cf8015e306
2011-11-07 12:01:25.832 GMT
b2394512-261c-4471-ae73-a97cf4be991c
2011-11-07 13:38:04.370 GMT
811d08ee-dc9b-4807-b04d-6c8b0f4bf6d2
2011-11-07 14:56:21.929 GMT
0feaaebc-f00e-4f30-8f2e-faaa0df622fd
2011-11-08 15:46:07.116 GMT
a3a0ec97-ba70-4f84-a84b-c6349d38117d
2011-11-07 14:27:56.271 GMT
9a952af2-3e5c-4d69-8272-c556c03efcf0
2011-11-07 15:51:10.379 GMT
Select layers
2011-11-07 16:46:32.384 GMT
bdd29b5a-1699-42a5-819d-c014ae205c36
2011-11-07 15:47:20.499 GMT
cc5d003b-786a-48c6-ac2c-56d2142ee347
2011-11-07 11:59:55.519 GMT
9677c954-af86-453c-bb1e-46bea2fafa19
2011-11-07 12:04:08.407 GMT
4d965cad-8d80-47ce-96a3-af6e8c95f3a6
2011-11-07 15:54:03.594 GMT
476cf232-efcd-40a1-ae03-e49d6051d82f
2011-11-21 13:35:08.27 GMT
2f386ca2-6fb5-489f-8e79-a017006af91c
2011-11-07 15:49:32.770 GMT
236e872c-68de-4d11-919b-dab106f56550
2011-11-07 13:36:32.144 GMT
a239cdb0-9551-4d6b-a7c9-f394f156d495
2011-11-07 12:06:19.138 GMT
3eb9ea8a-ddd0-46cf-94bb-a9af58355e53
2011-11-07 13:27:50.582 GMT
708627be-33d4-47a6-a7c5-71a976204532
2011-11-07 15:51:53.984 GMT
63e9622d-a15f-4b25-af51-df9e693982a0
2011-11-07 14:29:23.237 GMT
98004f7c-662d-4b5f-b53e-55fb5eba07b4
2011-11-07 11:07:52.479 GMT
fdc89e45-1bac-4285-a7ae-0e8683d384fb
2011-11-07 13:38:42.579 GMT
1967d6cb-dfaf-4d79-8a3a-41da5c75d83d
2011-11-07 15:45:47.285 GMT
514697f2-5ed6-4541-83b0-6d4003f17a08
2011-11-08 14:41:56.863 GMT
e2c01c4b-c52b-4541-9508-c2c10b9168c6
2011-11-07 15:44:27.720 GMT
26a29254-3fd9-4315-88db-13cfb9e05a06
2011-11-07 14:51:59.894 GMT
Workflow72statistics00answerXPath_Servicexml_text0nodelistAsXML11net.sf.taverna.t2.activitiesxpath-activity1.3net.sf.taverna.t2.activities.xpath.XPathActivity
<?xml version="1.0" encoding="UTF-8"?>
<Statistics xmlns="http://openmodeller.cria.org.br/xml/1.0">
<ConfusionMatrix Accuracy="100" CommissionError="-100" FalseNegatives="0" FalsePositives="0" OmissionError="0" Threshold="0.5" TrueNegatives="0" TruePositives="11"/>
<RocCurve Auc="0.5" NumBackgroundPoints="10000" Points="0 0 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1"/></Statistics>
/default:Statistics/default:ConfusionMatrix/@*
default
http://openmodeller.cria.org.br/xml/1.0
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize
1
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry
1.0
1000
5000
0
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeMerge_String_List_to_a_Stringstringlist1concatenated00net.sf.taverna.t2.activitieslocalworker-activity1.3net.sf.taverna.t2.activities.localworker.LocalworkerActivity
stringlist
1
l('text/plain')
java.lang.String
true
seperator
0
'text/plain'
java.lang.String
true
concatenated
0
'text/plain'
0
workflow
org.embl.ebi.escience.scuflworkers.java.StringListMerge
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize
1
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry
1.0
1000
5000
0
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeTellmessage0title0answer00net.sf.taverna.t2.activitieslocalworker-activity1.3net.sf.taverna.t2.activities.localworker.LocalworkerActivity
title
0
'text/plain'
java.lang.String
true
message
0
'text/plain'
java.lang.String
true
answer
0
0
workflow
net.sourceforge.taverna.scuflworkers.ui.TellWorker
UserNameHere
2011-11-22 17:46:19.453 GMT
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize
1
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry
1.0
1000
5000
0
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invoketitle_valuevalue00net.sf.taverna.t2.activitiesstringconstant-activity1.3net.sf.taverna.t2.activities.stringconstant.StringConstantActivity
Confusion matrix
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize
1
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry
1.0
1000
5000
0
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeXPath_Servicexml_textMerge_String_List_to_a_StringstringlistTellmessageTelltitleanswer
80d43ce7-918c-4d85-83d2-d49fb65d8963
2011-11-22 17:40:00.609 GMT
a31622bc-e0db-493a-bfe3-725f89afe633
2011-11-22 17:44:15.476 GMT
2f4d1128-a682-4f54-b6bd-05852286a969
2011-11-22 17:46:24.509 GMT
26d60de8-3b35-441e-a7c8-d01e4685d09f
2011-11-22 17:51:51.106 GMT
Extract_model_algorithmserialized_model00
A serialized model generated by OpenModeller
2011-11-24 17:32:07.616 GMT
model_algorithm
The algorithm as determined from create model
2011-11-24 17:32:43.600 GMT
XPath_Servicexml_text0nodelistAsXML11net.sf.taverna.t2.activitiesxpath-activity1.3net.sf.taverna.t2.activities.xpath.XPathActivity
<?xml version="1.0" encoding="UTF-8"?>
<ModelParameters xmlns="http://openmodeller.cria.org.br/xml/1.0">
<Sampler>
<Environment>
<Map Id="/system/modelagem/layers/publico/clima/WORLDCLIM/temperatura/tmax_10min/tmax_1" IsCategorical="0"/>
<Map Id="/system/modelagem/layers/publico/clima/WORLDCLIM/temperatura/tmin_10min/tmin_1" IsCategorical="0"/>
<Map Id="/system/modelagem/layers/publico/clima/WORLDCLIM/precipitacao/prec_10min/prec_1" IsCategorical="0"/>
<Map Id="/system/modelagem/layers/publico/topografia/WORLDCLIM/alt_2-5min/alt" IsCategorical="0"/>
<Mask Id="/system/modelagem/layers/publico/clima/WORLDCLIM/temperatura/tmax_10min/tmax_1"/>
</Environment>
<Presence Label="Test species">
<CoordinateSystem>GEOGCS['1924 ellipsoid',DATUM['Not_specified',SPHEROID['International 1924',6378388,297,AUTHORITY['EPSG','7022']],AUTHO\
RITY['EPSG','6022']],PRIMEM['Greenwich',0,AUTHORITY['EPSG','8901']],UNIT['degree',0.0174532925199433,AUTHORITY['EPSG','9108']],AUTHORITY[\
'EPSG','4022']]</CoordinateSystem>
<!-- Here be points -->
</Presence>
</Sampler>
<!-- Here be algorithm -->
</ModelParameters>
/default:SerializedModel/default:Algorithm
default
http://openmodeller.cria.org.br/xml/1.0
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize
1
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry
1.0
1000
5000
0
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeMerge_String_List_to_a_Stringstringlist1concatenated00net.sf.taverna.t2.activitieslocalworker-activity1.3net.sf.taverna.t2.activities.localworker.LocalworkerActivity
stringlist
1
l('text/plain')
java.lang.String
true
seperator
0
'text/plain'
java.lang.String
true
concatenated
0
'text/plain'
0
workflow
org.embl.ebi.escience.scuflworkers.java.StringListMerge
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize
1
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry
1.0
1000
5000
0
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeXPath_Servicexml_textMerge_String_List_to_a_Stringstringlistmodel_algorithm
Extract model algorithm
2011-11-22 17:26:06.696 GMT
25da4751-6904-49fc-b4a5-41cb125fd401
2011-11-22 17:26:41.469 GMT
Alan R Williams
2011-11-24 17:31:09.225 GMT
This workflow extracts the algorithm and its details from a serialized model
2011-11-24 17:31:47.576 GMT
aacec224-143c-4f94-a2dc-55d781708072
2011-11-24 17:32:47.265 GMT
Project_modelprojectModel_configuration00
The configuration to use to project the model
2011-11-24 17:52:42.494 GMT
output_progress
The progress in projecting the model. This should be -2 (failure) or 100 (success) for the looping to have finished.
2011-11-24 17:56:17.654 GMT
output_log
The log of the model testing. This is output for information.
2011-11-24 17:54:55.160 GMT
area_statistics
Some information about the model projection
2011-11-24 17:57:04.567 GMT
projected_layer_url
The URL of the projected layer
2011-11-24 17:56:29.975 GMT
loop_until_progress_completeinput_ticket0output_progress00net.sf.taverna.t2.activitiesdataflow-activity1.3net.sf.taverna.t2.activities.dataflow.DataflowActivitynet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize
1
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Loop
<activity xmlns="http://taverna.sf.net/2008/xml/t2flow"><raven><group>net.sf.taverna.t2.activities</group><artifact>beanshell-activity</artifact><version>1.3</version></raven><class>net.sf.taverna.t2.activities.beanshell.BeanshellActivity</class><inputMap /><outputMap /><configBean encoding="xstream"><net.sf.taverna.t2.activities.beanshell.BeanshellActivityConfigurationBean xmlns="">
<inputs>
<net.sf.taverna.t2.workflowmodel.processor.activity.config.ActivityInputPortDefinitionBean>
<name>output_progress</name>
<depth>0</depth>
<mimeTypes class="java.util.Collections$EmptyList" />
<handledReferenceSchemes class="java.util.Collections$EmptyList" reference="../mimeTypes" />
<translatedElementType>java.lang.String</translatedElementType>
<allowsLiteralValues>true</allowsLiteralValues>
</net.sf.taverna.t2.workflowmodel.processor.activity.config.ActivityInputPortDefinitionBean>
</inputs>
<outputs>
<net.sf.taverna.t2.workflowmodel.processor.activity.config.ActivityOutputPortDefinitionBean>
<name>loop</name>
<depth>0</depth>
<mimeTypes />
<granularDepth>0</granularDepth>
</net.sf.taverna.t2.workflowmodel.processor.activity.config.ActivityOutputPortDefinitionBean>
</outputs>
<classLoaderSharing>workflow</classLoaderSharing>
<localDependencies />
<artifactDependencies />
<script>loop = "" + !(output_progress.equals("-2") ||
output_progress.equals("100"));
if ("true".matches(loop)) {
Thread.sleep(30000);
}</script>
<dependencies />
</net.sf.taverna.t2.activities.beanshell.BeanshellActivityConfigurationBean></configBean><annotations /></activity>
true
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry
1.0
1000
5000
0
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokegetLogparameters0parameters00net.sf.taverna.t2.activitieswsdl-activity1.3net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://openmodeller.cria.org.br/ws/1.0/extras/ws1.wsdl
getLog
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize
1
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry
1.0
30000
30000
20
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokegetLog_outputinput0log00net.sf.taverna.t2.activitieswsdl-activity1.3net.sf.taverna.t2.activities.wsdl.xmlsplitter.XMLOutputSplitterActivity
input
0
'text/xml'
java.lang.String
false
log
0
'text/plain'
0
<s:extensions xmlns:s="http://org.embl.ebi.escience/xscufl/0.1alpha"><s:complextype optional="false" unbounded="false" typename="getLogResponse" name="parameters" qname="{http://openmodeller.cria.org.br/ws/1.0}getLogResponse"><s:elements><s:basetype optional="false" unbounded="false" typename="string" name="log" qname=">getLogResponse>log" /></s:elements></s:complextype></s:extensions>
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize
1
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry
1.0
1000
5000
0
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeprojectModelparameters0parameters00net.sf.taverna.t2.activitieswsdl-activity1.3net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://openmodeller.cria.org.br/ws/1.0/extras/ws1.wsdl
projectModel
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize
1
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry
1.0
1000
5000
0
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeprojectModel_outputinput0ticket00net.sf.taverna.t2.activitieswsdl-activity1.3net.sf.taverna.t2.activities.wsdl.xmlsplitter.XMLOutputSplitterActivity
input
0
'text/xml'
java.lang.String
false
ticket
0
'text/plain'
0
<s:extensions xmlns:s="http://org.embl.ebi.escience/xscufl/0.1alpha"><s:complextype optional="false" unbounded="false" typename="projectModelResponse" name="parameters" qname="{http://openmodeller.cria.org.br/ws/1.0}projectModelResponse"><s:elements><s:basetype optional="false" unbounded="false" typename="string" name="ticket" qname=">projectModelResponse>ticket" /></s:elements></s:complextype></s:extensions>
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize
1
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry
1.0
1000
5000
0
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokegetLayerAsUrlparameters0parameters00net.sf.taverna.t2.activitieswsdl-activity1.3net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://openmodeller.cria.org.br/ws/1.0/extras/ws1.wsdl
getLayerAsUrl
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize
1
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry
1.0
30000
30000
20
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokegetLayerAsUrl_inputid0output00net.sf.taverna.t2.activitieswsdl-activity1.3net.sf.taverna.t2.activities.wsdl.xmlsplitter.XMLInputSplitterActivity
id
0
'text/plain'
false
output
0
'text/xml'
0
