| 1 |
36450
|
marek.hors
|
<workflow-app xmlns="uri:oozie:workflow:0.4" name="test-mainworkflows_integration_primary_processing">
|
| 2 |
25563
|
marek.hors
|
|
| 3 |
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|
marek.hors
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<global>
|
| 4 |
|
|
<job-tracker>${jobTracker}</job-tracker>
|
| 5 |
|
|
<name-node>${nameNode}</name-node>
|
| 6 |
|
|
<configuration>
|
| 7 |
|
|
<property>
|
| 8 |
|
|
<name>mapred.job.queue.name</name>
|
| 9 |
|
|
<value>${queueName}</value>
|
| 10 |
|
|
</property>
|
| 11 |
|
|
</configuration>
|
| 12 |
|
|
</global>
|
| 13 |
|
|
|
| 14 |
|
|
<start to="generate-schema" />
|
| 15 |
|
|
|
| 16 |
|
|
<action name="generate-schema">
|
| 17 |
|
|
<java>
|
| 18 |
|
|
<main-class>eu.dnetlib.iis.core.javamapreduce.hack.AvroSchemaGenerator</main-class>
|
| 19 |
|
|
<arg>eu.dnetlib.iis.mainworkflows.schemas.DocumentContentClasspath</arg>
|
| 20 |
|
|
<arg>eu.dnetlib.iis.metadataextraction.schemas.DocumentText</arg>
|
| 21 |
|
|
<arg>org.apache.avro.Schema.Type.NULL</arg>
|
| 22 |
|
|
<capture-output />
|
| 23 |
|
|
</java>
|
| 24 |
|
|
<ok to="producer" />
|
| 25 |
|
|
<error to="fail" />
|
| 26 |
|
|
</action>
|
| 27 |
20087
|
marek.hors
|
|
| 28 |
|
|
<action name="producer">
|
| 29 |
|
|
<java>
|
| 30 |
|
|
<!-- The data generated by this node is deleted in this section -->
|
| 31 |
|
|
<prepare>
|
| 32 |
|
|
<delete path="${nameNode}${workingDir}/producer" />
|
| 33 |
|
|
<mkdir path="${nameNode}${workingDir}/producer" />
|
| 34 |
|
|
</prepare>
|
| 35 |
|
|
<!-- This is simple wrapper for the Java code -->
|
| 36 |
|
|
<main-class>eu.dnetlib.iis.core.java.ProcessWrapper</main-class>
|
| 37 |
|
|
<arg>eu.dnetlib.iis.core.java.jsonworkflownodes.Producer</arg>
|
| 38 |
|
|
<arg>-C{document_metadata,
|
| 39 |
|
|
eu.dnetlib.iis.importer.schemas.DocumentMetadata,
|
| 40 |
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|
marek.hors
|
eu/dnetlib/iis/mainworkflows/integration/primary/processing/input/meta/document_metadata.json}</arg>
|
| 41 |
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|
marek.hors
|
<arg>-C{document_to_project,
|
| 42 |
|
|
eu.dnetlib.iis.importer.schemas.DocumentToProject,
|
| 43 |
|
|
eu/dnetlib/iis/mainworkflows/data/empty.json}</arg>
|
| 44 |
20087
|
marek.hors
|
<arg>-C{document_content_classpath,
|
| 45 |
|
|
eu.dnetlib.iis.mainworkflows.schemas.DocumentContentClasspath,
|
| 46 |
26785
|
marek.hors
|
eu/dnetlib/iis/mainworkflows/integration/primary/processing/input/meta/document_content_classpath.json}</arg>
|
| 47 |
20087
|
marek.hors
|
<arg>-C{person,
|
| 48 |
|
|
eu.dnetlib.iis.importer.schemas.Person,
|
| 49 |
26785
|
marek.hors
|
eu/dnetlib/iis/mainworkflows/integration/primary/processing/input/meta/person.json}</arg>
|
| 50 |
20087
|
marek.hors
|
<arg>-C{project,
|
| 51 |
|
|
eu.dnetlib.iis.importer.schemas.Project,
|
| 52 |
26785
|
marek.hors
|
eu/dnetlib/iis/mainworkflows/integration/primary/processing/input/meta/project.json}</arg>
|
| 53 |
33218
|
marek.hors
|
