[
https://issues.apache.org/jira/browse/SIS-491?page=com.atlassian.jira.plugin.system.issuetabpanels:all-tabpanel
]
Martin Desruisseaux resolved SIS-491.
-------------------------------------
Fix Version/s: 1.1
Resolution: Cannot Reproduce
I'm closing on the assumption that the problem was caused by Spark using an
older version of Apache Derby than Apache SIS. It seems that later Spark
versions use Derby 10.14.2, which is the same version than Apache SIS (the last
Derby version running on Java 8). So I presume that the problem can be resolved
by upgrading the Spark version.
> sis-embedded-data database fails to start on Apache Spark
> ---------------------------------------------------------
>
> Key: SIS-491
> URL: https://issues.apache.org/jira/browse/SIS-491
> Project: Spatial Information Systems
> Issue Type: Bug
> Components: Metadata
> Affects Versions: 0.8, 1.0
> Environment: Spark version 2.4.4
> Hadoop version 2.7.6
> Scala version 2.11.12
> Java version 1.8.0_242
> OS: Linux <computer> 4.15.0-88-generic #88-Ubuntu SMP Tue Feb 11 20:11:34 UTC
> 2020 x86_64 x86_64 x86_64 GNU/Linux
> Reporter: Derrick Oswald
> Assignee: Martin Desruisseaux
> Priority: Minor
> Fix For: 1.1
>
>
> Operation _CRS_.forCode fails when used within the Apache Spark environment.
> Steps to reproduce (see full log below):
> 1) Start spark-shell with the --packages argument specifying the
> sis-embedded-data artifact
> 2) Execute CRS.forCode ("EPSG:21781") {color:#808080}// Swiss coordinate
> system [https://epsg.io/21781]{color}
> {color:#172b4d}Result:{color}
> {color:#172b4d} NoSuchAuthorityCodeException (with a prior warning
> message: Failed to start database
> 'classpath:SIS_DATA/Databases/SpatialMetadata'){color}
> {color:#172b4d}Expected result:{color}
> {color:#172b4d} Returns a valid CoordinateReferenceSystem for
> "EPSG:21781".{color}
> {color:#172b4d}Workaround:{color}
> {color:#172b4d} Use _CRS.fromWKT_ instead.{color}
> {color:#172b4d}Note:{color}
> {{{color:#172b4d}It works fine in a stand-alone Scala program with
> build.sbt:{color}}}
> {{{color:#660e7a}name {color}:= {color:#008000}"ApacheSISTest"{color}}}
> {{{color:#660e7a}version {color}:=
> {color:#008000}"0.1"{color}{color:#660e7a}scalaVersion {color}:=
> {color:#008000}"2.11.12"{color}}}
> {{{color:#660e7a}libraryDependencies {color}+=
> {color:#008000}"org.apache.sis.core" {color}%
> {color:#008000}"sis-referencing" {color}% {color:#008000}"1.0"{color}+}}
> {{+{color:#660e7a}libraryDependencies{color}+ =
> {color:#008000}"org.apache.sis.non-free" {color}%
> {color:#008000}"sis-embedded-data" {color}% {color:#008000}"1.0"{color}}}
> and code
> {color:#000080}import {color}org.apache.sis.geometry.DirectPosition2D
> {color:#000080}import {color}org.apache.sis.referencing.CRS
> {color:#000080}object {color}Test {color:#000080}extends {color}App {
> {color:#000080}val {color}{color:#660e7a}position {color}=
> {color:#000080}new {color}DirectPosition2D
> ({color:#0000ff}678544.6095273666{color},
> {color:#0000ff}248462.881516265{color})
> println ({color:#008000}"Source: " {color}+
> {color:#660e7a}position{color})
> {color:#000080}val {color}{color:#660e7a}sourceCRS {color}= CRS.forCode
> ({color:#008000}"EPSG:21781"{color}) {color:#808080}// Swiss coordinate
> system [https://epsg.io/21781]{color}
> {color:#000080}val {color}{color:#660e7a}targetCRS {color}= CRS.forCode
> ({color:#008000}"EPSG:4326"{color}) {color:#808080}// WGS 84