<s:extensions xmlns:s="http://org.embl.ebi.escience/xscufl/0.1alpha"><s:complextype optional="false" unbounded="false" typename="getLayerAsUrl" name="parameters" qname="{http://openmodeller.cria.org.br/ws/1.0}getLayerAsUrl"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="id" qname=">getLayerAsUrl>id" /></s:elements></s:complextype></s:extensions>
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize
1
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry
1.0
1000
5000
0
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokegetProjectionMetadataparameters0parameters00net.sf.taverna.t2.activitieswsdl-activity1.3net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://openmodeller.cria.org.br/ws/1.0/extras/ws1.wsdl
getProjectionMetadata
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize
1
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry
1.0
30000
30000
20
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokegetProjectionMetadata_outputinput0ProjectionEnvelope00net.sf.taverna.t2.activitieswsdl-activity1.3net.sf.taverna.t2.activities.wsdl.xmlsplitter.XMLOutputSplitterActivity
input
0
'text/xml'
java.lang.String
false
ProjectionEnvelope
0
'text/xml'
0
FileSize
0
'text/xml'
0
<s:extensions xmlns:s="http://org.embl.ebi.escience/xscufl/0.1alpha"><s:complextype optional="false" unbounded="false" typename="getProjectionMetadataResponse" name="parameters" qname="{http://openmodeller.cria.org.br/ws/1.0}getProjectionMetadataResponse"><s:elements><s:complextype optional="true" unbounded="false" typename="ProjectionEnvelope" name="ProjectionEnvelope" qname="{http://openmodeller.cria.org.br/xml/1.0}>getProjectionMetadataResponse>ProjectionEnvelope"><s:elements><s:complextype optional="false" unbounded="false" typename="AreaStatisticsType" name="AreaStatistics" qname="{http://openmodeller.cria.org.br/xml/1.0}ProjectionEnvelopeType>AreaStatistics"><s:elements /><s:attributes><s:attribute optional="false" unbounded="false" typename="AreaStatisticsType>TotalCells" name="TotalCells" qname="AreaStatisticsType>TotalCells" /><s:attribute optional="false" unbounded="false" typename="AreaStatisticsType>CellsPredicted" name="CellsPredicted" qname="AreaStatisticsType>CellsPredicted" /><s:attribute optional="false" unbounded="false" typename="AreaStatisticsType>PredictionThreshold" name="PredictionThreshold" qname="AreaStatisticsType>PredictionThreshold" /></s:attributes></s:complextype></s:elements></s:complextype></s:elements><s:attributes><s:attribute optional="false" unbounded="false" typename=">getProjectionMetadataResponse>FileSize" name="FileSize" qname=">getProjectionMetadataResponse>FileSize" /></s:attributes></s:complextype></s:extensions>
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize
1
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry
1.0
1000
5000
0
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokegetProjectionMetadata_ProjectionEnvelopeinput0AreaStatistics00net.sf.taverna.t2.activitieswsdl-activity1.3net.sf.taverna.t2.activities.wsdl.xmlsplitter.XMLOutputSplitterActivity
input
0
'text/xml'
java.lang.String
false
AreaStatistics
0
'text/xml'
0
<s:extensions xmlns:s="http://org.embl.ebi.escience/xscufl/0.1alpha"><s:complextype optional="true" unbounded="false" typename="ProjectionEnvelope" name="ProjectionEnvelope" qname="{http://openmodeller.cria.org.br/xml/1.0}>getProjectionMetadataResponse>ProjectionEnvelope"><s:elements><s:complextype optional="false" unbounded="false" typename="AreaStatisticsType" name="AreaStatistics" qname="{http://openmodeller.cria.org.br/xml/1.0}ProjectionEnvelopeType>AreaStatistics"><s:elements /><s:attributes><s:attribute optional="false" unbounded="false" typename="AreaStatisticsType>TotalCells" name="TotalCells" qname="AreaStatisticsType>TotalCells" /><s:attribute optional="false" unbounded="false" typename="AreaStatisticsType>CellsPredicted" name="CellsPredicted" qname="AreaStatisticsType>CellsPredicted" /><s:attribute optional="false" unbounded="false" typename="AreaStatisticsType>PredictionThreshold" name="PredictionThreshold" qname="AreaStatisticsType>PredictionThreshold" /></s:attributes></s:complextype></s:elements></s:complextype></s:extensions>
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize
1
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry
1.0
1000
5000
0
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokegetLayerAsUrl_outputinput0url00net.sf.taverna.t2.activitieswsdl-activity1.3net.sf.taverna.t2.activities.wsdl.xmlsplitter.XMLOutputSplitterActivity
input
0
'text/xml'
java.lang.String
false
url
0
'text/plain'
0
<s:extensions xmlns:s="http://org.embl.ebi.escience/xscufl/0.1alpha"><s:complextype optional="false" unbounded="false" typename="getLayerAsUrlResponse" name="parameters" qname="{http://openmodeller.cria.org.br/ws/1.0}getLayerAsUrlResponse"><s:elements><s:basetype optional="false" unbounded="false" typename="string" name="url" qname=">getLayerAsUrlResponse>url" /></s:elements></s:complextype></s:extensions>
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize
1
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry
1.0
1000
5000
0
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invokeloop_until_progress_completeinput_ticketgetLogparametersgetLog_outputinputprojectModelparametersprojectModel_outputinputgetLayerAsUrlparametersgetLayerAsUrl_inputidgetProjectionMetadataparametersgetProjectionMetadata_outputinputgetProjectionMetadata_ProjectionEnvelopeinputgetLayerAsUrl_outputinputoutput_progressoutput_logarea_statisticsprojected_layer_url
8bee7949-a15c-4580-89b1-cb93766a45ca
2011-11-01 16:23:20.128 GMT
355cef2e-25d4-4536-ae04-ee179ea5ba69
2011-11-01 11:50:16.51 GMT
d27d4e15-4c6d-46f7-9a87-954c2f2b9b8a
2011-11-24 17:57:08.867 GMT
73913773-e684-4aa6-9beb-ff6adc8f30ee
2011-11-01 11:34:44.825 GMT
78eb0e64-0b62-4d9f-9615-0ab55248c180
2011-11-01 12:32:31.796 GMT
1d227e30-8ccb-4e8c-8425-ccf2292b9bd8
2011-11-22 17:17:21.196 GMT
49b74deb-594c-4e50-a316-b84c9c4a82fe
2011-11-03 13:45:31.16 GMT
b7224caa-a2e6-481e-976e-6da6a6b2f034
2011-11-03 14:24:26.138 GMT
This workflow uses OpenModeller to project a model using the specified configuration
2011-11-24 17:52:16.677 GMT
29f37aee-a378-48a7-b93a-5ff8a905ad56
2011-11-01 11:57:39.12 GMT
4da4102f-8671-42d1-ae5e-4242853ccd68
2011-11-01 16:20:19.589 GMT
1fd43924-92a7-463f-a883-72ead95d64ba
2011-11-01 12:42:22.377 GMT
26171239-9fec-4782-8f75-b41defe8c886
2011-11-29 17:41:49.986 GMT
caf8f905-74da-400e-829c-be66b4e0f505
2011-11-01 16:58:53.578 GMT
Project model
2011-11-24 17:51:55.421 GMT
e72ddcf7-8ffb-413b-9039-e0b5ce3cc011
2011-11-01 11:17:19.381 GMT
81f8e562-7c82-43f3-b930-d5e03b8eaf41
2011-11-01 12:37:04.176 GMT
e9de109a-5135-4c3c-839d-dcf82bc3fa30
2011-11-01 15:04:23.263 GMT
b5972b2a-dd73-4e14-9e66-bf5e29f814e3
2011-11-01 13:58:36.479 GMT
3980a26b-e785-45af-af21-8adb35a6e7c6
2011-11-01 17:27:19.478 GMT
cb555ce6-3e66-4268-a308-fe4026a6e790
2011-11-01 17:16:33.345 GMT
83302532-6646-46ae-a73e-7e1ac95180e3
2011-11-01 16:41:18.96 GMT
Alan R Williams
2011-11-24 17:52:03.823 GMT
3c18073c-9b94-4a73-b9ad-1d114f4172c5
2011-11-03 13:53:25.790 GMT
8fa15c66-c7b6-43aa-9096-35441425c640
2011-11-01 17:21:57.416 GMT
677ba6d4-bf6c-4662-9e5f-9e78df98f55f
2011-11-01 12:41:25.944 GMT
ae470ab7-5011-458f-95c0-b49d530767dc
2011-11-09 11:20:56.805 GMT
981b120c-cea3-43a1-ab82-ba65f6b4300b
2011-11-01 16:46:02.260 GMT
Create_modelcreateModel_configuration00
The configuration to use to create the model
2011-11-24 17:21:27.253 GMT
output_progress
The progress in creating the model. This should be -2 (failure) or 100 (success) for the looping to have finished.
2011-11-24 17:26:39.375 GMT
serialized_model
An XML serialization of the created model
2011-11-24 17:27:42.646 GMT
output_log
The log of the model creation. This is output for information.
2011-11-24 17:28:14.575 GMT
createModelparameters0parameters00net.sf.taverna.t2.activitieswsdl-activity1.3net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://openmodeller.cria.org.br/ws/1.0/extras/ws1.wsdl
createModel
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize
1
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net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokecreateModel_outputinput0ticket00net.sf.taverna.t2.activitieswsdl-activity1.3net.sf.taverna.t2.activities.wsdl.xmlsplitter.XMLOutputSplitterActivity
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net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize
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net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Loop
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<inputs>
<net.sf.taverna.t2.workflowmodel.processor.activity.config.ActivityInputPortDefinitionBean>
<name>output_progress</name>
<depth>0</depth>
<mimeTypes class="java.util.Collections$EmptyList" />
<handledReferenceSchemes class="java.util.Collections$EmptyList" reference="../mimeTypes" />
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<classLoaderSharing>workflow</classLoaderSharing>
<localDependencies />
<artifactDependencies />
<script>loop = "" + !(output_progress.equals("-2") ||
output_progress.equals("100"));
if ("true".matches(loop)) {
Thread.sleep(30000);
}</script>
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net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry
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net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokegetModelparameters0parameters00net.sf.taverna.t2.activitieswsdl-activity1.3net.sf.taverna.t2.activities.wsdl.WSDLActivity
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getModel
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize
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/><s:attributes><s:attribute optional="false" unbounded="false" typename="BasicLayerType>Id" name="Id" qname="BasicLayerType>Id" /></s:attributes></s:complextype></s:elements><s:attributes><s:attribute optional="true" unbounded="false" typename="EnvironmentType>NumLayers" name="NumLayers" qname="EnvironmentType>NumLayers" /></s:attributes></s:complextype><s:complextype optional="false" unbounded="false" typename="OccurrencesType" name="Presence" qname="{http://openmodeller.cria.org.br/xml/1.0}SamplerType>Presence"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="CoordinateSystem" qname="{http://openmodeller.cria.org.br/xml/1.0}OccurrencesType>CoordinateSystem" /><s:arraytype optional="false" unbounded="true" wrapped="false" typename=">OccurrencesType>Point" name="Point" qname="{http://openmodeller.cria.org.br/xml/1.0}OccurrencesType>Point"><s:elementtype><s:complextype optional="false" unbounded="false" typename=">OccurrencesType>Point" name="" 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unbounded="false" typename=">ModelStatisticsType>ConfusionMatrix>Threshold" name="Threshold" qname=">ModelStatisticsType>ConfusionMatrix>Threshold" /><s:attribute optional="false" unbounded="false" typename=">ModelStatisticsType>ConfusionMatrix>Accuracy" name="Accuracy" qname=">ModelStatisticsType>ConfusionMatrix>Accuracy" /><s:attribute optional="false" unbounded="false" typename=">ModelStatisticsType>ConfusionMatrix>OmissionError" name="OmissionError" qname=">ModelStatisticsType>ConfusionMatrix>OmissionError" /><s:attribute optional="false" unbounded="false" typename=">ModelStatisticsType>ConfusionMatrix>CommissionError" name="CommissionError" qname=">ModelStatisticsType>ConfusionMatrix>CommissionError" /><s:attribute optional="true" unbounded="false" typename=">ModelStatisticsType>ConfusionMatrix>TruePositives" name="TruePositives" qname=">ModelStatisticsType>ConfusionMatrix>TruePositives" /><s:attribute optional="true" unbounded="false" typename=">ModelStatisticsType>ConfusionMatrix>FalsePositives" name="FalsePositives" qname=">ModelStatisticsType>ConfusionMatrix>FalsePositives" /><s:attribute optional="true" unbounded="false" typename=">ModelStatisticsType>ConfusionMatrix>TrueNegatives" name="TrueNegatives" qname=">ModelStatisticsType>ConfusionMatrix>TrueNegatives" /><s:attribute optional="true" unbounded="false" typename=">ModelStatisticsType>ConfusionMatrix>FalseNegatives" name="FalseNegatives" qname=">ModelStatisticsType>ConfusionMatrix>FalseNegatives" /></s:attributes></s:complextype><s:complextype optional="true" unbounded="false" typename=">ModelStatisticsType>RocCurve" name="RocCurve" qname="{http://openmodeller.cria.org.br/xml/1.0}ModelStatisticsType>RocCurve"><s:elements /><s:attributes><s:attribute optional="false" unbounded="false" typename=">ModelStatisticsType>RocCurve>Auc" name="Auc" qname=">ModelStatisticsType>RocCurve>Auc" /><s:attribute optional="false" unbounded="false" 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net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry
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input
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'text/xml'
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SerializedModel
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<s:extensions xmlns:s="http://org.embl.ebi.escience/xscufl/0.1alpha"><s:complextype optional="true" unbounded="false" typename="ModelEnvelope" name="ModelEnvelope" qname="{http://openmodeller.cria.org.br/xml/1.0}>getModelResponse>ModelEnvelope"><s:elements><s:complextype optional="false" unbounded="false" typename="SerializedModel" name="SerializedModel" qname="{http://openmodeller.cria.org.br/xml/1.0}ModelEnvelopeType>SerializedModel"><s:elements><s:complextype optional="false" unbounded="false" typename="SamplerType" name="Sampler" qname="{http://openmodeller.cria.org.br/xml/1.0}SerializedModelType>Sampler"><s:elements><s:complextype optional="false" unbounded="false" typename="EnvironmentType" name="Environment" qname="{http://openmodeller.cria.org.br/xml/1.0}SamplerType>Environment"><s:elements><s:arraytype optional="false" unbounded="true" wrapped="false" typename="ModellingLayerType" name="Map" 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typename=">ModelStatisticsType>ConfusionMatrix>TrueNegatives" name="TrueNegatives" qname=">ModelStatisticsType>ConfusionMatrix>TrueNegatives" /><s:attribute optional="true" unbounded="false" typename=">ModelStatisticsType>ConfusionMatrix>FalseNegatives" name="FalseNegatives" qname=">ModelStatisticsType>ConfusionMatrix>FalseNegatives" /></s:attributes></s:complextype><s:complextype optional="true" unbounded="false" typename=">ModelStatisticsType>RocCurve" name="RocCurve" qname="{http://openmodeller.cria.org.br/xml/1.0}ModelStatisticsType>RocCurve"><s:elements /><s:attributes><s:attribute optional="false" unbounded="false" typename=">ModelStatisticsType>RocCurve>Auc" name="Auc" qname=">ModelStatisticsType>RocCurve>Auc" /><s:attribute optional="false" unbounded="false" typename=">ModelStatisticsType>RocCurve>Points" name="Points" qname=">ModelStatisticsType>RocCurve>Points" 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net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize
1
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry
1.0
1000
5000
0
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokegetLogparameters0parameters00net.sf.taverna.t2.activitieswsdl-activity1.3net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://openmodeller.cria.org.br/ws/1.0/extras/ws1.wsdl
getLog
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize
1
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry
1.0
30000
30000
20
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokegetLog_inputticket0output00net.sf.taverna.t2.activitieswsdl-activity1.3net.sf.taverna.t2.activities.wsdl.xmlsplitter.XMLInputSplitterActivity
ticket
0
'text/plain'
false
output
0
'text/xml'
0
<s:extensions xmlns:s="http://org.embl.ebi.escience/xscufl/0.1alpha"><s:complextype optional="false" unbounded="false" typename="getLog" name="parameters" qname="{http://openmodeller.cria.org.br/ws/1.0}getLog"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="ticket" qname=">getLog>ticket" /></s:elements></s:complextype></s:extensions>
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize
1
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry
1.0
1000
5000
0
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokegetLog_outputinput0log00net.sf.taverna.t2.activitieswsdl-activity1.3net.sf.taverna.t2.activities.wsdl.xmlsplitter.XMLOutputSplitterActivity
input
0
'text/xml'
java.lang.String
false
log
0
'text/plain'
0
<s:extensions xmlns:s="http://org.embl.ebi.escience/xscufl/0.1alpha"><s:complextype optional="false" unbounded="false" typename="getLogResponse" name="parameters" qname="{http://openmodeller.cria.org.br/ws/1.0}getLogResponse"><s:elements><s:basetype optional="false" unbounded="false" typename="string" name="log" qname=">getLogResponse>log" /></s:elements></s:complextype></s:extensions>
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize
1
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry
1.0
1000
5000
0
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokegetModel_inputticket0output00net.sf.taverna.t2.activitieswsdl-activity1.3net.sf.taverna.t2.activities.wsdl.xmlsplitter.XMLInputSplitterActivity
ticket
0
'text/plain'
false
output
0
'text/xml'
0
<s:extensions xmlns:s="http://org.embl.ebi.escience/xscufl/0.1alpha"><s:complextype optional="false" unbounded="false" typename="getModel" name="parameters" qname="{http://openmodeller.cria.org.br/ws/1.0}getModel"><s:elements><s:basetype optional="true" unbounded="false" typename="string" name="ticket" qname=">getModel>ticket" /></s:elements></s:complextype></s:extensions>
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize
1
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry
1.0
1000
5000
0
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokecreateModelparameterscreateModel_outputinputloop_until_progress_completeinput_ticketgetModelparametersgetModel_outputinputgetModel_ModelEnvelopeinputgetLogparametersgetLog_inputticketgetLog_outputinputgetModel_inputticketoutput_progressserialized_modeloutput_log
b5972b2a-dd73-4e14-9e66-bf5e29f814e3
2011-11-01 13:58:36.479 GMT
29f37aee-a378-48a7-b93a-5ff8a905ad56
2011-11-01 11:57:39.12 GMT
Create model
2011-11-24 17:20:23.445 GMT
e9de109a-5135-4c3c-839d-dcf82bc3fa30
2011-11-01 15:04:23.263 GMT
355cef2e-25d4-4536-ae04-ee179ea5ba69
2011-11-01 11:50:16.51 GMT
Alan R Willliams
2011-11-24 17:20:18.309 GMT
4f75c275-c283-4c23-b1ce-ee2e97226612
2011-11-24 17:28:17.480 GMT
52165968-a643-4014-b43a-ef1f9986d14a
2011-11-08 14:44:57.388 GMT
73913773-e684-4aa6-9beb-ff6adc8f30ee
2011-11-01 11:34:44.825 GMT
393ddae2-5d20-4353-baf9-9de4f368198d
2011-11-24 17:40:03.388 GMT
01a01cc4-51cf-4e90-9c58-967d943f1ab6
2011-11-04 10:55:45.831 GMT
f8bc4f71-a9f0-449d-9519-e25aaa708c44
2011-11-03 14:27:01.325 GMT
e72ddcf7-8ffb-413b-9039-e0b5ce3cc011
2011-11-01 11:17:19.381 GMT
1fd43924-92a7-463f-a883-72ead95d64ba
2011-11-01 12:42:22.377 GMT
7d310fab-439f-4f74-a30d-444fd5043408
2011-11-22 17:16:46.772 GMT
This workflow uses OpenModeller to create a model based upon the specified configuration
2011-11-24 17:21:15.109 GMT
57b54613-326f-4f3b-8e72-499ea539038d
2011-11-09 13:09:37.637 GMT
4ff227a7-2d92-4583-9538-76e3cf255eb5
2011-11-03 12:55:50.265 GMT
387eb3ba-508c-49c2-9a05-9af53547559f
2011-11-29 17:38:04.610 GMT
51a925a6-8111-4d4e-8e3f-4c344c1f81fb
2011-11-03 13:31:34.871 GMT
81f8e562-7c82-43f3-b930-d5e03b8eaf41
2011-11-01 12:37:04.176 GMT
a82a0430-084b-4ef1-8104-3c523c6da645
2011-11-17 16:53:54.930 GMT
78eb0e64-0b62-4d9f-9615-0ab55248c180
2011-11-01 12:32:31.796 GMT
677ba6d4-bf6c-4662-9e5f-9e78df98f55f
2011-11-01 12:41:25.944 GMT
Create_algorithmalgorithm
The algorithm and the parameter settings specified by the user
2011-11-24 14:06:08.172 GMT
create_algorithm_xmlparameter_names1parameter_values1algorithm_version0algorithm_id0createmodel_algorithm00net.sf.taverna.t2.activitiesbeanshell-activity1.3net.sf.taverna.t2.activities.beanshell.BeanshellActivity
algorithm_id
0
text/plain
java.lang.String
true
algorithm_version
0
text/plain
java.lang.String
true
parameter_names
1
text/plain
java.lang.String
true
parameter_values
1
text/plain
java.lang.String
true
createmodel_algorithm
0
0
workflow
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize
1
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry
1.0
1000
5000
0
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invokeextract_parameter_idxml_text0nodelist11net.sf.taverna.t2.activitiesxpath-activity1.3net.sf.taverna.t2.activities.xpath.XPathActivity
<?xml version="1.0" encoding="UTF-8"?>
<Parameter xmlns="http://openmodeller.cria.org.br/xml/1.0" Id="NumberOfBackgroundPoints">
<Name>Number of background points</Name>
<Type>Integer</Type>
<Overview>Number of background points to be generated.</Overview>
<Description>Number of background points to be generated.</Description>
<AcceptedRange Max="10000" Min="0"/>
<Default>10000</Default></Parameter>
/default:Parameter/@Id
default
http://openmodeller.cria.org.br/xml/1.0
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize
1
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry
1.0
1000
5000
0
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invokeextract_parameter_defaultxml_text0nodelist11net.sf.taverna.t2.activitiesxpath-activity1.3net.sf.taverna.t2.activities.xpath.XPathActivity
<?xml version="1.0" encoding="UTF-8"?>
<Parameter xmlns="http://openmodeller.cria.org.br/xml/1.0" Id="NumberOfBackgroundPoints">
<Name>Number of background points</Name>
<Type>Integer</Type>
<Overview>Number of background points to be generated.</Overview>
<Description>Number of background points to be generated.</Description>
<AcceptedRange Max="10000" Min="0"/>
<Default>10000</Default></Parameter>
/default:Parameter/default:Default
default
http://openmodeller.cria.org.br/xml/1.0
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize
1
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry
1.0
1000
5000
0
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeFlatten_Listinputlist2outputlist11net.sf.taverna.t2.activitieslocalworker-activity1.3net.sf.taverna.t2.activities.localworker.LocalworkerActivity
inputlist
2
l(l(''))
[B
true
outputlist
1
l('')
1
workflow
org.embl.ebi.escience.scuflworkers.java.FlattenList
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize
1
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry
1.0
1000
5000
0
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeFlatten_List_2inputlist2outputlist11net.sf.taverna.t2.activitieslocalworker-activity1.3net.sf.taverna.t2.activities.localworker.LocalworkerActivity
inputlist
2
l(l(''))
[B
true
outputlist
1
l('')
1
workflow
org.embl.ebi.escience.scuflworkers.java.FlattenList
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize
1
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry
1.0
1000
5000
0
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeBeanshellnames1values1values11net.sf.taverna.t2.activitiesbeanshell-activity1.3net.sf.taverna.t2.activities.beanshell.BeanshellActivity
names
1
text/plain
java.lang.String
true
values
1
text/plain
java.lang.String
true
values
1
1
workflow
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize
1
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry
1.0
1000
5000
0
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokegetAlgorithmsparameters00net.sf.taverna.t2.activitieswsdl-activity1.3net.sf.taverna.t2.activities.wsdl.WSDLActivity
http://openmodeller.cria.org.br/ws/1.0/extras/ws1.wsdl
getAlgorithms
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize
1
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry
1.0
1000
5000
0
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeExtract_algorithm_namesxml_text0nodelist11net.sf.taverna.t2.activitiesxpath-activity1.3net.sf.taverna.t2.activities.xpath.XPathActivity
<?xml version="1.0" encoding="UTF-8"?>
<ns1:getAlgorithmsResponse xmlns:ns1="http://openmodeller.cria.org.br/ws/1.0"><AvailableAlgorithms xmlns="http://openmodeller.cria.org.br/xml/1.0">
<Algorithms>
<Algorithm Id="AQUAMAPS" Version="0.3">
<Name>AquaMaps (beta version)</Name>
<Overview>Environmental envelope modelling algorithm for marine organisms. Needs 9 predefined layers (see detailed description) to calculate the preferred and accepted envelopes, and also needs a scientific name (genus plus species) labeling each occurrence group.</Overview>
<Description>AquaMaps is a niche modelling tool developed as part of the Incofish project and particularly tailored towards modelling marine organisms distribution.
The basic idea follows the environmental envelope type modelling approach, where each variable has an associated preferred range and a broader accepted range. Within the preferred range the probabilty of presence is 1, between the preferred range and the acceptable range the probability varies from 1 to 0 (linear decay), and outside the accepted range the probability is 0. The overall probability is calculated by multiplying all individual probabilities.