<arg>-C{project_concept,
|
| 54 |
|
|
eu.dnetlib.iis.importer.schemas.Concept,
|
| 55 |
35146
|
marek.hors
|
eu/dnetlib/iis/mainworkflows/integration/primary/processing/input/meta/concept.json}</arg>
|
| 56 |
22142
|
marek.hors
|
<arg>-C{dataset,
|
| 57 |
|
|
eu.dnetlib.iis.importer.schemas.DataSetReference,
|
| 58 |
26785
|
marek.hors
|
eu/dnetlib/iis/mainworkflows/integration/primary/processing/input/meta/dataset.json}</arg>
|
| 59 |
35120
|
marek.hors
|
<arg>-C{extracted_document_metadata,
|
| 60 |
|
|
eu.dnetlib.iis.metadataextraction.schemas.ExtractedDocumentMetadata,
|
| 61 |
|
|
eu/dnetlib/iis/mainworkflows/integration/primary/processing/input/metadataextraction/extracted_document_metadata.json}</arg>
|
| 62 |
29017
|
marek.hors
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<arg>-C{document_text_wos,
|
| 63 |
|
|
eu.dnetlib.iis.metadataextraction.schemas.DocumentText,
|
| 64 |
|
|
eu/dnetlib/iis/mainworkflows/data/empty.json}</arg>
|
| 65 |
25563
|
marek.hors
|
<arg>-C{citation,
|
| 66 |
35153
|
marek.hors
|
eu.dnetlib.iis.ingest.pmc.citations.schemas.Citation,
|
| 67 |
|
|
eu/dnetlib/iis/mainworkflows/integration/primary/processing/input/meta/citation_pmc.json}</arg>
|
| 68 |
35120
|
marek.hors
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<arg>-C{document_text_classpath,
|
| 69 |
|
|
eu.dnetlib.iis.mainworkflows.schemas.DocumentContentClasspath,
|
| 70 |
|
|
eu/dnetlib/iis/mainworkflows/integration/primary/processing/input/metadataextraction/document_text_classpath.json}</arg>
|
| 71 |
20087
|
marek.hors
|
<arg>-Odocument_metadata=${workingDir}/producer/document_metadata</arg>
|
| 72 |
27509
|
marek.hors
|
<arg>-Odocument_to_project=${workingDir}/producer/document_to_project</arg>
|
| 73 |
20087
|
marek.hors
|
<arg>-Odocument_content_classpath=${workingDir}/producer/document_content_classpath</arg>
|
| 74 |
|
|
<arg>-Operson=${workingDir}/producer/person</arg>
|
| 75 |
|
|
<arg>-Oproject=${workingDir}/producer/project</arg>
|
| 76 |
33218
|
marek.hors
|
<arg>-Oproject_concept=${workingDir}/producer/project_concept</arg>
|
| 77 |
22142
|
marek.hors
|
<arg>-Odataset=${workingDir}/producer/dataset</arg>
|
| 78 |
35120
|
marek.hors
|
<arg>-Oextracted_document_metadata=${workingDir}/producer/extracted_document_metadata</arg>
|
| 79 |
29300
|
mateusz.ko
|
<arg>-Odocument_text_wos=${workingDir}/producer/document_text_wos</arg>
|
| 80 |
35120
|
marek.hors
|
<arg>-Ocitation=${workingDir}/producer/citation</arg>
|
| 81 |
|
|
<arg>-Odocument_text_classpath=${workingDir}/producer/document_text_classpath</arg>
|
| 82 |
20087
|
marek.hors
|
</java>
|
| 83 |
35120
|
marek.hors
|
<ok to="document_text_producer"/>
|
| 84 |
20087
|
marek.hors
|
<error to="fail"/>
|
| 85 |
|
|
</action>
|
| 86 |
35120
|
marek.hors
|
|
| 87 |
|
|
<action name="document_text_producer">
|
| 88 |
20087
|
marek.hors
|
<map-reduce>
|
| 89 |
35120
|
marek.hors
|
<prepare>
|
| 90 |
|
|
<delete path="${nameNode}${workingDir}/text-producer" />
|
| 91 |
|
|
<mkdir path="${nameNode}${workingDir}/text-producer" />
