updated build to package JRE-11 with STEM patch from Harsha Krishnareddy
diff --git a/.gitignore b/.gitignore
index 5106459..3a69572 100644
--- a/.gitignore
+++ b/.gitignore
@@ -4,3 +4,4 @@
.DS_Store
.Spotlight-V100
.Trashes
+*.class
diff --git a/org.eclipse.stem/releng/org.eclipse.stem.releng.targetplatforms/STEM4.target b/org.eclipse.stem/releng/org.eclipse.stem.releng.targetplatforms/STEM4.target
index 4478977..9858538 100644
--- a/org.eclipse.stem/releng/org.eclipse.stem.releng.targetplatforms/STEM4.target
+++ b/org.eclipse.stem/releng/org.eclipse.stem.releng.targetplatforms/STEM4.target
@@ -28,9 +28,10 @@
<unit id="org.eclipse.help.ui" version="4.2.100.v20200923-2139"/>
<repository location="http://download.eclipse.org/eclipse/updates/4.18"/>
</location>
- <location includeAllPlatforms="false" includeConfigurePhase="true" includeMode="planner" includeSource="true" type="InstallableUnit">
- <repository location="https://download.eclipse.org/justj/jres/11/updates/release/11.0.2"/>
- <unit id="org.eclipse.justj.openjdk.hotspot.jre.full" version="0.0.0"/>
+ <location>
+ <unit id="org.eclipse.justj.openjdk.hotspot.jre.full" version="11.0.2.v20200815-0835"/>
+ <unit id="a.jre.org.eclipse.justj.openjdk.hotspot.jre.full" version="11.0.0"/>
+ <repository location="https://download.eclipse.org/justj/jres/11/updates/release/latest/"/>
</location>
</locations>
</target>
\ No newline at end of file
diff --git a/org.eclipse.stem/releng/org.eclipse.stem.tycho.configuration/pom.xml b/org.eclipse.stem/releng/org.eclipse.stem.tycho.configuration/pom.xml
index 86cfbc7..36d4c4e 100755
--- a/org.eclipse.stem/releng/org.eclipse.stem.tycho.configuration/pom.xml
+++ b/org.eclipse.stem/releng/org.eclipse.stem.tycho.configuration/pom.xml
@@ -32,19 +32,17 @@
<layout>p2</layout>
</repository>
<repository>
- <id>justj</id>
- <url>https://download.eclipse.org/justj/jres/11/updates/release/latest/</url>
- <layout>p2</layout>
- </repository>
+ <id>justj</id>
+ <url>https://download.eclipse.org/justj/jres/11/updates/release/latest/</url>
+ <layout>p2</layout>
+ </repository>
</repositories>
-
<pluginRepositories>
<pluginRepository>
<id>tycho-snapshots</id>
<url>https://repo.eclipse.org/content/repositories/tycho-snapshots/</url>
</pluginRepository>
</pluginRepositories>
-
<build>
<!-- To use the plugin goals in your POM or parent POM -->
<plugins>
@@ -53,7 +51,6 @@
<artifactId>tycho-p2-repository-plugin</artifactId>
<version>2.2.0</version>
</plugin>
-
<plugin>
<groupId>org.eclipse.tycho</groupId>
<artifactId>tycho-maven-plugin</artifactId>
@@ -83,31 +80,12 @@
<version>${tycho.version}</version>
<configuration>
<environments>
- <!--
- <environment>
- <os>linux</os>
- <ws>gtk</ws>
- <arch>x86</arch>
- </environment>
- -->
<environment>
<os>linux</os>
<ws>gtk</ws>
<arch>x86_64</arch>
</environment>
<environment>
- <os>linux</os>
- <ws>gtk</ws>
- <arch>ppc64le</arch>
- </environment>
- <!--
- <environment>
- <os>win32</os>.