> [https://epsg.io/4326]{color}
> {color:#000080}val {color}{color:#660e7a}operation {color}=
> CRS.findOperation ({color:#660e7a}sourceCRS{color},
> {color:#660e7a}targetCRS{color}, {color:#000080}null{color})
> {color:#000080}val {color}{color:#660e7a}transform {color}=
> {color:#660e7a}operation{color}.getMathTransform
> {color:#000080}val {color}{color:#660e7a}latlong {color}=
> {color:#660e7a}transform{color}.transform ({color:#660e7a}position{color},
> {color:#000080}null{color}) {color:#808080}// °N, °E{color}
> println ({color:#008000}"Target: " {color}+ {color:#660e7a}latlong{color})
> }
>
> {color:#172b4d}Full Spark log:{color}
> $ *spark-shell --master local[*] --verbose --packages
> org.apache.sis.core:sis-referencing:1.0,org.apache.sis.non-free:sis-embedded-data:1.0*
> Using properties file: null
> 20/03/08 15:41:42 WARN Utils: Your hostname, <computer> resolves to a
> loopback address: 127.0.1.1; using 192.168.10.221 instead (on interface
> wlp4s0)
> 20/03/08 15:41:42 WARN Utils: Set SPARK_LOCAL_IP if you need to bind to
> another address
> Parsed arguments:
> master local[*]
> deployMode null
> executorMemory null
> executorCores null
> totalExecutorCores null
> propertiesFile null
> driverMemory null
> driverCores null
> driverExtraClassPath null
> driverExtraLibraryPath null
> driverExtraJavaOptions null
> supervise false
> queue null
> numExecutors null
> files null
> pyFiles null
> archives null
> mainClass org.apache.spark.repl.Main
> primaryResource spark-shell
> name Spark shell
> childArgs []
> jars null
> packages
> org.apache.sis.core:sis-referencing:1.0,org.apache.sis.non-free:sis-embedded-data:1.0
> packagesExclusions null
> repositories null
> verbose true
> Spark properties used, including those specified through
> --conf and those from the properties file null:
> Ivy Default Cache set to: /home/<user>/.ivy2/cache
> The jars for the packages stored in: /home/<user>/.ivy2/jars
> :: loading settings :: url =
> jar:[file:/home/|file:///home/]<user>/spark/spark-2.4.4-bin-hadoop2.7/jars/ivy-2.4.0.jar!/org/apache/ivy/core/settings/ivysettings.xml
> org.apache.sis.core#sis-referencing added as a dependency
> org.apache.sis.non-free#sis-embedded-data added as a dependency
> :: resolving dependencies ::
> org.apache.spark#spark-submit-parent-83046344-c80a-4a8a-9d41-e6145875a27a;1.0
> confs: [default]
> found org.apache.sis.core#sis-referencing;1.0 in central
> found org.apache.sis.core#sis-utility;1.0 in central
> found javax.measure#unit-api;1.0 in central
> found org.opengis#geoapi;3.0.1 in central
> found org.apache.sis.core#sis-metadata;1.0 in central
> found org.apache.sis.non-free#sis-embedded-data;1.0 in central
> found org.apache.derby#derby;10.14.2.0 in central
> downloading
> [https://repo1.maven.org/maven2/org/apache/sis/core/sis-referencing/1.0/sis-referencing-1.0.jar]
> ...
> [SUCCESSFUL ] org.apache.sis.core#sis-referencing;1.0!sis-referencing.jar
> (245ms)
> downloading
> [https://repo1.maven.org/maven2/org/apache/sis/non-free/sis-embedded-data/1.0/sis-embedded-data-1.0.jar]
> ...
> [SUCCESSFUL ]
> org.apache.sis.non-free#sis-embedded-data;1.0!sis-embedded-data.jar (489ms)
> downloading
> [https://repo1.maven.org/maven2/org/apache/sis/core/sis-utility/1.0/sis-utility-1.0.jar]
> ...
> [SUCCESSFUL ] org.apache.sis.core#sis-utility;1.0!sis-utility.jar (92ms)
> downloading
> [https://repo1.maven.org/maven2/org/apache/sis/core/sis-metadata/1.0/sis-metadata-1.0.jar]
> ...