This algorithm differs from other traditional ones since it requires a specific set of layers to work, which should also be in this order: maximum depth in meters, minimum depth in meters, mean annual sea ice concentration, mean annual distance to land in kilometers, mean annual primary production (chlorophyll A, measured in mgC per square meter per day), mean annual bottom salinity in psu, mean annual surface salinity in psu, mean annual bottom temperature in celsius, mean annual surface temperature in celsius. These layers can be downloaded from:
http://openmodeller.cria.org.br/download/marine2.zip
Preferred ranges are usually calculated based on percentiles 10th and 90th. They are further adjusted using interquartile values but also ensuring a minimum envelope size based on pre-defined values. Under certain circumstances, AquaMaps can make use of expert information to define the envelopes. This can happen for mammals (any envelope) or for fishes (depth range envelope). Expert information comes from FishBase and is stored in a local SQLite database (aquamaps.db) accessed by the algorithm. To find information in the database, all occurrences provided to openModeller must be labeled with the scientific name (only genus and species). Matches are exact, using case-sensitive equals operation. In this version, the internal database contains information for more then 7000 marine species.</Description>
<Designers>
<Designer Name="Kaschner, K., J. S. Ready, E. Agbayani, J. Rius, K. Kesner-Reyes, P. D. Eastwood, A. B. South, S. O. Kullander, T. Rees, C. H. Close, R. Watson, D. Pauly, and R. Froese"/></Designers>
<Bibliography>Kaschner, K., J. S. Ready, E. Agbayani, J. Rius, K. Kesner-Reyes, P. D. Eastwood, A. B. South, S. O. Kullander, T. Rees, C. H. Close, R. Watson, D. Pauly, and R. Froese. 2007 AquaMaps: Predicted range maps for aquatic species. World wide web electronic publication, www.aquamaps.org, Version 12/2007.</Bibliography>
<Developers>
<Developer Contact="renato [at] cria dot org dot br" Name="Renato De Giovanni"/></Developers>
<AcceptsCategoricalMaps>0</AcceptsCategoricalMaps>
<RequiresAbsencePoints>0</RequiresAbsencePoints>
<Parameters>
<Parameter Id="UseSurfaceLayers">
<Name>Use surface layers (only for temperature and salinity)</Name>
<Type>Integer</Type>
<Overview>Use surface layers (1=yes, 0=no, -1=let the algorithm decide)</Overview>
<Description>Use surface layers (1=yes, 0=no, -1=let the algorithm decide). By default (-1), aquamaps will try to find the species' depth range in its internal database. If the minimum depth is equals or less than 200m, then aquamaps will use sea surface layers for temperature and salinity. Otherwise it will use bottom layers. This parameter can be used to force aquamaps to use surface or bottom layers.</Description>
<AcceptedRange Max="1" Min="-1"/>
<Default>-1</Default></Parameter>
<Parameter Id="UseDepthRange">
<Name>Use depth range</Name>
<Type>Integer</Type>
<Overview>Use depth range when calculating probabilities</Overview>
<Description>Use depth range provided by experts (if available) when calculating probabilities</Description>
<AcceptedRange Max="1" Min="0"/>
<Default>1</Default></Parameter>
<Parameter Id="UseIceConcentration">
<Name>Use ice concentration</Name>
<Type>Integer</Type>
<Overview>Use ice concentration envelope when calculating probabilities</Overview>
<Description>Use ice concentration when calculating probabilities</Description>
<AcceptedRange Max="1" Min="0"/>
<Default>1</Default></Parameter>
<Parameter Id="UseDistanceToLand">
<Name>Use distance to land</Name>
<Type>Integer</Type>
<Overview>Use distance to land envelope when calculating probabilities</Overview>
<Description>Use distance to land envelope when calculating probabilities</Description>
<AcceptedRange Max="1" Min="0"/>
<Default>0</Default></Parameter>
<Parameter Id="UsePrimaryProduction">
<Name>Use primary production</Name>
<Type>Integer</Type>
<Overview>Use primary production envelope when calculating probabilities</Overview>
<Description>Use primary production envelope when calculating probabilities</Description>
<AcceptedRange Max="1" Min="0"/>
<Default>1</Default></Parameter>
<Parameter Id="UseSalinity">
<Name>Use salinity</Name>
<Type>Integer</Type>
<Overview>Use salinity envelope when calculating probabilities</Overview>
<Description>Use salinity envelope when calculating probabilities</Description>
<AcceptedRange Max="1" Min="0"/>
<Default>1</Default></Parameter>
<Parameter Id="UseTemperature">
<Name>Use temperature</Name>
<Type>Integer</Type>
<Overview>Use temperature envelope when calculating probabilities</Overview>
<Description>Use temperature envelope when calculating probabilities</Description>
<AcceptedRange Max="1" Min="0"/>
<Default>1</Default></Parameter></Parameters></Algorithm>
<Algorithm Id="BIOCLIM" Version="0.2">
<Name>Bioclim</Name>
<Overview>Uses mean and standard deviation for each environmental variable separately to calculate bioclimatic envelopes. Level of fitness between the environmental values on a point and the respective envelopes classifies points as Suitable, Marginal, or Unsuitable for presence.</Overview>
<Description>Implements the Bioclimatic Envelope Algorithm. For each given environmental variable the algorithm finds the mean and standard deviation (assuming normal distribution) associated to the occurrence points. Each variable has its own envelope represented by the interval [m - c*s, m + c*s], where 'm' is the mean; 'c' is the cutoff input parameter; and 's' is the standard deviation. Besides the envelope, each environmental variable has additional upper and lower limits taken from the maximum and minimum values related to the set of occurrence points.
In this model, any point can be classified as:
Suitable: if all associated environmental values fall within the calculated envelopes;
Marginal: if one or more associated environmental value falls outside the calculated envelope, but still within the upper and lower limits.
Unsuitable: if one or more associated enviromental value falls outside the upper and lower limits.
Bioclim's categorical output is mapped to probabilities of 1.0, 0.5 and 0.0 respectively.</Description>
<Designers>
<Designer Name="Nix, H. A."/></Designers>
<Bibliography>Nix, H.A. (1986) A biogeographic analysis of Australian elapid snakes. In: Atlas of Elapid Snakes of Australia. (Ed.) R. Longmore, pp. 4-15. Australian Flora and Fauna Series Number 7. Australian Government Publishing Service: Canberra.</Bibliography>
<Developers>
<Developer Contact="mesmunoz [at] gmail.com" Name="Mauro Muñoz"/></Developers>
<AcceptsCategoricalMaps>0</AcceptsCategoricalMaps>
<RequiresAbsencePoints>0</RequiresAbsencePoints>
<Parameters>
<Parameter Id="StandardDeviationCutoff">
<Name>Standard deviation cutoff</Name>
<Type>Real</Type>
<Overview>The envelope is determined by multiplying this parameter and the standard deviation.</Overview>
<Description>Standard deviation cutoff for all bioclimatic envelopes.
Examples of (fraction of inclusion, parameter value) are:
(50.0%, 0.674); (68.3%, 1.000); (90.0%, 1.645); (95.0%, 1.960); (99.7%, 3.000)</Description>
<AcceptedRange Min="0"/>
<Default>0.674</Default></Parameter></Parameters></Algorithm>
<Algorithm Id="CSMBS" Version="0.4">
<Name>Climate Space Model</Name>
<Overview>Climate Space Model [CSM] is a principle components based algorithm developed by Dr. Neil Caithness</Overview>
<Description>Climate Space Model [CSM] is a principle components based algorithm developed by Dr. Neil Caithness. The component selection process int this algorithm implementation is based on the Broken-Stick cutoff where any component with an eigenvalue less than (n stddevs above a randomised sample) is discarded.
The original CSM was written as series of Matlab functions.</Description>
<Designers>
<Designer Name="Neil Caithness"/></Designers>
<Bibliography/>
<Developers>
<Developer Contact="t.sutton [at] reading.ac.uk" Name="Tim Sutton, Renato De Giovanni"/></Developers>
<AcceptsCategoricalMaps>0</AcceptsCategoricalMaps>
<RequiresAbsencePoints>0</RequiresAbsencePoints>
<Parameters>
<Parameter Id="Randomisations">
<Name>Number of random eigenvalues</Name>
<Type>Integer</Type>
<Overview>The number of eigenvalues to generate from randomly 'shuffled' environment data.</Overview>
<Description>The Broken Stick method of selecting the number of components to keep is carried out by randomising the row order of each column in the environmental matrix and then obtaining the eigen value for the randomised matrix. This is repeatedly carried out for the amount of times specified by the user here.</Description>
<AcceptedRange Max="1000" Min="1"/>
<Default>8</Default></Parameter>
<Parameter Id="StandardDeviations">
<Name>Number of standard deviations</Name>
<Type>Real</Type>
<Overview>The number of standard deviations added to the randomised eigen value.</Overview>
<Description>When all the eigen values for the 'shuffled' environmental matrix have been summed this number of standard deviations is added to the mean of the eigen values. Any components whose eigen values are above this threshold are retained.</Description>
<AcceptedRange Max="10" Min="-10"/>
<Default>2.0</Default></Parameter>
<Parameter Id="MinComponents">
<Name>Minimum number of components in model</Name>
<Type>Integer</Type>
<Overview>The minimum number of components that the model must have.</Overview>
<Description>If not enough components are selected, the model produced will be erroneous or fail. Usually three or more components are acceptable</Description>
<AcceptedRange Max="20" Min="1"/>
<Default>1</Default></Parameter>
<Parameter Id="VerboseDebugging">
<Name>Show very detailed debugging info</Name>
<Type>Integer</Type>
<Overview>Warning this will cause a large amount of information to be printed</Overview>
<Description>Set this to 1 to show extremely verbose diagnostics. Set this to 0 to disable verbose diagnostics (this is default behaviour).</Description>
<AcceptedRange Max="1" Min="0"/>
<Default>0</Default></Parameter></Parameters></Algorithm>
<Algorithm Id="DG_GARP" Version="1.1 alpha">
<Name>GARP (single run) - DesktopGARP implementation</Name>
<Overview>This is the 2nd implementation of GARP algorithm, based on the original C code by David Stockwell. This version correspondss to the version in use by the DesktopGarp modeling package, with modifications to use OpenModeller base data access objects.</Overview>
<Description>GARP is a genetic algorithm that creates ecological niche models for species. The models describe environmental conditions under which the species should be able to maintain populations. For input, GARP uses a set of point localities where the species is known to occur and a set of geographic layers representing the environmental parameters that might limit the species' capabilities to survive.</Description>
<Designers>
<Designer Name="Stockwell, D. R. B., modified by Ricardo Scachetti Pereira"/></Designers>
<Bibliography>Stockwell, D. R. B. 1999. Genetic algorithms II. Pages 123-144 in A. H. Fielding, editor. Machine learning methods for ecological applications. Kluwer Academic Publishers, Boston.
Stockwell, D. R. B., and D. P. Peters. 1999. The GARP modelling system: Problems and solutions to automated spatial prediction. International Journal of Geographic Information Systems 13:143-158.
Stockwell, D. R. B., and I. R. Noble. 1992. Induction of sets of rules from animal distribution data: A robust and informative method of analysis. Mathematics and Computers in Simulation 33:385-390.</Bibliography>
<Developers>
<Developer Contact="rpereira [at] ku.edu" Name="Ricardo Scachetti Pereira"/></Developers>
<AcceptsCategoricalMaps>0</AcceptsCategoricalMaps>
<RequiresAbsencePoints>1</RequiresAbsencePoints>
<Parameters>
<Parameter Id="MaxGenerations">
<Name>Max generations</Name>
<Type>Integer</Type>
<Overview>Maximum number of iterations run by the Genetic Algorithm.</Overview>
<Description>Maximum number of iterations (generations) run by the Genetic Algorithm.</Description>
<AcceptedRange Min="1"/>
<Default>400</Default></Parameter>
<Parameter Id="ConvergenceLimit">
<Name>Convergence limit</Name>
<Type>Real</Type>
<Overview>Defines the convergence value that makes the algorithm stop (before reaching MaxGenerations).</Overview>
<Description>Defines the convergence value that makes the algorithm stop (before reaching MaxGenerations).</Description>
<AcceptedRange Max="1" Min="0"/>
<Default>0.01</Default></Parameter>
<Parameter Id="PopulationSize">
<Name>Population size</Name>
<Type>Integer</Type>
<Overview>Maximum number of rules to be kept in solution.</Overview>
<Description>Maximum number of rules to be kept in solution.</Description>
<AcceptedRange Max="500" Min="1"/>
<Default>50</Default></Parameter>
<Parameter Id="Resamples">
<Name>Resamples</Name>
<Type>Integer</Type>
<Overview>Number of points sampled (with replacement) used to test rules.</Overview>
<Description>Number of points sampled (with replacement) used to test rules.</Description>
<AcceptedRange Max="100000" Min="1"/>
<Default>2500</Default></Parameter></Parameters></Algorithm>
<Algorithm Id="DG_GARP_BS" Version="3.0.2">
<Name>GARP with best subsets - DesktopGARP implementation</Name>
<Overview>GARP is a genetic algorithm that creates ecological niche models for species. The models describe environmental conditions under which the species should be able to maintain populations. For input, GARP uses a set of point localities where the species is known to occur and a set of geographic layers representing the environmental parameters that might limit the species' capabilities to survive.</Overview>
<Description>GARP is a genetic algorithm that creates ecological niche models for species. The models describe environmental conditions under which the species should be able to maintain populations. For input, GARP uses a set of point localities where the species is known to occur and a set of geographic layers representing the environmental parameters that might limit the species' capabilities to survive.</Description>
<Designers>
<Designer Name="Anderson, R. P., D. Lew, D. and A. T. Peterson."/></Designers>
<Bibliography>Anderson, R. P., D. Lew, and A. T. Peterson. 2003. Evaluating predictive models of species' distributions: criteria for selecting optimal models.Ecological Modelling, v. 162, p. 211 232.</Bibliography>
<Developers>
<Developer Contact="rpereira [at] ku.edu" Name="Ricardo Scachetti Pereira"/></Developers>
<AcceptsCategoricalMaps>0</AcceptsCategoricalMaps>
<RequiresAbsencePoints>1</RequiresAbsencePoints>
<Parameters>
<Parameter Id="TrainingProportion">
<Name>Training Proportion</Name>
<Type>Real</Type>
<Overview>Percentage of occurrence data to be used to train models.</Overview>
<Description>Percentage of occurrence data to be used to train models.</Description>
<AcceptedRange Max="100" Min="0"/>
<Default>50</Default></Parameter>
<Parameter Id="TotalRuns">
<Name>Total Runs</Name>
<Type>Integer</Type>
<Overview>Maximum number of GARP runs to be performed.</Overview>
<Description>Maximum number of GARP runs to be performed.</Description>
<AcceptedRange Max="10000" Min="0"/>
<Default>20</Default></Parameter>
<Parameter Id="HardOmissionThreshold">
<Name>Hard Omission Threshold</Name>
<Type>Real</Type>
<Overview>Maximum acceptable omission error. Set to 100% to use only soft omission.</Overview>
<Description>Maximum acceptable omission error. Set to 100% to use only soft omission.</Description>
<AcceptedRange Max="100" Min="0"/>