- <ws>win32</ws>
- <arch>x86</arch>
- </environment>
- -->
- <environment>
<os>win32</os>
<ws>win32</ws>
<arch>x86_64</arch>
@@ -118,10 +96,15 @@
<arch>x86_64</arch>
</environment>
</environments>
- <!--workaround bug 532302: set EE to JavASE-11 to make sure we resolve
- Import-Package: javax.annoation against bundle javax.annotation (as opposed
- to system package from bundle's BREE JavaSE-1.8) -->
+ <!-- for dev enironment -->
<executionEnvironment>JavaSE-11</executionEnvironment>
+ <!-- for distribution build -->
+ <executionEnvironmentDefault>org.eclipse.justj.openjdk.hotspot.jre.full-11</executionEnvironmentDefault>
+ <dependency-resolution>
+ <profileProperties>
+ <org.eclipse.justj.buildtime>true</org.eclipse.justj.buildtime>
+ </profileProperties>
+ </dependency-resolution>
</configuration>
</plugin>
</plugins>
diff --git a/org.eclipse.stem/releng/org.eclipse.stem.tycho.product/STEM.product b/org.eclipse.stem/releng/org.eclipse.stem.tycho.product/STEM.product
index c3cdb3c..4d437ef 100644
--- a/org.eclipse.stem/releng/org.eclipse.stem.tycho.product/STEM.product
+++ b/org.eclipse.stem/releng/org.eclipse.stem.tycho.product/STEM.product
@@ -1,25 +1,19 @@
<?xml version="1.0" encoding="UTF-8"?>
<?pde version="3.5"?>
-
<product name="STEM" uid="org.eclipse.stem.tycho.product" id="org.eclipse.stem.ui.product" application="org.eclipse.stem.ui.CoreEditorAdvisorApplication" version="4.0.0.qualifier" useFeatures="true" includeLaunchers="true">
-
<aboutInfo>
<image path="/org.eclipse.stem.ui/branding/ohf64_64_32.gif"/>
<text>
STEM - Spatiotemporal Epidemological Modeler
</text>
</aboutInfo>
-
<configIni use="default">
</configIni>
-
<launcherArgs>
<vmArgsMac>-XstartOnFirstThread -Dorg.eclipse.swt.internal.carbon.smallFonts
</vmArgsMac>
</launcherArgs>
-
<windowImages i16="/org.eclipse.stem.tycho.product/branding/STEM4_16.bmp" i32="/org.eclipse.stem.tycho.product/branding/STEM4_32.bmp" i48="/org.eclipse.stem.tycho.product/branding/STEM4_48.bmp" i64="/org.eclipse.stem.tycho.product/branding/STEM4_64.bmp" i128="/org.eclipse.stem.tycho.product/branding/STEM4_128.bmp" i256="/org.eclipse.stem.tycho.product/branding/STEM4_256.bmp"/>
-
<splash
location="org.eclipse.stem.ui" />
<launcher name="STEM">
@@ -36,14 +30,11 @@
winExtraLargeHigh="branding/STEM4_256.bmp"/>
</win>
</launcher>
-
-
<vm>
<linux include="true">org.eclipse.jdt.launching.JRE_CONTAINER/org.eclipse.jdt.internal.debug.ui.launcher.StandardVMType/JavaSE-11</linux>
<macos include="true">org.eclipse.jdt.launching.JRE_CONTAINER/org.eclipse.jdt.internal.debug.ui.launcher.StandardVMType/JavaSE-11</macos>
<windows include="true">org.eclipse.jdt.launching.JRE_CONTAINER/org.eclipse.jdt.internal.debug.ui.launcher.StandardVMType/JavaSE-11</windows>
</vm>
-
<license>
<url>http://eclipse.org/legal/epl/notice.php</url>
<text>
@@ -173,420 +164,28 @@
155
</text>
</license>
-
<plugins>
- <plugin id="com.google.guava"/>
- <plugin id="com.google.inject"/>
- <plugin id="com.ibm.icu"/>
- <plugin id="com.jcraft.jsch"/>
- <plugin id="com.sun.el"/>
- <plugin id="javax.annotation"/>
- <plugin id="javax.el"/>
- <plugin id="javax.inject"/>
- <plugin id="javax.servlet"/>
- <plugin id="javax.servlet.jsp"/>
- <plugin id="org.antlr.runtime"/>