> [SUCCESSFUL ] org.apache.sis.core#sis-metadata;1.0!sis-metadata.jar (134ms)
> :: resolution report :: resolve 7312ms :: artifacts dl 970ms
> :: modules in use:
> javax.measure#unit-api;1.0 from central in [default]
> org.apache.derby#derby;10.14.2.0 from central in [default]
> org.apache.sis.core#sis-metadata;1.0 from central in [default]
> org.apache.sis.core#sis-referencing;1.0 from central in [default]
> org.apache.sis.core#sis-utility;1.0 from central in [default]
> org.apache.sis.non-free#sis-embedded-data;1.0 from central in [default]
> org.opengis#geoapi;3.0.1 from central in [default]
> ---------------------------------------------------------------------
> | |modules||artifacts||
> |conf|number|search|dwnlded|evicted||number|dwnlded|
> ---------------------------------------------------------------------
> |default|7|6|6|0||7|4|
> ---------------------------------------------------------------------
> :: problems summary ::
> :::: ERRORS
> unknown resolver null
> unknown resolver null
> unknown resolver null
> :: USE VERBOSE OR DEBUG MESSAGE LEVEL FOR MORE DETAILS
> :: retrieving ::
> org.apache.spark#spark-submit-parent-83046344-c80a-4a8a-9d41-e6145875a27a
> confs: [default]
> 7 artifacts copied, 0 already retrieved (10240kB/20ms)
> Main class:
> org.apache.spark.repl.Main
> Arguments:
> Spark config:
>
> (spark.jars,[file:///home/]<user>/.ivy2/jars/org.apache.sis.core_sis-referencing-1.0.jar,[file:///home/]<user>/.ivy2/jars/org.apache.sis.non-free_sis-embedded-data-1.0.jar,[file:///home/]<user>/.ivy2/jars/org.apache.sis.core_sis-utility-1.0.jar,[file:///home/]<user>/.ivy2/jars/org.apache.sis.core_sis-metadata-1.0.jar,[file:///home/]<user>/.ivy2/jars/javax.measure_unit-api-1.0.jar,[file:///home/]<user>/.ivy2/jars/org.opengis_geoapi-3.0.1.jar,[file:///home/]<user>/.ivy2/jars/org.apache.derby_derby-10.14.2.0.jar)
> (spark.app.name,Spark shell)
> (spark.ui.showConsoleProgress,true)
> (spark.submit.deployMode,client)
> (spark.master,local[*])
>
> (spark.repl.local.jars,[file:///home/]<user>/.ivy2/jars/org.apache.sis.core_sis-referencing-1.0.jar,[file:///home/]<user>/.ivy2/jars/org.apache.sis.non-free_sis-embedded-data-1.0.jar,[file:///home/]<user>/.ivy2/jars/org.apache.sis.core_sis-utility-1.0.jar,[file:///home/]<user>/.ivy2/jars/org.apache.sis.core_sis-metadata-1.0.jar,[file:///home/]<user>/.ivy2/jars/javax.measure_unit-api-1.0.jar,[file:///home/]<user>/.ivy2/jars/org.opengis_geoapi-3.0.1.jar,[file:///home/]<user>/.ivy2/jars/org.apache.derby_derby-10.14.2.0.jar)
> Classpath elements:
> [file:///home/]<user>/.ivy2/jars/org.apache.sis.core_sis-referencing-1.0.jar
>
> [file:///home/]<user>/.ivy2/jars/org.apache.sis.non-free_sis-embedded-data-1.0.jar
> [file:///home/]<user>/.ivy2/jars/org.apache.sis.core_sis-utility-1.0.jar
> [file:///home/]<user>/.ivy2/jars/org.apache.sis.core_sis-metadata-1.0.jar
> [file:///home/]<user>/.ivy2/jars/javax.measure_unit-api-1.0.jar
> [file:///home/]<user>/.ivy2/jars/org.opengis_geoapi-3.0.1.jar
> [file:///home/]<user>/.ivy2/jars/org.apache.derby_derby-10.14.2.0.jar
> 20/03/08 15:41:58 WARN Utils: Service 'SparkUI' could not bind on port 4040.
> Attempting port 4041.