|
| 92 |
|
|
</prepare>
|
| 93 |
20087
|
marek.hors
|
<configuration>
|
| 94 |
|
|
<property>
|
| 95 |
|
|
<name>mapreduce.inputformat.class</name>
|
| 96 |
36286
|
marek.hors
|
<value>org.apache.avro.mapreduce.AvroKeyInputFormat</value>
|
| 97 |
20087
|
marek.hors
|
</property>
|
| 98 |
|
|
<property>
|
| 99 |
|
|
<name>mapreduce.outputformat.class</name>
|
| 100 |
36286
|
marek.hors
|
<value>org.apache.avro.mapreduce.AvroKeyOutputFormat</value>
|
| 101 |
20087
|
marek.hors
|
</property>
|
| 102 |
|
|
<property>
|
| 103 |
|
|
<name>mapred.mapoutput.key.class</name>
|
| 104 |
|
|
<value>org.apache.avro.mapred.AvroKey</value>
|
| 105 |
|
|
</property>
|
| 106 |
|
|
<property>
|
| 107 |
|
|
<name>mapred.mapoutput.value.class</name>
|
| 108 |
|
|
<value>org.apache.hadoop.io.NullWritable</value>
|
| 109 |
|
|
</property>
|
| 110 |
|
|
<property>
|
| 111 |
|
|
<name>mapred.reduce.tasks</name>
|
| 112 |
|
|
<value>0</value>
|
| 113 |
|
|
</property>
|
| 114 |
|
|
<property>
|
| 115 |
|
|
<name>mapred.output.key.class</name>
|
| 116 |
|
|
<value>org.apache.avro.mapred.AvroKey</value>
|
| 117 |
|
|
</property>
|
| 118 |
|
|
<property>
|
| 119 |
|
|
<name>mapred.output.value.class</name>
|
| 120 |
|
|
<value>org.apache.avro.mapred.AvroValue</value>
|
| 121 |
|
|
</property>
|
| 122 |
|
|
<property>
|
| 123 |
|
|
<name>mapred.output.key.comparator.class</name>
|
| 124 |
36286
|
marek.hors
|
<value>org.apache.avro.hadoop.io.AvroKeyComparator</value>
|
| 125 |
20087
|
marek.hors
|
</property>
|
| 126 |
|
|
<property>
|
| 127 |
|
|
<name>io.serializations</name>
|
| 128 |
|
|
<value>org.apache.hadoop.io.serializer.WritableSerialization,org.apache.hadoop.io.serializer.avro.AvroSpecificSerialization,org.apache.hadoop.io.serializer.avro.AvroReflectSerialization,org.apache.avro.hadoop.io.AvroSerialization
|
| 129 |
|
|
</value>
|
| 130 |
|
|
</property>
|
| 131 |
|
|
<property>
|
| 132 |
|
|
<name>mapred.output.value.groupfn.class</name>
|
| 133 |
36286
|
marek.hors
|
<value>org.apache.avro.hadoop.io.AvroKeyComparator</value>
|
| 134 |
20087
|
marek.hors
|
</property>
|
| 135 |
|
|
<property>
|
| 136 |
|
|
<name>rpc.engine.org.apache.hadoop.hdfs.protocolPB.ClientNamenodeProtocolPB
|
| 137 |
|
|
</name>
|
| 138 |
|
|
<value>org.apache.hadoop.ipc.ProtobufRpcEngine</value>
|
| 139 |
|
|
</property>
|
| 140 |
|
|
<property>
|
| 141 |
|
|
<name>mapred.mapper.new-api</name>
|
| 142 |
|
|
<value>true</value>
|
| 143 |
|
|
</property>
|
| 144 |
|
|
<property>
|
| 145 |
|
|
<name>mapred.reducer.new-api</name>
|
| 146 |
|
|
<value>true</value>
|
| 147 |
|
|
</property>
|
| 148 |
|
|
<property>
|
| 149 |
|
|
<name>mapreduce.map.class</name>
|
| 150 |
35120
|
marek.hors
|
<value>eu.dnetlib.iis.mainworkflows.converters.DocumentClasspathToTextConverter</value>
|
| 151 |
20087
|
marek.hors
|
</property>
|
| 152 |
36286
|
marek.hors
|
|
| 153 |
20087
|
marek.hors
|
<property>
|
| 154 |
36286
|
marek.hors
|
<name>avro.schema.input.key</name>
|
| 155 |
|
|