- <plugin id="org.apache.ant"/>
- <plugin id="org.apache.batik.css"/>
- <plugin id="org.apache.batik.dom"/>
- <plugin id="org.apache.batik.ext.awt"/>
- <plugin id="org.apache.batik.svggen"/>
- <plugin id="org.apache.batik.util"/>
- <plugin id="org.apache.batik.util.gui"/>
- <plugin id="org.apache.batik.xml"/>
- <plugin id="org.apache.commons.codec"/>
- <plugin id="org.apache.commons.collections"/>
- <plugin id="org.apache.commons.collections4"/>
- <plugin id="org.apache.commons.io"/>
- <plugin id="org.apache.commons.jxpath"/>
- <plugin id="org.apache.commons.lang"/>
- <plugin id="org.apache.commons.logging"/>
- <plugin id="org.apache.commons.math3"/>
- <plugin id="org.apache.felix.gogo.command"/>
- <plugin id="org.apache.felix.gogo.runtime"/>
- <plugin id="org.apache.felix.gogo.shell"/>
- <plugin id="org.apache.felix.scr"/>
- <plugin id="org.apache.jasper.glassfish"/>
- <plugin id="org.apache.log4j"/>
- <plugin id="org.apache.lucene.analyzers-common"/>
- <plugin id="org.apache.lucene.analyzers-smartcn"/>
- <plugin id="org.apache.lucene.core"/>
- <plugin id="org.apache.lucene.misc"/>
- <plugin id="org.apiguardian"/>
- <plugin id="org.eclipse.ant.core"/>
- <plugin id="org.eclipse.ant.launching"/>
- <plugin id="org.eclipse.ant.ui"/>
- <plugin id="org.eclipse.birt.chart.device.swt"/>
- <plugin id="org.eclipse.birt.chart.engine"/>
- <plugin id="org.eclipse.birt.chart.engine.extension"/>
- <plugin id="org.eclipse.birt.core"/>
- <plugin id="org.eclipse.birt.core.ui"/>
- <plugin id="org.eclipse.compare"/>
- <plugin id="org.eclipse.compare.core"/>
- <plugin id="org.eclipse.core.commands"/>
- <plugin id="org.eclipse.core.contenttype"/>
- <plugin id="org.eclipse.core.databinding"/>
- <plugin id="org.eclipse.core.databinding.beans"/>
- <plugin id="org.eclipse.core.databinding.observable"/>
- <plugin id="org.eclipse.core.databinding.property"/>
- <plugin id="org.eclipse.core.expressions"/>
- <plugin id="org.eclipse.core.externaltools"/>
- <plugin id="org.eclipse.core.filebuffers"/>
- <plugin id="org.eclipse.core.filesystem"/>
- <plugin id="org.eclipse.core.filesystem.macosx" fragment="true"/>
- <plugin id="org.eclipse.core.jobs"/>
- <plugin id="org.eclipse.core.net"/>
- <plugin id="org.eclipse.core.resources"/>
- <plugin id="org.eclipse.core.runtime"/>
- <plugin id="org.eclipse.core.variables"/>
- <plugin id="org.eclipse.debug.core"/>
- <plugin id="org.eclipse.debug.ui"/>
- <plugin id="org.eclipse.draw2d"/>
- <plugin id="org.eclipse.e4.core.commands"/>
- <plugin id="org.eclipse.e4.core.contexts"/>
- <plugin id="org.eclipse.e4.core.di"/>
- <plugin id="org.eclipse.e4.core.di.annotations"/>
- <plugin id="org.eclipse.e4.core.di.extensions"/>
- <plugin id="org.eclipse.e4.core.di.extensions.supplier"/>
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- <plugin id="org.eclipse.e4.ui.dialogs"/>
- <plugin id="org.eclipse.e4.ui.model.workbench"/>
- <plugin id="org.eclipse.e4.ui.services"/>
- <plugin id="org.eclipse.e4.ui.widgets"/>
- <plugin id="org.eclipse.e4.ui.workbench"/>
- <plugin id="org.eclipse.e4.ui.workbench.addons.swt"/>
- <plugin id="org.eclipse.e4.ui.workbench.renderers.swt"/>
- <plugin id="org.eclipse.e4.ui.workbench.renderers.swt.cocoa" fragment="true"/>
- <plugin id="org.eclipse.e4.ui.workbench.swt"/>