> 20/03/08 15:41:58 WARN Utils: Service 'SparkUI' could not bind on port 4041.
> Attempting port 4042.
> Spark context Web UI available at
> [http://192.168.10.221:4042|http://192.168.10.221:4042/]
> Spark context available as 'sc' (master = local[*], app id =
> local-1583678518329).
> Spark session available as 'spark'.
> Welcome to
> ____ __
> / __/__ ___ _____/ /__
> _\ \/ _ \/ _ `/ __/ '_/
> /___/ .__/_,_/_/ /_/_\ version 2.4.4
> /_/
> Using Scala version 2.11.12 (OpenJDK 64-Bit Server VM, Java 1.8.0_242)
> Type in expressions to have them evaluated.
> Type :help for more information.
> scala> *import org.apache.sis.geometry.DirectPosition2D*
> import org.apache.sis.geometry.DirectPosition2D
> scala> *import org.apache.sis.referencing.CRS*
> import org.apache.sis.referencing.CRS
> scala> *val position = new DirectPosition2D (678544.6095273666,
> 248462.881516265)*
> position: org.apache.sis.geometry.DirectPosition2D = POINT(678544.6095273666
> 248462.881516265)
> scala> *println ("Source: " + position)*
> Source: POINT(678544.6095273666 248462.881516265)
> scala>
> scala> *val sourceCRS = CRS.forCode ("EPSG:21781")*
> 20/03/08 15:43:14 WARN factory: Can not use the EPSG geodetic parameters:
> Failed to start database 'classpath:SIS_DATA/Databases/SpatialMetadata' with
> class loader sun.misc.Launcher$AppClassLoader@f2a0b8e, see the next exception
> for details.
> org.opengis.referencing.NoSuchAuthorityCodeException: No
> ‘CoordinateReferenceSystem’ object found for code “21781”. However only a
> subset of the EPSG geodetic dataset has been queried. See
> [http://sis.apache.org/epsg.html] for instruction about how to install the
> full EPSG database.
> at
> org.apache.sis.referencing.EPSGFactoryFallback.predefined(EPSGFactoryFallback.java:355)
> at
> org.apache.sis.referencing.EPSGFactoryFallback.createCoordinateReferenceSystem(EPSGFactoryFallback.java:231)
> at org.apache.sis.referencing.CRS.forCode(CRS.java:236)
> ... 49 elided
> scala> *val targetCRS = CRS.forCode ("EPSG:4326")*
> 20/03/08 15:43:17 WARN system: Can not connect to “jdbc/SpatialMetadata”.
> java.sql.SQLException: Failed to start database
> 'classpath:SIS_DATA/Databases/SpatialMetadata' with class loader
> sun.misc.Launcher$AppClassLoader@f2a0b8e, see the next exception for details.
> at org.apache.derby.impl.jdbc.SQLExceptionFactory.getSQLException(Unknown
> Source)
> at org.apache.derby.impl.jdbc.SQLExceptionFactory.getSQLException(Unknown
> Source)
> at org.apache.derby.impl.jdbc.Util.seeNextException(Unknown Source)
> at org.apache.derby.impl.jdbc.EmbedConnection.bootDatabase(Unknown Source)
> at org.apache.derby.impl.jdbc.EmbedConnection.<init>(Unknown Source)
> at org.apache.derby.jdbc.InternalDriver$1.run(Unknown Source)
> at org.apache.derby.jdbc.InternalDriver$1.run(Unknown Source)
> at java.security.AccessController.doPrivileged(Native Method)
> at org.apache.derby.jdbc.InternalDriver.getNewEmbedConnection(Unknown Source)
> at org.apache.derby.jdbc.InternalDriver.connect(Unknown Source)
> at org.apache.derby.jdbc.BasicEmbeddedDataSource40.getConnection(Unknown
> Source)
> at org.apache.derby.jdbc.BasicEmbeddedDataSource40.getConnection(Unknown
> Source)
> at
> org.apache.sis.metadata.sql.MetadataSource.connection(MetadataSource.java:490)
> at
> org.apache.sis.metadata.sql.MetadataSource.install(MetadataSource.java:457)
> at
> org.apache.sis.metadata.sql.MetadataSource.getProvided(MetadataSource.java:318)
> at
> org.apache.sis.internal.simple.CitationConstant.delegate(CitationConstant.java:177)
> at
> org.apache.sis.internal.simple.CitationConstant.getIdentifiers(CitationConstant.java:204)
> at