<Default>100</Default></Parameter>
<Parameter Id="ModelsUnderOmissionThreshold">
<Name>Models Under Omission Threshold</Name>
<Type>Integer</Type>
<Overview>Minimum number of models below omission threshold.</Overview>
<Description>Minimum number of models below omission threshold.</Description>
<AcceptedRange Max="10000" Min="0"/>
<Default>20</Default></Parameter>
<Parameter Id="CommissionThreshold">
<Name>Commission Threshold</Name>
<Type>Real</Type>
<Overview>Percentage of distribution models to be taken regarding commission error.</Overview>
<Description>Percentage of distribution models to be taken regarding commission error.</Description>
<AcceptedRange Max="100" Min="0"/>
<Default>50</Default></Parameter>
<Parameter Id="CommissionSampleSize">
<Name>Commission Sample Size</Name>
<Type>Real</Type>
<Overview>Number of samples used to calculate commission error.</Overview>
<Description>Number of samples used to calculate commission error.</Description>
<AcceptedRange Min="1"/>
<Default>10000</Default></Parameter>
<Parameter Id="MaxThreads">
<Name>Maximum Number of Threads</Name>
<Type>Integer</Type>
<Overview>Maximum number of threads of executions to run simultaneously.</Overview>
<Description>Maximum number of threads of executions to run simultaneously.</Description>
<AcceptedRange Max="1024" Min="1"/>
<Default>1</Default></Parameter>
<Parameter Id="MaxGenerations">
<Name>Max generations</Name>
<Type>Integer</Type>
<Overview>Maximum number of iterations run by the Genetic Algorithm.</Overview>
<Description>Maximum number of iterations (generations) run by the Genetic Algorithm.</Description>
<AcceptedRange Min="1"/>
<Default>400</Default></Parameter>
<Parameter Id="ConvergenceLimit">
<Name>Convergence limit</Name>
<Type>Real</Type>
<Overview>Defines the convergence value that makes the algorithm stop (before reaching MaxGenerations).</Overview>
<Description>Defines the convergence value that makes the algorithm stop (before reaching MaxGenerations).</Description>
<AcceptedRange Max="1" Min="0"/>
<Default>0.01</Default></Parameter>
<Parameter Id="PopulationSize">
<Name>Population size</Name>
<Type>Integer</Type>
<Overview>Maximum number of rules to be kept in solution.</Overview>
<Description>Maximum number of rules to be kept in solution.</Description>
<AcceptedRange Max="500" Min="1"/>
<Default>50</Default></Parameter>
<Parameter Id="Resamples">
<Name>Resamples</Name>
<Type>Integer</Type>
<Overview>Number of points sampled (with replacement) used to test rules.</Overview>
<Description>Number of points sampled (with replacement) used to test rules.</Description>
<AcceptedRange Max="100000" Min="1"/>
<Default>2500</Default></Parameter></Parameters></Algorithm>
<Algorithm Id="ENFA" Version="0.1.3">
<Name>ENFA (Ecological-Niche Factor Analysis)</Name>
<Overview>Algorithm based on presence only data using a modified principal components analysis.</Overview>
<Description>Ecological-Niche Factor Analysis (Hirzel et al, 2002) uses a modified principal components analysis to develop a model based on presence only data. The observed environment is compared to the background data of the study area (note that absence points in the occurrence file are treated as background data). The analysis produces factors similar to a PCA. The first factor is termed the 'marginality' of the species, marginality is defined as the ecological distance between the species optimum and the mean habitat within the background data. Other factors are termed the 'specialization', and are defined as the ratio of the ecological variance in mean habitat to that observed for the target species. Model projection uses the geomeans method of Hirzel & Arlettaz (2003)</Description>
<Designers>
<Designer Name="Hirzel, A.H.; Hausser, J.; Chessel, D. & Perrin, N."/></Designers>
<Bibliography>Hirzel, A.H.; Hausser, J.; Chessel, D. & Perrin, N. Ecological-niche factor analysis: How to compute habitat-suitability maps without absence data? Ecology, 2002, 83, 2027-2036
Hirzel, A.H & Arlettaz, R. Modeling habitat suitability for complex species distributions by environmental distance geometric mean Environmental Management, 2003, 32, 614-623</Bibliography>
<Developers>
<Developer Contact="chris.yesson [at] ioz.ac.uk" Name="Chris Yesson"/></Developers>
<AcceptsCategoricalMaps>0</AcceptsCategoricalMaps>
<RequiresAbsencePoints>0</RequiresAbsencePoints>
<Parameters>
<Parameter Id="NumberOfBackgroundPoints">
<Name>Number of background sample points</Name>
<Type>Integer</Type>
<Overview>Number of background points to be sampled when estimating the mean and standard deviation.</Overview>
<Description>The ENFA algorithm compares the species presence data with the background environment. This requires the calculation of the mean, standard deviation and covariances of each environmental layer. This could be prohibitively slow and expensive for large datasets, so estimate these values by randomly sampling X points from the background data.</Description>
<AcceptedRange Min="10"/>
<Default>10000</Default></Parameter>
<Parameter Id="NumberOfRetries">
<Name>Number of retries of model</Name>
<Type>Integer</Type>
<Overview>Number of attempted retries in the case that the model generation fails.</Overview>
<Description>The algorithm requires the inversion of several matrices, but sometimes the matrix to invert is singular and so the algorithm fails. This seems to occur when the background data is undersampled or not representative. Often retrying the model generation (i.e. resampling the background data) makes this problem go away.</Description>
<AcceptedRange Min="1"/>
<Default>5</Default></Parameter>
<Parameter Id="DiscardMethod">
<Name>Method for discarding components</Name>
<Type>Integer</Type>
<Overview>Method for discarding components: 0 - Fixed number (set by RETAIN_COMPONENTS), 1 - Minimum components explaining a fixed variation (set by RETAIN_VARIATION), 2 - Broken stick method</Overview>
<Description>0 - Retain a fixed number of components defined by the variable RETAIN_COMPONENTS
1 - Retain the top N components that cumulatively explain the level of variation defined by the RETAIN_VARIATION variable
2 - Compare the observed explanation of variation to the broken stick distribution retaining those components explaining higher levels of variation</Description>
<AcceptedRange Max="2" Min="0"/>
<Default>2</Default></Parameter>
<Parameter Id="RetainComponents">
<Name>Number of components to retain</Name>
<Type>Integer</Type>
<Overview>Specify the number of components to retain (only for DISCARD_METHOD=0)</Overview>
<Description>If the Discard_method=0, then this variable is used to determine the number of components to retain.</Description>
<AcceptedRange Min="1"/>
<Default>2</Default></Parameter>
<Parameter Id="RetainVariation">
<Name>Percent varition for component retention</Name>
<Type>Integer</Type>
<Overview>Specify the amount of variation that the retained components should explain (only for DISCARD_METHOD=1)</Overview>
<Description>If the Discard_method=1, then this variable is used to determine the number of components to retain, by taking those components that cumulatively account for at least this much variation.</Description>
<AcceptedRange Max="1" Min="0.5"/>
<Default>0.75</Default></Parameter>
<Parameter Id="DisplayLoadings">
<Name>Display variable loadings for each factor</Name>
<Type>Integer</Type>
<Overview>Output a comma separated matrix of variable loadings for each retained factor</Overview>
<Description>Set to 1 to display the matrix. Var=variable, Marg=Marginality (factor 0), Sp-1=Specialisation factor 1, etc. Variables are numbered in the order they are input in the request file.</Description>
<AcceptedRange Max="1" Min="0"/>
<Default>0</Default></Parameter>
<Parameter Id="VerboseDebug">
<Name>Verbose printing for debugging</Name>
<Type>Integer</Type>
<Overview>Print lots of details</Overview>
<Description/>
<AcceptedRange Max="1" Min="0"/>
<Default>0</Default></Parameter></Parameters></Algorithm>
<Algorithm Id="ENVSCORE" Version="0.1">
<Name>Envelope Score</Name>
<Overview>Uses the minimum and maximum observed value for each environmental variable to define bioclimatic envelopes. Probability of occurrence for a point is determined by the number of environmental variables within which the environmental values at the point fall into the min/max criteria.</Overview>
<Description>Implements a lax Bioclimatic Envelope Algorithm. For each given environmental variable the algorithm finds the minimum and maximum at all occurrence sites. During model projection, the probability of occurrences is determined as:
p = layers within min-max threshold / number of layers
Thus choosing a threshold of p=1 gives you the same model output as the original Bioclim model taking both the Suitable & Marginal classes as predicted presences. The Envelope Score algorithm is equivalent to the inclusive 'OR' implementation of Bioclim described in Pineiro et al (2007).</Description>
<Designers>
<Designer Name="Nix, H. A."/></Designers>
<Bibliography>Nix, H.A. (1986) A biogeographic analysis of Australian elapid snakes. In: Atlas of Elapid Snakes of Australia. (Ed.) R. Longmore, pp. 4-15. Australian Flora and Fauna Series Number 7. Australian Government Publishing Service: Canberra.
Piñeiro, R., Aguilar, J. F., Munt, D. D. & Feliner, G. N. (2007) Ecology matters: Atlantic-Mediterranean disjunction in the sand-dune shrub Armeria pungens (Plumbaginaceae). Molecular Ecology. 16, 2155-2171.</Bibliography>
<Developers>
<Developer Contact="tim [at] linfiniti.com" Name="Tim Sutton and Chris Yesson"/></Developers>
<AcceptsCategoricalMaps>0</AcceptsCategoricalMaps>
<RequiresAbsencePoints>0</RequiresAbsencePoints>
<Parameters/></Algorithm>
<Algorithm Id="ENVDIST" Version="0.5">
<Name>Environmental Distance</Name>
<Overview>Generic algorithm based on environmental dissimilarity metrics.</Overview>
<Description>Generic algorithm based on environmental dissimilarity metrics. When used with the Gower metric and maximum distance 1, this algorithm should produce the same result of the algorithm known as DOMAIN.</Description>
<Designers>
<Designer Name="Mauro E. S. Munoz, Renato De Giovanni, Danilo J. S. Bellini"/></Designers>
<Bibliography>Carpenter G, Gillison AN, Winter J (1993) DOMAIN: A flexible modeling procedure for mapping potential distributions of animals and plants. Biodiversity and Conservation 2: 667-680. Farber O & Kadmon R 2003. Assessment of alternative approaches for bioclimatic modeling with special emphasis on the Mahalanobis distance. Ecological Modelling 160: 115â130.</Bibliography>
<Developers>
<Developer Contact="danilo . estagio [at] gmail . com, renato [at] cria . org . br" Name="Danilo J. S. Bellini, Renato De Giovanni"/></Developers>
<AcceptsCategoricalMaps>0</AcceptsCategoricalMaps>
<RequiresAbsencePoints>0</RequiresAbsencePoints>
<Parameters>
<Parameter Id="DistanceType">
<Name>Metric</Name>
<Type>Integer</Type>
<Overview>Metric used to calculate distances: 1=Euclidean, 2=Mahalanobis, 3=Manhattan/Gower, 4=Chebyshev.</Overview>
<Description>Metric used to calculate distances: 1=Euclidean, 2=Mahalanobis, 3=Manhattan/Gower, 4=Chebyshev</Description>
<AcceptedRange Max="4" Min="1"/>
<Default>1</Default></Parameter>
<Parameter Id="NearestPoints">
<Name>Nearest 'n' points</Name>
<Type>Integer</Type>
<Overview>Nearest 'n' points whose mean value will be the reference when calculating environmental distances.</Overview>
<Description>Nearest 'n' points whose mean value will be the reference when calculating environmental distances. When set to 1, distances will be measured to the closest point, which is the same behavior of the previously existing minimum distance algorithm. When set to 0, distances will be measured to the average of all presence points, which is the same behavior of the previously existing distance to average algorithm. Intermediate values between 1 and the total number of presence points are now accepted.</Description>
<AcceptedRange Max="1000" Min="0"/>
<Default>1</Default></Parameter>
<Parameter Id="MaxDistance">
<Name>Maximum distance</Name>
<Type>Real</Type>
<Overview>Maximum distance to the reference in the environmental space.</Overview>
<Description>Maximum distance to the reference in the environmental space, above which the conditions will be considered unsuitable for presence. Since 1 corresponds to the biggest possible distance between any two points in the environment space, setting the maximum distance to this value means that all points in the environmental space will have an associated probability. The probability of presence for points that fall within the range of the maximum distance is inversely proportional to the distance to the reference point (linear decay). The only exception is when the maximum distance is 1 and the metric is Mahalanobis, which will produce probabilities following the chi-square distribution.</Description>
<AcceptedRange Max="1" Min="0"/>
<Default>0.1</Default></Parameter></Parameters></Algorithm>
<Algorithm Id="GARP" Version="3.3">
<Name>GARP (single run) - new openModeller implementation</Name>
<Overview>GARP is a genetic algorithm that creates ecological niche models for species. The models describe environmental conditions under which the species should be able to maintain populations. For input, GARP uses a set of point localities where the species is known to occur and a set of geographic layers representing the environmental parameters that might limit the species' capabilities to survive. Please refer to algorithm description for more information about the differences between this new GARP implementation and the Desktop GARP implementation.</Overview>
<Description>GARP is a genetic algorithm that creates ecological niche models for species. The models describe environmental conditions under which the species should be able to maintain populations. For input, GARP uses a set of point localities where the species is known to occur and a set of geographic layers representing the environmental parameters that might limit the species' capabilities to survive. This implementation is a complete rewrite of the DesktopGarp code, and it also contains the following changes/improvements: (1) Gene values changed from integers (between 1 and 253) to floating point numbers (between -1.0 and 1.0). This avoids precision problems in environment values during projection (for example, if an environment variable has the value 2.56 in some raster cell and 2.76 in another one, DesktopGarp rounds them off to 3). (2) Atomic rules were removed since they seem to have little significance compared to the other rules. (3) Heuristic operator parameters (percentage of mutation and crossover per iteration) are now static since they used to converge to fixed values during the very first iterations. This implementation simply keeps the converged values. (4) A bug was fixed in the procedure responsible for ordering the rules. When a rule was only replacing another, it was being included in the wrong position.</Description>
<Designers>
<Designer Name="Stockwell, D. R. B., modified by Ricardo Scachetti Pereira"/></Designers>
<Bibliography>Stockwell, D. R. B. 1999. Genetic algorithms II. Pages 123-144 in A. H. Fielding, editor. Machine learning methods for ecological applications. Kluwer Academic Publishers, Boston.
Stockwell, D. R. B., and D. P. Peters. 1999. The GARP modelling system: Problems and solutions to automated spatial prediction. International Journal of Geographic Information Systems 13:143-158.