- <plugin id="org.eclipse.e4.ui.workbench3"/>
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- <plugin id="org.eclipse.emf.edit.ui"/>
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- <plugin id="org.eclipse.ui.cheatsheets"/>
- <plugin id="org.eclipse.ui.cocoa" fragment="true"/>
- <plugin id="org.eclipse.ui.console"/>
- <plugin id="org.eclipse.ui.editors"/>
- <plugin id="org.eclipse.ui.externaltools"/>
- <plugin id="org.eclipse.ui.forms"/>
- <plugin id="org.eclipse.ui.genericeditor"/>
- <plugin id="org.eclipse.ui.ide"/>
- <plugin id="org.eclipse.ui.ide.application"/>
- <plugin id="org.eclipse.ui.intro"/>
- <plugin id="org.eclipse.ui.intro.quicklinks"/>
- <plugin id="org.eclipse.ui.intro.universal"/>
- <plugin id="org.eclipse.ui.monitoring"/>
- <plugin id="org.eclipse.ui.navigator"/>
- <plugin id="org.eclipse.ui.navigator.resources"/>
- <plugin id="org.eclipse.ui.net"/>
- <plugin id="org.eclipse.ui.themes"/>
- <plugin id="org.eclipse.ui.trace"/>
- <plugin id="org.eclipse.ui.views"/>
- <plugin id="org.eclipse.ui.views.log"/>
- <plugin id="org.eclipse.ui.views.properties.tabbed"/>
- <plugin id="org.eclipse.ui.workbench"/>
- <plugin id="org.eclipse.ui.workbench.texteditor"/>
- <plugin id="org.eclipse.update.configurator"/>
- <plugin id="org.eclipse.xtend.core"/>
- <plugin id="org.eclipse.xtend.lib"/>
- <plugin id="org.eclipse.xtend.lib.macro"/>
- <plugin id="org.eclipse.xtext"/>
- <plugin id="org.eclipse.xtext.builder"/>
- <plugin id="org.eclipse.xtext.common.types"/>
- <plugin id="org.eclipse.xtext.common.types.edit"/>
- <plugin id="org.eclipse.xtext.common.types.shared"/>
- <plugin id="org.eclipse.xtext.common.types.shared.jdt38" fragment="true"/>
- <plugin id="org.eclipse.xtext.common.types.ui"/>
- <plugin id="org.eclipse.xtext.ecore"/>
- <plugin id="org.eclipse.xtext.logging" fragment="true"/>
- <plugin id="org.eclipse.xtext.smap"/>
- <plugin id="org.eclipse.xtext.ui"/>
- <plugin id="org.eclipse.xtext.ui.codetemplates"/>
- <plugin id="org.eclipse.xtext.ui.codetemplates.ui"/>
- <plugin id="org.eclipse.xtext.ui.ecore"/>
- <plugin id="org.eclipse.xtext.ui.shared"/>
- <plugin id="org.eclipse.xtext.util"/>
- <plugin id="org.eclipse.xtext.xbase"/>
- <plugin id="org.eclipse.xtext.xbase.lib"/>
- <plugin id="org.eclipse.xtext.xbase.ui"/>
- <plugin id="org.eclipse.zest.core"/>
- <plugin id="org.eclipse.zest.layouts"/>
- <plugin id="org.hamcrest.core"/>
- <plugin id="org.junit"/>
- <plugin id="org.junit.jupiter.api"/>
- <plugin id="org.junit.jupiter.engine"/>
- <plugin id="org.junit.jupiter.migrationsupport"/>
- <plugin id="org.junit.jupiter.params"/>
- <plugin id="org.junit.platform.commons"/>
- <plugin id="org.junit.platform.engine"/>
- <plugin id="org.junit.platform.launcher"/>
- <plugin id="org.junit.platform.runner"/>
- <plugin id="org.junit.platform.suite.api"/>
- <plugin id="org.junit.vintage.engine"/>
- <plugin id="org.mozilla.javascript"/>
- <plugin id="org.objectweb.asm"/>
- <plugin id="org.objectweb.asm.tree"/>
- <plugin id="org.opentest4j"/>
- <plugin id="org.sat4j.core"/>
- <plugin id="org.sat4j.pb"/>
- <plugin id="org.tukaani.xz"/>
- <plugin id="org.w3c.css.sac"/>
- <plugin id="org.w3c.dom.events"/>
- <plugin id="org.w3c.dom.smil"/>
