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ecological-engine-external-algorithms
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git-svn-id: https://svn.d4science.research-infrastructures.eu/gcube/trunk/data-analysis/EcologicalEngineExternalAlgorithms@78936 82a268e6-3cf1-43bd-a215-b396298e98cf

This commit is contained in:
Gianpaolo Coro 2013-07-10 16:32:15 +00:00
parent edaf64001d
commit 91a15af3f8
12 changed files with 2715 additions and 0 deletions
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30
cfg/ALog.properties Normal file
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#### Use two appenders, one to log to console, another to log to a file
log4j.rootCategory= R
#### First appender writes to console
log4j.appender.stdout=org.apache.log4j.ConsoleAppender
log4j.appender.stdout.layout=org.apache.log4j.PatternLayout
log4j.appender.stdout.layout.ConversionPattern=%d{dd/MM/yyyy HH:mm:ss} %p %t %c - %m%n
#log4j.appender.stdout.layout.ConversionPattern=%m%n
#log4j.appender.stdout.File=Analysis.log
#### Second appender writes to a file
log4j.logger.AnalysisLogger=trace, stdout,R
log4j.appender.R=org.apache.log4j.RollingFileAppender
log4j.appender.R.File=Analysis.log
log4j.appender.R.MaxFileSize=50000KB
log4j.appender.R.MaxBackupIndex=2
log4j.appender.R.layout=org.apache.log4j.PatternLayout
log4j.appender.R.layout.ConversionPattern=%d{dd/MM/yyyy HH:mm:ss} %p %t %c - %m%n
#log4j.appender.R.layout.ConversionPattern=%m%n
#### Third appender writes to a file
log4j.logger.org.hibernate=H
#log4j.appender.H=org.apache.log4j.RollingFileAppender
log4j.appender.H=org.apache.log4j.AsyncAppender
#log4j.appender.H.File=HibernateLog.log
#log4j.appender.H.MaxFileSize=1024KB
#log4j.appender.H.MaxBackupIndex=2
log4j.appender.H.layout=org.apache.log4j.PatternLayout
log4j.appender.H.layout.ConversionPattern=%d{dd/MM/yyyy HH:mm:ss} %p %t %c - %m%n

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cfg/DestinationDBHibernate.cfg.xml Normal file
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<?xml version='1.0' encoding='UTF-8'?>
<hibernate-configuration>
<session-factory>
<property name="connection.driver_class">org.postgresql.Driver</property>
<property name="connection.provider_class">org.hibernate.connection.C3P0ConnectionProvider</property>
<property name="connection.url">jdbc:postgresql://localhost/testdb</property>
<property name="connection.username">gcube</property>
<property name="connection.password">d4science2</property>
<!-- <property name="dialect">org.hibernatespatial.postgis.PostgisDialect</property>-->
<property name="dialect">org.hibernate.dialect.PostgreSQLDialect</property>
<property name="transaction.factory_class">org.hibernate.transaction.JDBCTransactionFactory</property>
<property name="c3p0.timeout">0</property>
<property name="c3p0.max_size">1</property>
<property name="c3p0.max_statements">0</property>
<property name="c3p0.min_size">1</property>
<property name="current_session_context_class">thread</property>
</session-factory>
</hibernate-configuration>

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cfg/algorithms.properties Normal file
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AQUAMAPS_SUITABLE=org.gcube.dataanalysis.ecoengine.spatialdistributions.AquamapsSuitable
AQUAMAPS_NATIVE=org.gcube.dataanalysis.ecoengine.spatialdistributions.AquamapsNative
AQUAMAPS_NATIVE_2050=org.gcube.dataanalysis.ecoengine.spatialdistributions.AquamapsNative2050
AQUAMAPS_SUITABLE_2050=org.gcube.dataanalysis.ecoengine.spatialdistributions.AquamapsSuitable2050
AQUAMAPS_NATIVE_NEURALNETWORK=org.gcube.dataanalysis.ecoengine.spatialdistributions.AquamapsNN
AQUAMAPS_SUITABLE_NEURALNETWORK=org.gcube.dataanalysis.ecoengine.spatialdistributions.AquamapsNNSuitable
FEED_FORWARD_A_N_N_DISTRIBUTION=org.gcube.dataanalysis.ecoengine.spatialdistributions.FeedForwardNeuralNetworkDistribution

3
cfg/clusterers.properties Normal file
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DBSCAN=org.gcube.dataanalysis.ecoengine.clustering.DBScan
KMEANS=org.gcube.dataanalysis.ecoengine.clustering.KMeans
XMEANS=org.gcube.dataanalysis.ecoengine.clustering.XMeansWrapper

3
cfg/evaluators.properties Normal file
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DISCREPANCY_ANALYSIS=org.gcube.dataanalysis.ecoengine.evaluation.DiscrepancyAnalysis
QUALITY_ANALYSIS=org.gcube.dataanalysis.ecoengine.evaluation.DistributionQualityAnalysis
HRS=org.gcube.dataanalysis.ecoengine.evaluation.HabitatRepresentativeness