<value>${wf:actionData('generate-schema')['eu.dnetlib.iis.mainworkflows.schemas.DocumentContentClasspath']}</value>
|
| 156 |
20087
|
marek.hors
|
</property>
|
| 157 |
|
|
<property>
|
| 158 |
36286
|
marek.hors
|
<name>avro.serialization.key.reader.schema</name>
|
| 159 |
|
|
<value>${wf:actionData('generate-schema')['eu.dnetlib.iis.metadataextraction.schemas.DocumentText']}</value>
|
| 160 |
|
|
</property>
|
| 161 |
|
|
<property>
|
| 162 |
|
|
<name>avro.serialization.key.writer.schema</name>
|
| 163 |
|
|
<value>${wf:actionData('generate-schema')['eu.dnetlib.iis.metadataextraction.schemas.DocumentText']}</value>
|
| 164 |
|
|
</property>
|
| 165 |
20087
|
marek.hors
|
<property>
|
| 166 |
36286
|
marek.hors
|
<name>avro.serialization.value.reader.schema</name>
|
| 167 |
|
|
<value>${wf:actionData('generate-schema')['org.apache.avro.Schema.Type.NULL']}</value>
|
| 168 |
|
|
</property>
|
| 169 |
|
|
<property>
|
| 170 |
|
|
<name>avro.serialization.value.writer.schema</name>
|
| 171 |
|
|
<value>${wf:actionData('generate-schema')['org.apache.avro.Schema.Type.NULL']}</value>
|
| 172 |
|
|
</property>
|
| 173 |
20087
|
marek.hors
|
<property>
|
| 174 |
36286
|
marek.hors
|
<name>avro.schema.output.key</name>
|
| 175 |
|
|
<value>${wf:actionData('generate-schema')['eu.dnetlib.iis.metadataextraction.schemas.DocumentText']}</value>
|
| 176 |
|
|
</property>
|
| 177 |
|
|
|
| 178 |
20087
|
marek.hors
|
<property>
|
| 179 |
|
|
<name>mapred.input.dir</name>
|
| 180 |
35120
|
marek.hors
|
<value>${workingDir}/producer/document_text_classpath</value>
|
| 181 |
20087
|
marek.hors
|
</property>
|
| 182 |
|
|
<property>
|
| 183 |
|
|
<name>mapred.output.dir</name>
|
| 184 |
35120
|
marek.hors
|
<value>${workingDir}/text-producer/document_text</value>
|
| 185 |
20087
|
marek.hors
|
</property>
|
| 186 |
|
|
</configuration>
|
| 187 |
|
|
</map-reduce>
|
| 188 |
35120
|
marek.hors
|
<ok to="mainworkflows_primary_processing" />
|
| 189 |
20087
|
marek.hors
|
<error to="fail" />
|
| 190 |
|
|
</action>
|
| 191 |
|
|
|
| 192 |
26780
|
marek.hors
|
<action name="mainworkflows_primary_processing">
|
| 193 |
20087
|
marek.hors
|
<sub-workflow>
|
| 194 |
26780
|
marek.hors
|
<app-path>${wf:appPath()}/mainworkflows_primary_processing</app-path>
|
| 195 |
20087
|
marek.hors
|
<propagate-configuration/>
|
| 196 |
|
|
<configuration>
|
| 197 |
26285
|
marek.hors
|
<property>
|
| 198 |
|
|
<name>active_referenceextraction_project</name>
|
| 199 |
|
|
<value>true</value>
|
| 200 |
|
|
</property>
|
| 201 |
|
|
<property>
|
| 202 |
|
|
<name>active_referenceextraction_dataset</name>
|
| 203 |
|
|
<value>true</value>
|
| 204 |
|
|
</property>
|
| 205 |
20087
|
marek.hors
|
<property>
|
| 206 |
26285
|
marek.hors
|
<name>active_referenceextraction_researchinitiative</name>
|
| 207 |
31647
|
marek.hors
|
<value>true</value>
|
| 208 |
26285
|
marek.hors
|
</property>
|
| 209 |
37470
|
marek.hors
|
<property>
|
| 210 |
|
|
<name>active_referenceextraction_pdb</name>
|
| 211 |
|
|
<value>false</value>
|
| 212 |
|
|
</property>
|
| 213 |
26285
|
marek.hors
|
<property>