- <plugin id="org.w3c.dom.svg"/>
+ <plugin id="org.eclipse.justj.openjdk.hotspot.jre.full"/>
</plugins>
-
<features>
<feature id="org.eclipse.stem.product.feature" version="3.0.0.qualifier"/>
<feature id="org.eclipse.stem.modelgen" version="3.0.0.qualifier"/>
- <!--
<feature id="org.eclipse.justj.openjdk.hotspot.jre.full" installMode="root"/>
- -->
</features>
-
<configurations>
<plugin id="org.apache.felix.scr" autoStart="true" startLevel="2" />
<plugin id="org.eclipse.core.runtime" autoStart="true" startLevel="0" />
<plugin id="org.eclipse.equinox.common" autoStart="true" startLevel="2" />
<plugin id="org.eclipse.equinox.event" autoStart="true" startLevel="2" />
<plugin id="org.eclipse.equinox.simpleconfigurator" autoStart="true" startLevel="1" />
- <property name="stem.buildId" value="4.0.0_v" />
+ <property name="stem.buildId" value="4.0.3_20210303184801" />
</configurations>
-
<repositories>
<repository location="http://download.eclipse.org/stem/update-site/" enabled="true" />
</repositories>
-
<preferencesInfo>
<targetfile overwrite="false"/>
</preferencesInfo>
-
<cssInfo>
</cssInfo>
-
-</product>
+</product>
\ No newline at end of file
diff --git a/workspace/.metadata/.log b/workspace/.metadata/.log
index 1a64556..138858f 100644
--- a/workspace/.metadata/.log
+++ b/workspace/.metadata/.log
@@ -1365,3 +1365,60 @@
!MESSAGE Unexpected error loading extension: org.eclipse.equinox.p2.artifact.repository.XZedRepository
!STACK 0
java.lang.NullPointerException
+!SESSION 2021-03-03 17:40:06.950 -----------------------------------------------
+eclipse.buildId=unknown
+java.version=11.0.8
+java.vendor=Oracle Corporation
+BootLoader constants: OS=macosx, ARCH=x86_64, WS=cocoa, NL=en_US
+Framework arguments: -eclipse.keyring /var/folders/9l/5blrkn7958s7zckzxhlmxj540000gq/T/tycho12982477274668588306secure_storage
+Command-line arguments: -eclipse.keyring /var/folders/9l/5blrkn7958s7zckzxhlmxj540000gq/T/tycho12982477274668588306secure_storage
+
+!ENTRY org.eclipse.equinox.p2.transport.ecf 2 0 2021-03-03 17:40:06.950
+!MESSAGE Connection to https://ftp.halifax.rwth-aachen.de/eclipse/releases/2021-03/202102261000/plugins/org.eclipse.ecf.provider.filetransfer_3.2.601.v20201025-0700.jar.pack.gz failed on Connect to ftp.halifax.rwth-aachen.de:443 [ftp.halifax.rwth-aachen.de/2a00:8a60:e012:a00:0:0:0:21] failed: No route to host (connect failed). Retry attempt 0 started
+!STACK 0
+org.apache.http.conn.HttpHostConnectException: Connect to ftp.halifax.rwth-aachen.de:443 [ftp.halifax.rwth-aachen.de/2a00:8a60:e012:a00:0:0:0:21] failed: No route to host (connect failed)
+ at org.apache.http.impl.conn.DefaultHttpClientConnectionOperator.connect(DefaultHttpClientConnectionOperator.java:156)
+ at org.apache.http.impl.conn.PoolingHttpClientConnectionManager.connect(PoolingHttpClientConnectionManager.java:374)
+ at org.apache.http.impl.execchain.MainClientExec.establishRoute(MainClientExec.java:393)
+ at org.apache.http.impl.execchain.MainClientExec.execute(MainClientExec.java:236)
+ at org.apache.http.impl.execchain.ProtocolExec.execute(ProtocolExec.java:186)
+ at org.apache.http.impl.execchain.RetryExec.execute(RetryExec.java:89)
+ at org.apache.http.impl.execchain.RedirectExec.execute(RedirectExec.java:110)