> org.apache.sis.internal.metadata.Identifiers.getIdentifier(Identifiers.java:117)
> at
> org.apache.sis.referencing.ImmutableIdentifier.formatTo(ImmutableIdentifier.java:517)
> at org.apache.sis.io.wkt.Formatter.append(Formatter.java:691)
> at org.apache.sis.io.wkt.Formatter.appendComplement(Formatter.java:849)
> at org.apache.sis.io.wkt.Formatter.append(Formatter.java:738)
> at
> org.apache.sis.io.wkt.FormattableObject.formatWKT(FormattableObject.java:200)
> at
> org.apache.sis.io.wkt.FormattableObject.toString(FormattableObject.java:126)
> at
> scala.runtime.ScalaRunTime$.scala$runtime$ScalaRunTime$$inner$1(ScalaRunTime.scala:332)
> at scala.runtime.ScalaRunTime$.stringOf(ScalaRunTime.scala:337)
> at scala.runtime.ScalaRunTime$.replStringOf(ScalaRunTime.scala:345)
> at $line21.$eval$.$print$lzycompute(<console>:10)
> at $line21.$eval$.$print(<console>:6)
> at $line21.$eval.$print(<console>)
> at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
> at
> sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62)
> at
> sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
> at java.lang.reflect.Method.invoke(Method.java:498)
> at scala.tools.nsc.interpreter.IMain$ReadEvalPrint.call(IMain.scala:793)
> at scala.tools.nsc.interpreter.IMain$Request.loadAndRun(IMain.scala:1054)
> at
> scala.tools.nsc.interpreter.IMain$WrappedRequest$$anonfun$loadAndRunReq$1.apply(IMain.scala:645)
> at
> scala.tools.nsc.interpreter.IMain$WrappedRequest$$anonfun$loadAndRunReq$1.apply(IMain.scala:644)
> at
> scala.reflect.internal.util.ScalaClassLoader$class.asContext(ScalaClassLoader.scala:31)
> at
> scala.reflect.internal.util.AbstractFileClassLoader.asContext(AbstractFileClassLoader.scala:19)
> at
> scala.tools.nsc.interpreter.IMain$WrappedRequest.loadAndRunReq(IMain.scala:644)
> at scala.tools.nsc.interpreter.IMain.interpret(IMain.scala:576)
> at scala.tools.nsc.interpreter.IMain.interpret(IMain.scala:572)
> at scala.tools.nsc.interpreter.ILoop.interpretStartingWith(ILoop.scala:819)
> at scala.tools.nsc.interpreter.ILoop.command(ILoop.scala:691)
> at scala.tools.nsc.interpreter.ILoop.processLine(ILoop.scala:404)
> at scala.tools.nsc.interpreter.ILoop.loop(ILoop.scala:425)
> at
> org.apache.spark.repl.SparkILoop$$anonfun$process$1.apply$mcZ$sp(SparkILoop.scala:285)
> at org.apache.spark.repl.SparkILoop.runClosure(SparkILoop.scala:159)
> at org.apache.spark.repl.SparkILoop.process(SparkILoop.scala:182)
> at org.apache.spark.repl.Main$.doMain(Main.scala:78)
> at org.apache.spark.repl.Main$.main(Main.scala:58)
> at org.apache.spark.repl.Main.main(Main.scala)
> at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
> at
> sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62)
> at
> sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
> at java.lang.reflect.Method.invoke(Method.java:498)
> at
> org.apache.spark.deploy.JavaMainApplication.start(SparkApplication.scala:52)
> at
> org.apache.spark.deploy.SparkSubmit.org$apache$spark$deploy$SparkSubmit$$runMain(SparkSubmit.scala:845)
> at org.apache.spark.deploy.SparkSubmit.doRunMain$1(SparkSubmit.scala:161)
> at org.apache.spark.deploy.SparkSubmit.submit(SparkSubmit.scala:184)
> at org.apache.spark.deploy.SparkSubmit.doSubmit(SparkSubmit.scala:86)
> at
> org.apache.spark.deploy.SparkSubmit$$anon$2.doSubmit(SparkSubmit.scala:920)
> at org.apache.spark.deploy.SparkSubmit$.main(SparkSubmit.scala:929)
> at org.apache.spark.deploy.SparkSubmit.main(SparkSubmit.scala)
> Caused by: ERROR XJ040: Failed to start database
> 'classpath:SIS_DATA/Databases/SpatialMetadata' with class loader
> sun.misc.Launcher$AppClassLoader@f2a0b8e, see the next exception for details.