|
| 214 |
23896
|
marek.hors
|
<name>active_documentsclassification</name>
|
| 215 |
31647
|
marek.hors
|
<value>true</value>
|
| 216 |
23896
|
marek.hors
|
</property>
|
| 217 |
|
|
<property>
|
| 218 |
24466
|
marek.hors
|
<name>active_citationmatching</name>
|
| 219 |
35144
|
marek.hors
|
<value>true</value>
|
| 220 |
24466
|
marek.hors
|
</property>
|
| 221 |
35146
|
marek.hors
|
<!-- disabling not tested KDMs -->
|
| 222 |
24466
|
marek.hors
|
<property>
|
| 223 |
35146
|
marek.hors
|
<name>active_documentssimilarity</name>
|
| 224 |
|
|
<value>false</value>
|
| 225 |
|
|
</property>
|
| 226 |
|
|
<property>
|
| 227 |
24466
|
marek.hors
|
<name>active_statistics</name>
|
| 228 |
|
|
<value>false</value>
|
| 229 |
|
|
</property>
|
| 230 |
|
|
<property>
|
| 231 |
20087
|
marek.hors
|
<name>input_document_metadata</name>
|
| 232 |
|
|
<value>${workingDir}/producer/document_metadata</value>
|
| 233 |
|
|
</property>
|
| 234 |
|
|
<property>
|
| 235 |
27509
|
marek.hors
|
<name>input_document_to_project</name>
|
| 236 |
|
|
<value>${workingDir}/producer/document_to_project</value>
|
| 237 |
|
|
</property>
|
| 238 |
|
|
<property>
|
| 239 |
23891
|
marek.hors
|
<name>input_document_text</name>
|
| 240 |
35120
|
marek.hors
|
<value>${workingDir}/text-producer/document_text</value>
|
| 241 |
23891
|
marek.hors
|
</property>
|
| 242 |
|
|
<property>
|
| 243 |
29017
|
marek.hors
|
<name>input_document_text_wos</name>
|
| 244 |
|
|
<value>${workingDir}/producer/document_text_wos</value>
|
| 245 |
|
|
</property>
|
| 246 |
|
|
<property>
|
| 247 |
20087
|
marek.hors
|
<name>input_project</name>
|
| 248 |
|
|
<value>${workingDir}/producer/project</value>
|
| 249 |
|
|
</property>
|
| 250 |
|
|
<property>
|
| 251 |
33218
|
marek.hors
|
<name>input_project_concept</name>
|
| 252 |
|
|
<value>${workingDir}/producer/project_concept</value>
|
| 253 |
|
|
</property>
|
| 254 |
|
|
<property>
|
| 255 |
20087
|
marek.hors
|
<name>input_person</name>
|
| 256 |
|
|
<value>${workingDir}/producer/person</value>
|
| 257 |
|
|
</property>
|
| 258 |
|
|
<property>
|
| 259 |
22142
|
marek.hors
|
<name>input_dataset</name>
|
| 260 |
|
|
<value>${workingDir}/producer/dataset</value>
|
| 261 |
|
|
</property>
|
| 262 |
|
|
<property>
|
| 263 |
25563
|
marek.hors
|
<name>input_extracted_document_metadata</name>
|
| 264 |
35120
|
marek.hors
|
<value>${workingDir}/producer/extracted_document_metadata</value>
|
| 265 |
24466
|
marek.hors
|
</property>
|
| 266 |
|
|
<property>
|
| 267 |
29300
|
mateusz.ko
|
<name>input_citation_pmc</name>
|
| 268 |
25563
|
marek.hors
|
<value>${workingDir}/producer/citation</value>
|
| 269 |
24466
|
marek.hors
|
</property>
|
| 270 |
|
|
<property>
|
| 271 |
26281
|
marek.hors
|
<name>output_document_to_project</name>
|
| 272 |
|
|
<value>${workingDir}/exported/document_to_project</value>
|
| 273 |
20087
|
marek.hors
|
</property>
|
| 274 |
|
|
<property>
|
| 275 |
33218
|
marek.hors
|
<name>output_document_to_project_concepts</name>
|
| 276 |
|
|