Stockwell, D. R. B., and I. R. Noble. 1992. Induction of sets of rules from animal distribution data: A robust and informative method of analysis. Mathematics and Computers in Simulation 33:385-390.</Bibliography>
<Developers>
<Developer Contact="ricardo [at] tdwg . org" Name="Ricardo Scachetti Pereira"/></Developers>
<AcceptsCategoricalMaps>0</AcceptsCategoricalMaps>
<RequiresAbsencePoints>1</RequiresAbsencePoints>
<Parameters>
<Parameter Id="MaxGenerations">
<Name>Max generations</Name>
<Type>Integer</Type>
<Overview>Maximum number of iterations run by the Genetic Algorithm.</Overview>
<Description>Maximum number of iterations (generations) run by the Genetic Algorithm.</Description>
<AcceptedRange Min="1"/>
<Default>400</Default></Parameter>
<Parameter Id="ConvergenceLimit">
<Name>Convergence limit</Name>
<Type>Real</Type>
<Overview>Defines the convergence value that makes the algorithm stop (before reaching MaxGenerations).</Overview>
<Description/>
<AcceptedRange Max="1" Min="0"/>
<Default>0.01</Default></Parameter>
<Parameter Id="PopulationSize">
<Name>Population size</Name>
<Type>Integer</Type>
<Overview>Maximum number of rules to be kept in solution.</Overview>
<Description>Maximum number of rules to be kept in solution.</Description>
<AcceptedRange Max="500" Min="1"/>
<Default>50</Default></Parameter>
<Parameter Id="Resamples">
<Name>Resamples</Name>
<Type>Integer</Type>
<Overview>Number of points sampled (with replacement) used to test rules.</Overview>
<Description>Number of points sampled (with replacement) used to test rules.</Description>
<AcceptedRange Max="100000" Min="1"/>
<Default>2500</Default></Parameter></Parameters></Algorithm>
<Algorithm Id="GARP_BS" Version="3.0.4">
<Name>GARP with Best Subsets - new openModeller implementation</Name>
<Overview>GARP is a genetic algorithm that creates ecological niche models for species. The models describe environmental conditions under which the species should be able to maintain populations. For input, GARP uses a set of point localities where the species is known to occur and a set of geographic layers representing the environmental parameters that might limit the species' capabilities to survive. This algorithm applies the Best Subsets procedure using the new openModeller implementation in each GARP run. Please refer to GARP single run algorithm description for more information about the differences between DesktopGarp and the new GARP implementation.</Overview>
<Description>GARP is a genetic algorithm that creates ecological niche models for species. The models describe environmental conditions under which the species should be able to maintain populations. For input, GARP uses a set of point localities where the species is known to occur and a set of geographic layers representing the environmental parameters that might limit the species' capabilities to survive. This algorithm applies the Best Subsets procedure using the new openModeller implementation in each GARP run. Please refer to GARP single run algorithm description for more information about the differences between DesktopGarp and the new GARP implementation.</Description>
<Designers>
<Designer Name="Anderson, R. P., D. Lew, D. and A. T. Peterson."/></Designers>
<Bibliography>Anderson, R. P., D. Lew, and A. T. Peterson. 2003. Evaluating predictive models of species' distributions: criteria for selecting optimal models.Ecological Modelling, v. 162, p. 211 232.</Bibliography>
<Developers>
<Developer Contact="ricardo [at] tdwg . org" Name="Ricardo Scachetti Pereira"/></Developers>
<AcceptsCategoricalMaps>0</AcceptsCategoricalMaps>
<RequiresAbsencePoints>1</RequiresAbsencePoints>
<Parameters>
<Parameter Id="TrainingProportion">
<Name>Training Proportion</Name>
<Type>Real</Type>
<Overview>Percentage of occurrence data to be used to train models.</Overview>
<Description>Percentage of occurrence data to be used to train models.</Description>
<AcceptedRange Max="100" Min="0"/>
<Default>50</Default></Parameter>
<Parameter Id="TotalRuns">
<Name>Total Runs</Name>
<Type>Integer</Type>
<Overview>Maximum number of GARP runs to be performed.</Overview>
<Description>Maximum number of GARP runs to be performed.</Description>
<AcceptedRange Max="10000" Min="0"/>
<Default>20</Default></Parameter>
<Parameter Id="HardOmissionThreshold">
<Name>Hard Omission Threshold</Name>
<Type>Real</Type>
<Overview>Maximum acceptable omission error. Set to 100% to use only soft omission.</Overview>
<Description>Maximum acceptable omission error. Set to 100% to use only soft omission.</Description>
<AcceptedRange Max="100" Min="0"/>
<Default>100</Default></Parameter>
<Parameter Id="ModelsUnderOmissionThreshold">
<Name>Models Under Omission Threshold</Name>
<Type>Integer</Type>
<Overview>Minimum number of models below omission threshold.</Overview>
<Description>Minimum number of models below omission threshold.</Description>
<AcceptedRange Max="10000" Min="0"/>
<Default>20</Default></Parameter>
<Parameter Id="CommissionThreshold">
<Name>Commission Threshold</Name>
<Type>Real</Type>
<Overview>Percentage of distribution of models to be taken regarding commission error.</Overview>
<Description>Percentage of distribution of models to be taken regarding commission error.</Description>
<AcceptedRange Max="100" Min="0"/>
<Default>50</Default></Parameter>
<Parameter Id="CommissionSampleSize">
<Name>Commission Sample Size</Name>
<Type>Integer</Type>
<Overview>Number of samples used to calculate commission error.</Overview>
<Description>Number of samples used to calculate commission error.</Description>
<AcceptedRange Min="1"/>
<Default>10000</Default></Parameter>
<Parameter Id="MaxThreads">
<Name>Maximum Number of Threads</Name>
<Type>Integer</Type>
<Overview>Maximum number of threads of executions to run simultaneously.</Overview>
<Description>Maximum number of threads of executions to run simultaneously.</Description>
<AcceptedRange Max="1024" Min="1"/>
<Default>1</Default></Parameter>
<Parameter Id="MaxGenerations">
<Name>Max generations</Name>
<Type>Integer</Type>
<Overview>Maximum number of iterations run by the Genetic Algorithm.</Overview>
<Description>Maximum number of iterations (generations) run by the Genetic Algorithm.</Description>
<AcceptedRange Min="1"/>
<Default>400</Default></Parameter>
<Parameter Id="ConvergenceLimit">
<Name>Convergence limit</Name>
<Type>Real</Type>
<Overview>Defines the convergence value that makes the algorithm stop (before reaching MaxGenerations).</Overview>
<Description>Defines the convergence value that makes the algorithm stop (before reaching MaxGenerations).</Description>
<AcceptedRange Max="1" Min="0"/>
<Default>0.01</Default></Parameter>
<Parameter Id="PopulationSize">
<Name>Population size</Name>
<Type>Integer</Type>
<Overview>Maximum number of rules to be kept in solution.</Overview>
<Description>Maximum number of rules to be kept in solution.</Description>
<AcceptedRange Max="500" Min="1"/>
<Default>50</Default></Parameter>
<Parameter Id="Resamples">
<Name>Resamples</Name>
<Type>Integer</Type>
<Overview>Number of points sampled (with replacement) used to test rules.</Overview>
<Description>Number of points sampled (with replacement) used to test rules.</Description>
<AcceptedRange Max="100000" Min="1"/>
<Default>2500</Default></Parameter></Parameters></Algorithm>
<Algorithm Id="MAXENT" Version="0.6">
<Name>Maximum Entropy</Name>
<Overview>The principle of maximum entropy is a method for analyzing available qualitative information in order to determine a unique epistemic probability distribution. It states that the least biased distribution that encodes certain given information is that which maximizes the information entropy (content retrieved from Wikipedia on the 19th of May, 2008: http://en.wikipedia.org/wiki/Maximum_entropy).</Overview>
<Description>The principle of maximum entropy is a method for analyzing available qualitative information in order to determine a unique epistemic probability distribution. It states that the least biased distribution that encodes certain given information is that which maximizes the information entropy (content retrieved from Wikipedia on the 19th of May, 2008: http://en.wikipedia.org/wiki/Maximum_entropy). E.T. Jaynes introduced the maximum entropy principle in 1957 saying that 'Information theory provides a constructive criterion for setting up probability distributions on the basis of partial knowledge, and leads to a type of statistical inference which is called the maximum entropy estimate. It is the least biased estimate possible on the given information; i.e., it is maximally noncommittal with regard to missing information'.</Description>
<Designers>
<Designer Name="Steven J. Phillips, Miroslav DudÃk, Robert E. Schapire"/></Designers>
<Bibliography>1) Jaynes, E.T. (1957) Information Theory and Statistical Mechanics. In Physical Review, Vol. 106, #4 (pp 620-630). 2) Berger, A. L., Pietra, S. A. D. and Pietra, V. J. D. (1996). A maximum entropy approach to natural language processing. Computational Linguistics, 22, 39-71. 3) Darroch, J.N. and Ratcliff, D. (1972) Generalized iterative scaling for log-linear models. The Annals of Mathematical Statistics, Vol. 43: pp 1470-1480. 4) Malouf, R. (2003) A comparison of algorithms for maximum entropy parameter estimation. Proceedings of the Sixth Conference on Natural Language Learning. 5) Phillips, S.J., DudÃk, M. and Schapire, R.E. (2004) A maximum entropy approach to species distribution modeling. Proceedings of the Twenty-First International Conference on Machine Learning, pp 655-662.</Bibliography>
<Developers>
<Developer Contact="elisangela.rodrigues [at] poli . usp . br, renato [at] cria . org . br" Name="Elisangela S. da C. Rodrigues, Renato De Giovanni"/></Developers>
<AcceptsCategoricalMaps>0</AcceptsCategoricalMaps>
<RequiresAbsencePoints>1</RequiresAbsencePoints>
<Parameters>
<Parameter Id="NumberOfBackgroundPoints">
<Name>Number of background points</Name>
<Type>Integer</Type>
<Overview>Number of background points to be generated.</Overview>
<Description>Number of background points to be generated.</Description>
<AcceptedRange Max="10000" Min="0"/>
<Default>10000</Default></Parameter>
<Parameter Id="UseAbsencesAsBackground">
<Name>Use absence points as background</Name>
<Type>Integer</Type>
<Overview>Use absence points as background</Overview>
<Description>When absence points are provided, this parameter can be used to instruct the algorithm to use them as background points. This would prevent the algorithm to randomly generate them, also facilitating comparisons between different algorithms.</Description>
<AcceptedRange Max="1" Min="0"/>
<Default>0</Default></Parameter>
<Parameter Id="IncludePresencePointsInBackground">
<Name>Include input points in the background</Name>
<Type>Integer</Type>
<Overview>Include input points in the background: 0=No, 1=Yes.</Overview>
<Description>Include input points in the background: 0=No, 1=Yes.</Description>
<AcceptedRange Max="1" Min="0"/>
<Default>1</Default></Parameter>
<Parameter Id="NumberOfIterations">
<Name>Number of iterations</Name>
<Type>Integer</Type>
<Overview>Number of iterations.</Overview>
<Description>Number of iterations.</Description>
<AcceptedRange Min="1"/>
<Default>500</Default></Parameter>
<Parameter Id="TerminateTolerance">
<Name>Terminate tolerance</Name>
<Type>Real</Type>
<Overview>Tolerance for detecting model convergence.</Overview>
<Description>Tolerance for detecting model convergence.</Description>
<AcceptedRange Min="0"/>
<Default>0.00001</Default></Parameter>
<Parameter Id="OutputFormat">
<Name>Output format</Name>
<Type>Integer</Type>
<Overview>Output format: 1 = Raw, 2 = Logistic.</Overview>
<Description>Output format: 1 = Raw, 2 = Logistic.</Description>
<AcceptedRange Max="2" Min="1"/>
<Default>2</Default></Parameter>
<Parameter Id="QuadraticFeatures">
<Name>Quadratic features</Name>
<Type>Integer</Type>
<Overview>Enable quadratic features (0=no, 1=yes)</Overview>
<Description>Enable quadratic features (0=no, 1=yes)</Description>
<AcceptedRange Max="1" Min="0"/>
<Default>1</Default></Parameter>
<Parameter Id="ProductFeatures">
<Name>Product features</Name>
<Type>Integer</Type>
<Overview>Enable product features (0=no, 1=yes)</Overview>
<Description>Enable product features (0=no, 1=yes)</Description>
<AcceptedRange Max="1" Min="0"/>
<Default>1</Default></Parameter>
<Parameter Id="HingeFeatures">
<Name>Hinge features</Name>
<Type>Integer</Type>
<Overview>Enable hinge features (0=no, 1=yes)</Overview>
<Description>Enable hinge features (0=no, 1=yes)</Description>
<AcceptedRange Max="1" Min="0"/>
<Default>1</Default></Parameter>
<Parameter Id="ThresholdFeatures">
<Name>Threshold features</Name>
<Type>Integer</Type>
<Overview>Enable threshold features (0=no, 1=yes)</Overview>
<Description>Enable threshold features (0=no, 1=yes)</Description>
<AcceptedRange Max="1" Min="0"/>
<Default>1</Default></Parameter></Parameters></Algorithm>
<Algorithm Id="NICHE_MOSAIC" Version="0.1">
<Name>Niche Mosaic</Name>
<Overview>This algorithm is still experimental. You may not use it in publications without the author's permission.</Overview>
<Description>This algorithm is still experimental. You may not use it in publications without the author's permission.</Description>
<Designers>
<Designer Name="Missae Yamamoto"/></Designers>
<Bibliography/>
<Developers>
<Developer Contact="missae [at] dpi.inpe.br" Name="Missae Yamamoto"/></Developers>
<AcceptsCategoricalMaps>0</AcceptsCategoricalMaps>
<RequiresAbsencePoints>0</RequiresAbsencePoints>
<Parameters>
<Parameter Id="NumberOfIterations">
<Name>Number of iterations</Name>
<Type>Integer</Type>
<Overview>Number of iterations.</Overview>
<Description>Number of iterations.</Description>
<AcceptedRange Min="1000"/>
<Default>2000</Default></Parameter></Parameters></Algorithm>
<Algorithm Id="CONSENSUS" Version="0.1">
<Name>Consensus</Name>
<Overview>Consensus</Overview>
<Description>Consensus</Description>
<Designers>
<Designer Name=""/></Designers>
<Bibliography/>
<Developers>
<Developer Contact="renato [at] cria . org . br" Name="Renato De Giovanni"/></Developers>