2
cfg/generators.properties Normal file
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LOCAL_WITH_DATABASE=org.gcube.dataanalysis.ecoengine.processing.LocalSplitGenerator
SIMPLE_LOCAL=org.gcube.dataanalysis.ecoengine.processing.LocalSimpleSplitGenerator

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cfg/modelers.properties Normal file
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HSPEN_MODELER=org.gcube.dataanalysis.ecoengine.modeling.SimpleModeler

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cfg/models.properties Normal file
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HSPEN=org.gcube.dataanalysis.ecoengine.models.ModelHSPEN
AQUAMAPSNN=org.gcube.dataanalysis.ecoengine.models.ModelAquamapsNN
FEED_FORWARD_ANN=org.gcube.dataanalysis.ecoengine.models.FeedForwardNN
FEED_FORWARD_ANN_FILE=org.gcube.dataanalysis.ecoengine.models.testing.FeedForwardNNFile

1
cfg/nodealgorithms.properties Normal file
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AQUAMAPS_SUITABLE=org.gcube.dataanalysis.peeng.models.AquamapsSuitableNode

2620
cfg/operators.xml Normal file
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14
cfg/transducerers.properties Normal file
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ABSENCE_CELLS_FROM_AQUAMAPS=org.gcube.dataanalysis.ecoengine.transducers.simplequeryexecutors.MarineAbsencePointsFromAquamapsDistribution
BIOCLIMATE_HSPEC=org.gcube.dataanalysis.ecoengine.transducers.BioClimateHSPECTransducer
BIOCLIMATE_HCAF=org.gcube.dataanalysis.ecoengine.transducers.BioClimateHCAFTransducer
BIOCLIMATE_HSPEN=org.gcube.dataanalysis.ecoengine.transducers.BioClimateHSPENTransducer
HCAF_INTERPOLATION=org.gcube.dataanalysis.ecoengine.transducers.InterpolationTransducer
HCAF_FILTER=org.gcube.dataanalysis.ecoengine.transducers.simplequeryexecutors.HcafFilter
HSPEN_FILTER=org.gcube.dataanalysis.ecoengine.transducers.simplequeryexecutors.HspenFilter
OCCURRENCES_MERGER=org.gcube.dataanalysis.ecoengine.transducers.OccurrencePointsMerger
OCCURRENCES_INTERSECTOR=org.gcube.dataanalysis.ecoengine.transducers.OccurrencePointsIntersector
OCCURRENCES_MARINE_TERRESTRIAL=org.gcube.dataanalysis.ecoengine.transducers.OccurrencePointsInSeaOnEarth
OCCURRENCES_DUPLICATES_DELETER=org.gcube.dataanalysis.ecoengine.transducers.OccurrencePointsDuplicatesDeleter
OCCURRENCES_SUBTRACTION=org.gcube.dataanalysis.ecoengine.transducers.OccurrencePointsSubtraction
PRESENCE_CELLS_GENERATION=org.gcube.dataanalysis.ecoengine.transducers.simplequeryexecutors.MarinePresencePoints
FIN_TAXA_MATCH=org.gcube.dataanalysis.fin.taxamatch.TaxaMatchTransducer

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cfg/userperspective.properties Normal file
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ANOMALIES_DETECTION=DBSCAN,KMEANS,XMEANS
CLASSIFICATION=FEED_FORWARD_A_N_N_DISTRIBUTION
CLIMATE=BIOCLIMATE_HSPEC,BIOCLIMATE_HCAF,BIOCLIMATE_HSPEN,HCAF_INTERPOLATION
CORRELATION_ANALYSIS=HRS
DATA_CLUSTERING=DBSCAN,KMEANS,XMEANS
FILTERING=HCAF_FILTER,HSPEN_FILTER
FUNCTION_SIMULATION=FEED_FORWARD_A_N_N_DISTRIBUTION
OCCURRENCES=ABSENCE_CELLS_FROM_AQUAMAPS,PRESENCE_CELLS_GENERATION,OCCURRENCES_MERGER,OCCURRENCES_INTERSECTOR,OCCURRENCES_MARINE_TERRESTRIAL,OCCURRENCES_DUPLICATES_DELETER,OCCURRENCES_SUBTRACTION
PERFORMANCES_EVALUATION=QUALITY_ANALYSIS,DISCREPANCY_ANALYSIS
SPECIES_SIMULATION=AQUAMAPS_SUITABLE,AQUAMAPS_NATIVE,AQUAMAPS_NATIVE_2050,AQUAMAPS_SUITABLE_2050,AQUAMAPS_NATIVE_NEURALNETWORK,AQUAMAPS_SUITABLE_NEURALNETWORK
TRAINING=HSPEN,AQUAMAPSNN,FEED_FORWARD_ANN
TIME_SERIES=HCAF_INTERPOLATION