<value>${workingDir}/exported/document_to_project_concepts</value>
|
| 277 |
|
|
</property>
|
| 278 |
|
|
<property>
|
| 279 |
26281
|
marek.hors
|
<name>output_document_to_dataset</name>
|
| 280 |
|
|
<value>${workingDir}/exported/document_to_dataset</value>
|
| 281 |
20087
|
marek.hors
|
</property>
|
| 282 |
|
|
<property>
|
| 283 |
26281
|
marek.hors
|
<name>output_document_to_research_initiatives</name>
|
| 284 |
|
|
<value>${workingDir}/exported/document_to_research_initiatives</value>
|
| 285 |
20087
|
marek.hors
|
</property>
|
| 286 |
|
|
<property>
|
| 287 |
37470
|
marek.hors
|
<name>output_document_to_pdb</name>
|
| 288 |
|
|
<value>${workingDir}/exported/document_to_pdb</value>
|
| 289 |
|
|
</property>
|
| 290 |
|
|
<property>
|
| 291 |
26281
|
marek.hors
|
<name>output_document_to_document_classes</name>
|
| 292 |
|
|
<value>${workingDir}/exported/document_to_document_classes</value>
|
| 293 |
20087
|
marek.hors
|
</property>
|
| 294 |
25415
|
marek.hors
|
<property>
|
| 295 |
26281
|
marek.hors
|
<name>output_citation</name>
|
| 296 |
|
|
<value>${workingDir}/exported/citation</value>
|
| 297 |
|
|
</property>
|
| 298 |
|
|
<property>
|
| 299 |
|
|
<name>output_document_similarity</name>
|
| 300 |
|
|
<value>${workingDir}/exported/document_similarity</value>
|
| 301 |
|
|
</property>
|
| 302 |
|
|
<property>
|
| 303 |
|
|
<name>output_document_statistics</name>
|
| 304 |
|
|
<value>${workingDir}/exported/document_statistics</value>
|
| 305 |
|
|
</property>
|
| 306 |
|
|
<property>
|
| 307 |
|
|
<name>output_author_statistics</name>
|
| 308 |
|
|
<value>${workingDir}/exported/author_statistics</value>
|
| 309 |
|
|
</property>
|
| 310 |
|
|
<property>
|
| 311 |
25415
|
marek.hors
|
<name>output_project_statistics</name>
|
| 312 |
|
|
<value>${workingDir}/exported/project_statistics</value>
|
| 313 |
|
|
</property>
|
| 314 |
20087
|
marek.hors
|
</configuration>
|
| 315 |
|
|
</sub-workflow>
|
| 316 |
20261
|
marek.hors
|
<ok to="consumer"/>
|
| 317 |
20087
|
marek.hors
|
<error to="fail" />
|
| 318 |
|
|
</action>
|
| 319 |
|
|
|
| 320 |
20128
|
marek.hors
|
<action name="consumer">
|
| 321 |
|
|
<java>
|
| 322 |
|
|
<main-class>eu.dnetlib.iis.core.java.ProcessWrapper</main-class>
|
| 323 |
|
|
<arg>eu.dnetlib.iis.core.java.jsonworkflownodes.TestingConsumer</arg>
|
| 324 |
26281
|
marek.hors
|
<!-- TODO prepare proper json generated datastores -->
|
| 325 |
31647
|
marek.hors
|
<arg>-C{document_to_document_classes,
|
| 326 |
|
|
eu.dnetlib.iis.documentsclassification.schemas.DocumentToDocumentClasses,
|
| 327 |
|
|
eu/dnetlib/iis/mainworkflows/integration/primary/processing/output/document_classes.json}</arg>
|
| 328 |
|
|
<arg>-Idocument_to_document_classes=${workingDir}/exported/document_to_document_classes</arg>
|
| 329 |
26281
|
marek.hors
|
<arg>-C{document_to_dataset,
|
| 330 |
|
|
eu.dnetlib.iis.referenceextraction.dataset.schemas.DocumentToDataSet,
|
| 331 |
35146
|
marek.hors
|
eu/dnetlib/iis/mainworkflows/integration/primary/processing/output/document_to_dataset.json}</arg>
|
| 332 |
26287