> at org.apache.derby.iapi.error.StandardException.newException(Unknown Source)
> at
> org.apache.derby.impl.jdbc.SQLExceptionFactory.wrapArgsForTransportAcrossDRDA(Unknown
> Source)
> ... 65 more
> Caused by: ERROR XCL20: Catalogs at version level 'null' cannot be upgraded
> to version level '10.12'.
> at org.apache.derby.iapi.error.StandardException.newException(Unknown Source)
> at org.apache.derby.iapi.error.StandardException.newException(Unknown Source)
> at org.apache.derby.impl.sql.catalog.DD_Version.upgradeIfNeeded(Unknown
> Source)
> at
> org.apache.derby.impl.sql.catalog.DataDictionaryImpl.loadDictionaryTables(Unknown
> Source)
> at org.apache.derby.impl.sql.catalog.DataDictionaryImpl.boot(Unknown Source)
> at org.apache.derby.impl.services.monitor.BaseMonitor.boot(Unknown Source)
> at org.apache.derby.impl.services.monitor.TopService.bootModule(Unknown
> Source)
> at org.apache.derby.impl.services.monitor.BaseMonitor.startModule(Unknown
> Source)
> at org.apache.derby.impl.services.monitor.FileMonitor.startModule(Unknown
> Source)
> at org.apache.derby.iapi.services.monitor.Monitor.bootServiceModule(Unknown
> Source)
> at org.apache.derby.impl.db.BasicDatabase$5.run(Unknown Source)
> at java.security.AccessController.doPrivileged(Native Method)
> at org.apache.derby.impl.db.BasicDatabase.bootServiceModule(Unknown Source)
> at org.apache.derby.impl.db.BasicDatabase.boot(Unknown Source)
> at org.apache.derby.impl.services.monitor.BaseMonitor.boot(Unknown Source)
> at org.apache.derby.impl.services.monitor.TopService.bootModule(Unknown
> Source)
> at org.apache.derby.impl.services.monitor.BaseMonitor.bootService(Unknown
> Source)
> at
> org.apache.derby.impl.services.monitor.BaseMonitor.startProviderService(Unknown
> Source)
> at
> org.apache.derby.impl.services.monitor.BaseMonitor.findProviderAndStartService(Unknown
> Source)
> at
> org.apache.derby.impl.services.monitor.BaseMonitor.startPersistentService(Unknown
> Source)
> at
> org.apache.derby.iapi.services.monitor.Monitor.startPersistentService(Unknown
> Source)
> at org.apache.derby.impl.jdbc.EmbedConnection$4.run(Unknown Source)
> at org.apache.derby.impl.jdbc.EmbedConnection$4.run(Unknown Source)
> at java.security.AccessController.doPrivileged(Native Method)
> at org.apache.derby.impl.jdbc.EmbedConnection.startPersistentService(Unknown
> Source)
> ... 62 more
> targetCRS: org.opengis.referencing.crs.CoordinateReferenceSystem =
> GeodeticCRS["WGS 84",
> Datum["World Geodetic System 1984",
> Ellipsoid["WGS 84", 6378137.0, 298.257223563]],
> CS[ellipsoidal, 2],
> Axis["Geodetic latitude (φ)", north],
> Axis["Geodetic longitude (λ)", east],
> Unit["degree", 0.017453292519943295],
> Scope["Horizontal component of 3D system."],
> Area["World"],
> BBox[-90.00, -180.00, 90.00, 180.00],
> Id["EPSG", 4326, URI["urn:ogc:def:crs:EPSG::4326"]]]
> scala>
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