+ at org.apache.http.impl.client.InternalHttpClient.doExecute(InternalHttpClient.java:185)
+ at org.apache.http.impl.client.CloseableHttpClient.execute(CloseableHttpClient.java:83)
+ at org.eclipse.ecf.provider.filetransfer.httpclient45.HttpClientRetrieveFileTransfer.performConnect(HttpClientRetrieveFileTransfer.java:1003)
+ at org.eclipse.ecf.provider.filetransfer.httpclient45.HttpClientRetrieveFileTransfer.access$0(HttpClientRetrieveFileTransfer.java:995)
+ at org.eclipse.ecf.provider.filetransfer.httpclient45.HttpClientRetrieveFileTransfer$1.performFileTransfer(HttpClientRetrieveFileTransfer.java:991)
+ at org.eclipse.ecf.filetransfer.FileTransferJob.run(FileTransferJob.java:76)
+ at org.eclipse.core.internal.jobs.Worker.run(Worker.java:63)
+Caused by: java.net.ConnectException: No route to host (connect failed)
+ at java.base/java.net.PlainSocketImpl.socketConnect(Native Method)
+ at java.base/java.net.AbstractPlainSocketImpl.doConnect(AbstractPlainSocketImpl.java:399)
+ at java.base/java.net.AbstractPlainSocketImpl.connectToAddress(AbstractPlainSocketImpl.java:242)
+ at java.base/java.net.AbstractPlainSocketImpl.connect(AbstractPlainSocketImpl.java:224)
+ at java.base/java.net.SocksSocketImpl.connect(SocksSocketImpl.java:403)
+ at java.base/java.net.Socket.connect(Socket.java:608)
+ at org.apache.http.conn.ssl.SSLConnectionSocketFactory.connectSocket(SSLConnectionSocketFactory.java:368)
+ at org.apache.http.impl.conn.DefaultHttpClientConnectionOperator.connect(DefaultHttpClientConnectionOperator.java:142)
+ ... 13 more
+
+!ENTRY org.eclipse.equinox.p2.director 0 0 2021-03-03 17:45:41.150
+!MESSAGE Overall install request is satisfiable
+!SUBENTRY 1 org.eclipse.equinox.p2.director 0 0 2021-03-03 17:45:41.150
+!MESSAGE Add request for STEM 4.0.0.202103040136 (org.eclipse.stem.tycho.product 4.0.0.202103040136) is satisfiable
+!SUBENTRY 1 org.eclipse.equinox.p2.director 0 0 2021-03-03 17:45:41.150
+!MESSAGE Add request for JustJ OpenJDK Hotspot JRE Complete 11.0.2.v20200815-0835 (org.eclipse.justj.openjdk.hotspot.jre.full.feature.group 11.0.2.v20200815-0835) is satisfiable
+
+!ENTRY org.eclipse.equinox.p2.director 0 0 2021-03-03 17:45:53.247
+!MESSAGE Overall install request is satisfiable
+!SUBENTRY 1 org.eclipse.equinox.p2.director 0 0 2021-03-03 17:45:53.247
+!MESSAGE Add request for STEM 4.0.0.202103040136 (org.eclipse.stem.tycho.product 4.0.0.202103040136) is satisfiable
+!SUBENTRY 1 org.eclipse.equinox.p2.director 0 0 2021-03-03 17:45:53.247
+!MESSAGE Add request for JustJ OpenJDK Hotspot JRE Complete 11.0.2.v20200815-0835 (org.eclipse.justj.openjdk.hotspot.jre.full.feature.group 11.0.2.v20200815-0835) is satisfiable
+
+!ENTRY org.eclipse.equinox.p2.director 0 0 2021-03-03 17:46:03.307
+!MESSAGE Overall install request is satisfiable
+!SUBENTRY 1 org.eclipse.equinox.p2.director 0 0 2021-03-03 17:46:03.308
+!MESSAGE Add request for STEM 4.0.0.202103040136 (org.eclipse.stem.tycho.product 4.0.0.202103040136) is satisfiable
+!SUBENTRY 1 org.eclipse.equinox.p2.director 0 0 2021-03-03 17:46:03.308
+!MESSAGE Add request for JustJ OpenJDK Hotspot JRE Complete 11.0.2.v20200815-0835 (org.eclipse.justj.openjdk.hotspot.jre.full.feature.group 11.0.2.v20200815-0835) is satisfiable