|
marek.hors
|
<arg>-Idocument_to_dataset=${workingDir}/exported/document_to_dataset</arg>
|
| 333 |
35146
|
marek.hors
|
<arg>-C{document_to_project,
|
| 334 |
|
|
eu.dnetlib.iis.referenceextraction.project.schemas.DocumentToProject,
|
| 335 |
|
|
eu/dnetlib/iis/mainworkflows/integration/primary/processing/output/document_to_project.json}</arg>
|
| 336 |
|
|
<arg>-Idocument_to_project=${workingDir}/exported/document_to_project</arg>
|
| 337 |
|
|
<arg>-C{document_to_project_concepts,
|
| 338 |
|
|
eu.dnetlib.iis.export.schemas.DocumentToConceptIds,
|
| 339 |
|
|
eu/dnetlib/iis/mainworkflows/integration/primary/processing/output/document_to_project_concepts.json}</arg>
|
| 340 |
|
|
<arg>-Idocument_to_project_concepts=${workingDir}/exported/document_to_project_concepts</arg>
|
| 341 |
26281
|
marek.hors
|
<arg>-C{document_to_research_initiatives,
|
| 342 |
33249
|
marek.hors
|
eu.dnetlib.iis.export.schemas.DocumentToConceptIds,
|
| 343 |
35146
|
marek.hors
|
eu/dnetlib/iis/mainworkflows/integration/primary/processing/output/document_to_research_initiatives.json}</arg>
|
| 344 |
26281
|
marek.hors
|
<arg>-Idocument_to_research_initiatives=${workingDir}/exported/document_to_research_initiatives</arg>
|
| 345 |
|
|
<arg>-C{citation,
|
| 346 |
31846
|
marek.hors
|
eu.dnetlib.iis.export.schemas.Citations,
|
| 347 |
35144
|
marek.hors
|
eu/dnetlib/iis/mainworkflows/integration/primary/processing/output/citations.json}</arg>
|
| 348 |
26281
|
marek.hors
|
<arg>-Icitation=${workingDir}/exported/citation</arg>
|
| 349 |
|
|
<arg>-C{document_similarity,
|
| 350 |
|
|
eu.dnetlib.iis.documentssimilarity.schemas.DocumentSimilarity,
|
| 351 |
|
|
eu/dnetlib/iis/mainworkflows/data/empty.json}</arg>
|
| 352 |
|
|
<arg>-Idocument_similarity=${workingDir}/exported/document_similarity</arg>
|
| 353 |
|
|
<arg>-C{document_statistics,
|
| 354 |
|
|
eu.dnetlib.iis.statistics.schemas.DocumentToDocumentStatistics,
|
| 355 |
|
|
eu/dnetlib/iis/mainworkflows/data/empty.json}</arg>
|
| 356 |
|
|
<arg>-Idocument_statistics=${workingDir}/exported/document_statistics</arg>
|
| 357 |
|
|
<arg>-C{author_statistics,
|
| 358 |
|
|
eu.dnetlib.iis.statistics.schemas.AuthorToAuthorStatistics,
|
| 359 |
|
|
eu/dnetlib/iis/mainworkflows/data/empty.json}</arg>
|
| 360 |
|
|
<arg>-Iauthor_statistics=${workingDir}/exported/author_statistics</arg>
|
| 361 |
|
|
<arg>-C{project_statistics,
|
| 362 |
|
|
eu.dnetlib.iis.statistics.schemas.ProjectToProjectStatistics,
|
| 363 |
|
|
eu/dnetlib/iis/mainworkflows/data/empty.json}</arg>
|
| 364 |
|
|
<arg>-Iproject_statistics=${workingDir}/exported/project_statistics</arg>
|
| 365 |
20128
|
marek.hors
|
</java>
|
| 366 |
20087
|
marek.hors
|
<ok to="end" />
|
| 367 |
|
|
<error to="fail" />
|
| 368 |
|
|
</action>
|
| 369 |
|
|
|
| 370 |
|
|
<kill name="fail">
|
| 371 |
|
|
<message>Unfortunately, the process failed -- error message:
|
| 372 |
|
|
[${wf:errorMessage(wf:lastErrorNode())}]</message>
|
| 373 |
|
|
</kill>
|
| 374 |
|
|
<end name="end" />
|
| 375 |
|
|
</workflow-app>
|