<AcceptsCategoricalMaps>0</AcceptsCategoricalMaps>
<RequiresAbsencePoints>0</RequiresAbsencePoints>
<Parameters/></Algorithm>
<Algorithm Id="ANN" Version="0.2">
<Name>Artificial Neural Network</Name>
<Overview>Artificial neural networks are made up of interconnecting artificial neurons (programming constructs that mimic the properties of biological neurons). Artificial neural networks may either be used to gain an understanding of biological neural networks, or for solving artificial intelligence problems without necessarily creating a model of a real biological system. Content retrieved from Wikipedia on the 06th of May, 2008: http://en.wikipedia.org/wiki/Neural_network</Overview>
<Description>An artificial neural network (ANN), also called a simulated neural network (SNN) or commonly just neural network (NN), is an interconnected group of artificial neurons that uses a mathematical or computational model for information processing based on a connectionistic approach to computation. In most cases an ANN is an adaptive system that changes its structure based on external or internal information that flows through the network. In more practical terms, neural networks are non-linear statistical data modeling or decision making tools. They can be used to model complex relationships between inputs and outputs or to find patterns in data. Content retrieved from Wikipedia on the 06th of May, 2008: http://en.wikipedia.org/wiki/Neural_network</Description>
<Designers>
<Designer Name="Chopra, Paras, modified by Alex Oshika Avilla and Fabrício Augusto Rodrigues"/></Designers>
<Bibliography/>
<Developers>
<Developer Contact="alex.avilla [at] poli . usp .br, fabricio.rodrigues [at] poli . usp .br" Name="Alex Oshika Avilla, Fabricio Augusto Rodrigues"/></Developers>
<AcceptsCategoricalMaps>0</AcceptsCategoricalMaps>
<RequiresAbsencePoints>0</RequiresAbsencePoints>
<Parameters>
<Parameter Id="HiddenLayerNeurons">
<Name>Number of neurons in the hidden layer</Name>
<Type>Integer</Type>
<Overview>Number of neurons in the hidden layer (additional layer to the input and output layers, not connected externally).</Overview>
<Description>Number of neurons in the hidden layer (additional layer to the input and output layers, not connected externally).</Description>
<AcceptedRange Min="1"/>
<Default>14</Default></Parameter>
<Parameter Id="LearningRate">
<Name>Learning Rate</Name>
<Type>Real</Type>
<Overview>Learning Rate. Training parameter that controls the size of weight and bias changes during learning.</Overview>
<Description>Learning Rate. Training parameter that controls the size of weight and bias changes during learning.</Description>
<AcceptedRange Max="1" Min="0"/>
<Default>0.3</Default></Parameter>
<Parameter Id="Momentum">
<Name>Momentum</Name>
<Type>Real</Type>
<Overview>Momentum simply adds a fraction m of the previous weight update to the current one. The momentum parameter is used to prevent the system from converging to a local minimum or saddle point.</Overview>
<Description>Momentum simply adds a fraction m of the previous weight update to the current one. The momentum parameter is used to prevent the system from converging to a local minimum or saddle point. A high momentum parameter can also help to increase the speed of convergence of the system. However, setting the momentum parameter too high can create a risk of overshooting the minimum, which can cause the system to become unstable. A momentum coefficient that is too low cannot reliably avoid local minima, and can also slow down the training of the system.</Description>
<AcceptedRange Max="1" Min="0"/>
<Default>0.05</Default></Parameter>
<Parameter Id="Choice">
<Name>Training type</Name>
<Type>Integer</Type>
<Overview>0 = train by epoch, 1 = train by minimum error</Overview>
<Description>0 = train by epoch, 1 = train by minimum error</Description>
<AcceptedRange Max="1" Min="0"/>
<Default>1</Default></Parameter>
<Parameter Id="Epoch">
<Name>Epoch</Name>
<Type>Integer</Type>
<Overview>Determines when training will stop once the number of iterations exceeds epochs. When training by minimum error, this represents the maximum number of iterations.</Overview>
<Description>Determines when training will stop once the number of iterations exceeds epochs. When training by minimum error, this represents the maximum number of iterations.</Description>
<AcceptedRange Min="1"/>
<Default>5000000</Default></Parameter>
<Parameter Id="MinimunError">
<Name>Minimun Error</Name>
<Type>Real</Type>
<Overview>Minimum mean square error of the epoch.</Overview>
<Description>Minimum mean square error of the epoch. Square root of the sum of squared differences between the network targets and actual outputs divided by number of patterns (only for training by minimum error).</Description>
<AcceptedRange Max="0.5" Min="0"/>
<Default>0.01</Default></Parameter></Parameters></Algorithm>
<Algorithm Id="RF" Version="0.2">
<Name>Random Forests</Name>
<Overview>Random Forests</Overview>
<Description>Random Forests</Description>
<Designers>
<Designer Name="Leo Breiman & Adele Cutler"/></Designers>
<Bibliography>Breiman, L. (2001). Random forests. Machine Learning, 45, 5â32.</Bibliography>
<Developers>
<Developer Contact="renato [at] cria . org . br" Name="Renato De Giovanni"/></Developers>
<AcceptsCategoricalMaps>0</AcceptsCategoricalMaps>
<RequiresAbsencePoints>0</RequiresAbsencePoints>
<Parameters>
<Parameter Id="NumTrees">
<Name>Number of trees</Name>
<Type>Integer</Type>
<Overview>Number of trees</Overview>
<Description>Number of trees</Description>
<AcceptedRange Max="1000" Min="1"/>
<Default>10</Default></Parameter>
<Parameter Id="VarsPerTree">
<Name>Number of variables per tree</Name>
<Type>Integer</Type>
<Overview>Number of variables per tree (zero defaults to the square root of the number of layers)</Overview>
<Description>Number of variables per tree (zero defaults to the square root of the number of layers)</Description>
<Default>0</Default></Parameter>
<Parameter Id="ForceUnsupervisedLearning">
<Name>Force unsupervised learning</Name>
<Type>Integer</Type>
<Overview>Force unsupervised learning</Overview>
<Description>When absence points are provided, this parameter can be used to ignore them forcing unsupervised learning. Note that if no absences are provided, unsupervised learning will be used anyway.</Description>
<AcceptedRange Max="1" Min="0"/>
<Default>0</Default></Parameter></Parameters></Algorithm>
<Algorithm Id="SVM" Version="0.4">
<Name>SVM (Support Vector Machines)</Name>
<Overview>Support vector machines (SVMs) are a set of related supervised learning methods that belong to a family of generalized linear classifiers. They can also be considered a special case of Tikhonov regularization. A special property of SVMs is that they simultaneously minimize the empirical classification error and maximize the geometric margin; hence they are also known as maximum margin classifiers. Content retrieved from Wikipedia on the 13th of June, 2007: http://en.wikipedia.org/w/index.php?title=Support_vector_machine&oldid=136646498.</Overview>
<Description>Support vector machines map input vectors to a higher dimensional space where a maximal separating hyperplane is constructed. Two parallel hyperplanes are constructed on each side of the hyperplane that separates the data. The separating hyperplane is the hyperplane that maximises the distance between the two parallel hyperplanes. An assumption is made that the larger the margin or distance between these parallel hyperplanes the better the generalisation error of the classifier will be. The model produced by support vector classification only depends on a subset of the training data, because the cost function for building the model does not care about training points that lie beyond the margin. Content retrieved from Wikipedia on the 13th of June, 2007: http://en.wikipedia.org/w/index.php?title=Support_vector_machine&oldid=136646498. The openModeller implementation of SVMs makes use of the libsvm library version 2.85: Chih-Chung Chang and Chih-Jen Lin, LIBSVM: a library for support vector machines, 2001. Software available at http://www.csie.ntu.edu.tw/~cjlin/libsvm.
Release history:
version 0.1: initial release
version 0.2: New parameter to specify the number of pseudo-absences to be generated; upgraded to libsvm 2.85; fixed memory leaks</Description>
<Designers>
<Designer Name="Vladimir N. Vapnik"/></Designers>
<Bibliography>1) Vapnik, V. (1995) The Nature of Statistical Learning Theory. SpringerVerlag. 2) Schölkopf, B., Smola, A., Williamson, R. and Bartlett, P.L.(2000). New support vector algorithms. Neural Computation, 12, 1207-1245. 3) Schölkopf, B., Platt, J.C., Shawe-Taylor, J., Smola A.J. and Williamson, R.C. (2001). Estimating the support of a high-dimensional distribution. Neural Computation, 13, 1443-1471. 4) Cristianini, N. & Shawe-Taylor, J. (2000). An Introduction to Support Vector Machines and other kernel-based learning methods. Cambridge University Press.</Bibliography>
<Developers>
<Developer Contact="renato [at] cria . org . br" Name="Renato De Giovanni in collaboration with Ana Carolina Lorena"/></Developers>
<AcceptsCategoricalMaps>0</AcceptsCategoricalMaps>
<RequiresAbsencePoints>0</RequiresAbsencePoints>
<Parameters>
<Parameter Id="SvmType">
<Name>SVM type</Name>
<Type>Integer</Type>
<Overview>Type of SVM: 0 = C-SVC, 1 = Nu-SVC, 2 = one-class SVM</Overview>
<Description>Type of SVM: 0 = C-SVC, 1 = Nu-SVC, 2 = one-class SVM</Description>
<AcceptedRange Max="2" Min="0"/>
<Default>0</Default></Parameter>
<Parameter Id="KernelType">
<Name>Kernel type</Name>
<Type>Integer</Type>
<Overview>Type of kernel function: 0 = linear: u'*v , 1 = polynomial: (gamma*u'*v + coef0)^degree , 2 = radial basis function: exp(-gamma*|u-v|^2)</Overview>
<Description>Type of kernel function: 0 = linear: u'*v , 1 = polynomial: (gamma*u'*v + coef0)^degree , 2 = radial basis function: exp(-gamma*|u-v|^2)</Description>
<AcceptedRange Max="4" Min="0"/>
<Default>2</Default></Parameter>
<Parameter Id="Degree">
<Name>Degree</Name>
<Type>Integer</Type>
<Overview>Degree in kernel function (only for polynomial kernels).</Overview>
<Description>Degree in kernel function (only for polynomial kernels).</Description>
<AcceptedRange Min="0"/>
<Default>3</Default></Parameter>
<Parameter Id="Gamma">
<Name>Gamma</Name>
<Type>Real</Type>
<Overview>Gamma in kernel function (only for polynomial and radial basis kernels). When set to zero, the default value will actually be 1/k, where k is the number of layers.</Overview>
<Description>Gamma in kernel function (only for polynomial and radial basis kernels). When set to zero, the default value will actually be 1/k, where k is the number of layers.</Description>
<Default>0</Default></Parameter>
<Parameter Id="Coef0">
<Name>Coef0</Name>
<Type>Real</Type>
<Overview>Coef0 in kernel function (only for polynomial kernels).</Overview>
<Description>Coef0 in kernel function (only for polynomial kernels).</Description>
<Default>0</Default></Parameter>
<Parameter Id="C">
<Name>Cost</Name>
<Type>Real</Type>
<Overview>Cost (only for C-SVC types).</Overview>
<Description>Cost (only for C-SVC types).</Description>
<AcceptedRange Min="0.001000000000000000020816682"/>
<Default>1</Default></Parameter>
<Parameter Id="Nu">
<Name>Nu</Name>
<Type>Real</Type>
<Overview>Nu (only for Nu-SVC and one-class SVM).</Overview>
<Description>Nu (only for Nu-SVC and one-class SVM).</Description>
<AcceptedRange Max="1" Min="0.001000000000000000020816682"/>
<Default>0.5</Default></Parameter>
<Parameter Id="ProbabilisticOutput">
<Name>Probabilistic output</Name>
<Type>Integer</Type>
<Overview>Indicates if the output should be a probability instead of a binary response (only available for C-SVC and Nu-SVC).</Overview>
<Description>Indicates if the output should be a probability instead of a binary response (only available for C-SVC and Nu-SVC).</Description>
<AcceptedRange Max="1" Min="0"/>
<Default>1</Default></Parameter>
<Parameter Id="NumberOfPseudoAbsences">
<Name>Number of pseudo-absences</Name>
<Type>Integer</Type>
<Overview>Number of pseudo-absences to be generated (only for C-SVC and Nu-SVC when no absences have been provided). When absences are needed, a zero parameter will default to the same number of presences.</Overview>
<Description>Number of pseudo-absences to be generated (only for C-SVC and Nu-SVC when no absences have been provided). When absences are needed, a zero parameter will default to the same number of presences.</Description>
<AcceptedRange Min="0"/>
<Default>0</Default></Parameter></Parameters></Algorithm></Algorithms></AvailableAlgorithms></ns1:getAlgorithmsResponse>
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org.embl.ebi.escience.scuflworkers.java.StringListMerge
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize
1
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry
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net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invokeextract_algorithm_idxml_text0nodelist11net.sf.taverna.t2.activitiesxpath-activity1.3net.sf.taverna.t2.activities.xpath.XPathActivity
<?xml version="1.0" encoding="UTF-8"?>
<Algorithm xmlns="http://openmodeller.cria.org.br/xml/1.0" Id="MAXENT" Version="0.6">
<Name>Maximum Entropy</Name>
<Overview>The principle of maximum entropy is a method for analyzing available qualitative information in order to determine a unique epistemic probability distribution. It states that the least biased distribution that encodes certain given information is that which maximizes the information entropy (content retrieved from Wikipedia on the 19th of May, 2008: http://en.wikipedia.org/wiki/Maximum_entropy).</Overview>
<Description>The principle of maximum entropy is a method for analyzing available qualitative information in order to determine a unique epistemic probability distribution. It states that the least biased distribution that encodes certain given information is that which maximizes the information entropy (content retrieved from Wikipedia on the 19th of May, 2008: http://en.wikipedia.org/wiki/Maximum_entropy). E.T. Jaynes introduced the maximum entropy principle in 1957 saying that 'Information theory provides a constructive criterion for setting up probability distributions on the basis of partial knowledge, and leads to a type of statistical inference which is called the maximum entropy estimate. It is the least biased estimate possible on the given information; i.e., it is maximally noncommittal with regard to missing information'.</Description>
<Designers>
<Designer Name="Steven J. Phillips, Miroslav DudÃk, Robert E. Schapire"/></Designers>
<Bibliography>1) Jaynes, E.T. (1957) Information Theory and Statistical Mechanics. In Physical Review, Vol. 106, #4 (pp 620-630). 2) Berger, A. L., Pietra, S. A. D. and Pietra, V. J. D. (1996). A maximum entropy approach to natural language processing. Computational Linguistics, 22, 39-71. 3) Darroch, J.N. and Ratcliff, D. (1972) Generalized iterative scaling for log-linear models. The Annals of Mathematical Statistics, Vol. 43: pp 1470-1480. 4) Malouf, R. (2003) A comparison of algorithms for maximum entropy parameter estimation. Proceedings of the Sixth Conference on Natural Language Learning. 5) Phillips, S.J., DudÃk, M. and Schapire, R.E. (2004) A maximum entropy approach to species distribution modeling. Proceedings of the Twenty-First International Conference on Machine Learning, pp 655-662.</Bibliography>
<Developers>
<Developer Contact="elisangela.rodrigues [at] poli . usp . br, renato [at] cria . org . br" Name="Elisangela S. da C. Rodrigues, Renato De Giovanni"/></Developers>
<AcceptsCategoricalMaps>0</AcceptsCategoricalMaps>
<RequiresAbsencePoints>1</RequiresAbsencePoints>
<Parameters>
<Parameter Id="NumberOfBackgroundPoints">
<Name>Number of background points</Name>
<Type>Integer</Type>
<Overview>Number of background points to be generated.</Overview>
<Description>Number of background points to be generated.</Description>
<AcceptedRange Max="10000" Min="0"/>
<Default>10000</Default></Parameter>
<Parameter Id="UseAbsencesAsBackground">
<Name>Use absence points as background</Name>
<Type>Integer</Type>
<Overview>Use absence points as background</Overview>
<Description>When absence points are provided, this parameter can be used to instruct the algorithm to use them as background points. This would prevent the algorithm to randomly generate them, also facilitating comparisons between different algorithms.</Description>
<AcceptedRange Max="1" Min="0"/>
<Default>0</Default></Parameter>
<Parameter Id="IncludePresencePointsInBackground">
<Name>Include input points in the background</Name>
<Type>Integer</Type>
<Overview>Include input points in the background: 0=No, 1=Yes.</Overview>
<Description>Include input points in the background: 0=No, 1=Yes.</Description>
<AcceptedRange Max="1" Min="0"/>
<Default>1</Default></Parameter>
<Parameter Id="NumberOfIterations">
<Name>Number of iterations</Name>
<Type>Integer</Type>
<Overview>Number of iterations.</Overview>
<Description>Number of iterations.</Description>
<AcceptedRange Min="1"/>
<Default>500</Default></Parameter>
<Parameter Id="TerminateTolerance">
<Name>Terminate tolerance</Name>
<Type>Real</Type>
<Overview>Tolerance for detecting model convergence.</Overview>
<Description>Tolerance for detecting model convergence.</Description>
<AcceptedRange Min="0"/>
<Default>0.00001</Default></Parameter>
<Parameter Id="OutputFormat">
<Name>Output format</Name>
<Type>Integer</Type>
<Overview>Output format: 1 = Raw, 2 = Logistic.</Overview>
<Description>Output format: 1 = Raw, 2 = Logistic.</Description>
<AcceptedRange Max="2" Min="1"/>
<Default>2</Default></Parameter>
<Parameter Id="QuadraticFeatures">
<Name>Quadratic features</Name>
<Type>Integer</Type>
<Overview>Enable quadratic features (0=no, 1=yes)</Overview>
<Description>Enable quadratic features (0=no, 1=yes)</Description>
<AcceptedRange Max="1" Min="0"/>
<Default>1</Default></Parameter>
<Parameter Id="ProductFeatures">
<Name>Product features</Name>
<Type>Integer</Type>
<Overview>Enable product features (0=no, 1=yes)</Overview>
<Description>Enable product features (0=no, 1=yes)</Description>
<AcceptedRange Max="1" Min="0"/>
<Default>1</Default></Parameter>
<Parameter Id="HingeFeatures">
<Name>Hinge features</Name>
<Type>Integer</Type>
<Overview>Enable hinge features (0=no, 1=yes)</Overview>
<Description>Enable hinge features (0=no, 1=yes)</Description>
<AcceptedRange Max="1" Min="0"/>
<Default>1</Default></Parameter>
<Parameter Id="ThresholdFeatures">
<Name>Threshold features</Name>
<Type>Integer</Type>
<Overview>Enable threshold features (0=no, 1=yes)</Overview>
<Description>Enable threshold features (0=no, 1=yes)</Description>
<AcceptedRange Max="1" Min="0"/>
<Default>1</Default></Parameter></Parameters></Algorithm>
/default:Algorithm/@Id
default
http://openmodeller.cria.org.br/xml/1.0
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize
1
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry
1.0
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net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeMerge_String_List_to_a_String_2stringlist1concatenated00net.sf.taverna.t2.activitieslocalworker-activity1.3net.sf.taverna.t2.activities.localworker.LocalworkerActivity
stringlist
1
l('text/plain')
java.lang.String
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seperator
0
'text/plain'
java.lang.String
true
concatenated
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'text/plain'
0
workflow
org.embl.ebi.escience.scuflworkers.java.StringListMerge
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize
1
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry
1.0
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net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invokeextract_algorithm_versionxml_text0nodelist11net.sf.taverna.t2.activitiesxpath-activity1.3net.sf.taverna.t2.activities.xpath.XPathActivity
<?xml version="1.0" encoding="UTF-8"?>
<Algorithm xmlns="http://openmodeller.cria.org.br/xml/1.0" Id="MAXENT" Version="0.6">
<Name>Maximum Entropy</Name>
<Overview>The principle of maximum entropy is a method for analyzing available qualitative information in order to determine a unique epistemic probability distribution. It states that the least biased distribution that encodes certain given information is that which maximizes the information entropy (content retrieved from Wikipedia on the 19th of May, 2008: http://en.wikipedia.org/wiki/Maximum_entropy).</Overview>
<Description>The principle of maximum entropy is a method for analyzing available qualitative information in order to determine a unique epistemic probability distribution. It states that the least biased distribution that encodes certain given information is that which maximizes the information entropy (content retrieved from Wikipedia on the 19th of May, 2008: http://en.wikipedia.org/wiki/Maximum_entropy). E.T. Jaynes introduced the maximum entropy principle in 1957 saying that 'Information theory provides a constructive criterion for setting up probability distributions on the basis of partial knowledge, and leads to a type of statistical inference which is called the maximum entropy estimate. It is the least biased estimate possible on the given information; i.e., it is maximally noncommittal with regard to missing information'.</Description>
<Designers>
<Designer Name="Steven J. Phillips, Miroslav DudÃk, Robert E. Schapire"/></Designers>
<Bibliography>1) Jaynes, E.T. (1957) Information Theory and Statistical Mechanics. In Physical Review, Vol. 106, #4 (pp 620-630). 2) Berger, A. L., Pietra, S. A. D. and Pietra, V. J. D. (1996). A maximum entropy approach to natural language processing. Computational Linguistics, 22, 39-71. 3) Darroch, J.N. and Ratcliff, D. (1972) Generalized iterative scaling for log-linear models. The Annals of Mathematical Statistics, Vol. 43: pp 1470-1480. 4) Malouf, R. (2003) A comparison of algorithms for maximum entropy parameter estimation. Proceedings of the Sixth Conference on Natural Language Learning. 5) Phillips, S.J., DudÃk, M. and Schapire, R.E. (2004) A maximum entropy approach to species distribution modeling. Proceedings of the Twenty-First International Conference on Machine Learning, pp 655-662.</Bibliography>
<Developers>
<Developer Contact="elisangela.rodrigues [at] poli . usp . br, renato [at] cria . org . br" Name="Elisangela S. da C. Rodrigues, Renato De Giovanni"/></Developers>
<AcceptsCategoricalMaps>0</AcceptsCategoricalMaps>
<RequiresAbsencePoints>1</RequiresAbsencePoints>
<Parameters>
<Parameter Id="NumberOfBackgroundPoints">
<Name>Number of background points</Name>
<Type>Integer</Type>
<Overview>Number of background points to be generated.</Overview>
<Description>Number of background points to be generated.</Description>
<AcceptedRange Max="10000" Min="0"/>
<Default>10000</Default></Parameter>
<Parameter Id="UseAbsencesAsBackground">
<Name>Use absence points as background</Name>
<Type>Integer</Type>
<Overview>Use absence points as background</Overview>
<Description>When absence points are provided, this parameter can be used to instruct the algorithm to use them as background points. This would prevent the algorithm to randomly generate them, also facilitating comparisons between different algorithms.</Description>
<AcceptedRange Max="1" Min="0"/>
<Default>0</Default></Parameter>
<Parameter Id="IncludePresencePointsInBackground">
<Name>Include input points in the background</Name>
<Type>Integer</Type>
<Overview>Include input points in the background: 0=No, 1=Yes.</Overview>
<Description>Include input points in the background: 0=No, 1=Yes.</Description>
<AcceptedRange Max="1" Min="0"/>
<Default>1</Default></Parameter>
<Parameter Id="NumberOfIterations">
<Name>Number of iterations</Name>
<Type>Integer</Type>
<Overview>Number of iterations.</Overview>
<Description>Number of iterations.</Description>
<AcceptedRange Min="1"/>
<Default>500</Default></Parameter>
<Parameter Id="TerminateTolerance">
<Name>Terminate tolerance</Name>
<Type>Real</Type>
<Overview>Tolerance for detecting model convergence.</Overview>
<Description>Tolerance for detecting model convergence.</Description>
<AcceptedRange Min="0"/>
<Default>0.00001</Default></Parameter>
<Parameter Id="OutputFormat">
<Name>Output format</Name>
<Type>Integer</Type>
<Overview>Output format: 1 = Raw, 2 = Logistic.</Overview>
<Description>Output format: 1 = Raw, 2 = Logistic.</Description>
<AcceptedRange Max="2" Min="1"/>
<Default>2</Default></Parameter>
<Parameter Id="QuadraticFeatures">
<Name>Quadratic features</Name>
<Type>Integer</Type>
<Overview>Enable quadratic features (0=no, 1=yes)</Overview>
<Description>Enable quadratic features (0=no, 1=yes)</Description>
<AcceptedRange Max="1" Min="0"/>
<Default>1</Default></Parameter>
<Parameter Id="ProductFeatures">
<Name>Product features</Name>
<Type>Integer</Type>
<Overview>Enable product features (0=no, 1=yes)</Overview>
<Description>Enable product features (0=no, 1=yes)</Description>
<AcceptedRange Max="1" Min="0"/>
<Default>1</Default></Parameter>
<Parameter Id="HingeFeatures">
<Name>Hinge features</Name>
<Type>Integer</Type>
<Overview>Enable hinge features (0=no, 1=yes)</Overview>
<Description>Enable hinge features (0=no, 1=yes)</Description>
<AcceptedRange Max="1" Min="0"/>
<Default>1</Default></Parameter>
<Parameter Id="ThresholdFeatures">
<Name>Threshold features</Name>
<Type>Integer</Type>
<Overview>Enable threshold features (0=no, 1=yes)</Overview>
<Description>Enable threshold features (0=no, 1=yes)</Description>
<AcceptedRange Max="1" Min="0"/>
<Default>1</Default></Parameter></Parameters></Algorithm>
/default:Algorithm/@Version
default
http://openmodeller.cria.org.br/xml/1.0
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize
1
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry
1.0
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5000
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net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeMerge_String_List_to_a_String_2_2stringlist1concatenated00net.sf.taverna.t2.activitieslocalworker-activity1.3net.sf.taverna.t2.activities.localworker.LocalworkerActivity
stringlist
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l('text/plain')
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'text/plain'
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concatenated
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workflow
org.embl.ebi.escience.scuflworkers.java.StringListMerge
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize
1
net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry
1.0
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net.sf.taverna.t2.coreworkflowmodel-impl1.3net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invokecreate_algorithm_xmlparameter_namescreate_algorithm_xmlparameter_valuescreate_algorithm_xmlalgorithm_versioncreate_algorithm_xmlalgorithm_idextract_parameter_idxml_textextract_parameter_defaultxml_textFlatten_ListinputlistFlatten_List_2inputlistBeanshellnamesBeanshellvaluesExtract_algorithm_namesxml_textChooseselectionValuesChoosetitleChoosemessageXPath_From_TextxpathXPath_From_Textxml-textXPath_From_Text_2xpathXPath_From_Text_2xml-textcreate_xpath_to_get_algorithmin1Merge_String_List_to_a_Stringstringlistextract_algorithm_idxml_textMerge_String_List_to_a_String_2stringlistextract_algorithm_versionxml_textMerge_String_List_to_a_String_2_2stringlistalgorithm
e89873e1-cdec-4261-82c3-21a0040f3651
2011-11-24 14:26:22.422 GMT
6b0719c8-6d92-4545-99f8-277f290e0f9c
2011-11-24 17:03:35.575 GMT
Select the algorithm type to be used in the model and specify its parameter values.
2011-11-24 14:03:42.180 GMT
31b6213b-bf33-4e63-b7ab-d3a5d862a975
2011-11-24 17:05:16.325 GMT
600a0123-8808-4833-bd94-0d9b267eb403
2011-11-24 15:02:05.749 GMT
ff6172ea-7bc7-454f-9578-d06e906e911b
2011-11-24 17:07:28.198 GMT
74449b5a-5a7d-4c12-a1ea-f72e87d39df3
2011-11-24 14:43:49.752 GMT
Alan R Williams
2011-11-24 14:03:48.972 GMT
Create algorithm
2011-11-24 14:03:54.909 GMT
f6ffb05b-4810-4750-89a7-983d11064460
2011-11-24 15:07:47.44 GMT
7250c0c7-12e1-4641-95bc-ea534c1249b5
2011-11-24 15:05:59.268 GMT
9f1737ac-e5e8-4dd9-bada-fe240fd5515e
2011-11-03 17:08:55.971 GMT