From fa1e433969d3d45e1317958be00d91700dab10f6 Mon Sep 17 00:00:00 2001
From: Johannes Mey <johannes.mey@tu-dresden.de>
Date: Wed, 5 Sep 2018 15:41:27 +0200
Subject: [PATCH] move to subdirectory and add measurements

---
 Dockerfile                                    |  44 ++++++++++++++++++
 LICENSE => trainbenchmark/LICENSE             |   0
 README.md => trainbenchmark/README.md         |   0
 build.gradle => trainbenchmark/build.gradle   |   0
 .../diagrams}/.gitignore                      |   0
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 gradlew.bat => trainbenchmark/gradlew.bat     |   0
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 {logs => trainbenchmark/logs}/README.md       |   0
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 rename {trainbenchmark-tool-viatra => trainbenchmark/trainbenchmark-tool-viatra}/src/main/java/hu/bme/mit/trainbenchmark/benchmark/viatra/ViatraBenchmarkMain.java (100%)
 rename {trainbenchmark-tool-viatra => trainbenchmark/trainbenchmark-tool-viatra}/src/main/java/hu/bme/mit/trainbenchmark/benchmark/viatra/ViatraBenchmarkScenario.java (100%)
 rename {trainbenchmark-tool-viatra => trainbenchmark/trainbenchmark-tool-viatra}/src/main/java/hu/bme/mit/trainbenchmark/benchmark/viatra/comparators/ViatraMatchComparator.java (100%)
 rename {trainbenchmark-tool-viatra => trainbenchmark/trainbenchmark-tool-viatra}/src/main/java/hu/bme/mit/trainbenchmark/benchmark/viatra/config/ViatraBackend.java (100%)
 rename {trainbenchmark-tool-viatra => trainbenchmark/trainbenchmark-tool-viatra}/src/main/java/hu/bme/mit/trainbenchmark/benchmark/viatra/config/ViatraBenchmarkConfig.java (100%)
 rename {trainbenchmark-tool-viatra => trainbenchmark/trainbenchmark-tool-viatra}/src/main/java/hu/bme/mit/trainbenchmark/benchmark/viatra/config/ViatraBenchmarkConfigBuilder.java (100%)
 rename {trainbenchmark-tool-viatra => trainbenchmark/trainbenchmark-tool-viatra}/src/main/java/hu/bme/mit/trainbenchmark/benchmark/viatra/driver/ViatraDriver.java (100%)
 rename {trainbenchmark-tool-viatra => trainbenchmark/trainbenchmark-tool-viatra}/src/main/java/hu/bme/mit/trainbenchmark/benchmark/viatra/driver/ViatraDriverFactory.java (100%)
 rename {trainbenchmark-tool-viatra => trainbenchmark/trainbenchmark-tool-viatra}/src/main/java/hu/bme/mit/trainbenchmark/benchmark/viatra/operations/ViatraModelOperationFactory.java (100%)
 rename {trainbenchmark-tool-viatra => trainbenchmark/trainbenchmark-tool-viatra}/src/main/java/hu/bme/mit/trainbenchmark/benchmark/viatra/queries/ViatraQuery.java (100%)
 rename {trainbenchmark-tool-viatra => trainbenchmark/trainbenchmark-tool-viatra}/src/main/java/hu/bme/mit/trainbenchmark/benchmark/viatra/queries/ViatraQueryConnectedSegments.java (100%)
 rename {trainbenchmark-tool-viatra => trainbenchmark/trainbenchmark-tool-viatra}/src/main/java/hu/bme/mit/trainbenchmark/benchmark/viatra/queries/ViatraQueryConnectedSegmentsInject.java (100%)
 rename {trainbenchmark-tool-viatra => trainbenchmark/trainbenchmark-tool-viatra}/src/main/java/hu/bme/mit/trainbenchmark/benchmark/viatra/queries/ViatraQueryPosLength.java (100%)
 rename {trainbenchmark-tool-viatra => trainbenchmark/trainbenchmark-tool-viatra}/src/main/java/hu/bme/mit/trainbenchmark/benchmark/viatra/queries/ViatraQueryPosLengthInject.java (100%)
 rename {trainbenchmark-tool-viatra => trainbenchmark/trainbenchmark-tool-viatra}/src/main/java/hu/bme/mit/trainbenchmark/benchmark/viatra/queries/ViatraQueryRouteSensor.java (100%)
 rename {trainbenchmark-tool-viatra => trainbenchmark/trainbenchmark-tool-viatra}/src/main/java/hu/bme/mit/trainbenchmark/benchmark/viatra/queries/ViatraQueryRouteSensorInject.java (100%)
 rename {trainbenchmark-tool-viatra => trainbenchmark/trainbenchmark-tool-viatra}/src/main/java/hu/bme/mit/trainbenchmark/benchmark/viatra/queries/ViatraQuerySemaphoreNeighbor.java (100%)
 rename {trainbenchmark-tool-viatra => trainbenchmark/trainbenchmark-tool-viatra}/src/main/java/hu/bme/mit/trainbenchmark/benchmark/viatra/queries/ViatraQuerySemaphoreNeighborInject.java (100%)
 rename {trainbenchmark-tool-viatra => trainbenchmark/trainbenchmark-tool-viatra}/src/main/java/hu/bme/mit/trainbenchmark/benchmark/viatra/queries/ViatraQuerySwitchMonitored.java (100%)
 rename {trainbenchmark-tool-viatra => trainbenchmark/trainbenchmark-tool-viatra}/src/main/java/hu/bme/mit/trainbenchmark/benchmark/viatra/queries/ViatraQuerySwitchMonitoredInject.java (100%)
 rename {trainbenchmark-tool-viatra => trainbenchmark/trainbenchmark-tool-viatra}/src/main/java/hu/bme/mit/trainbenchmark/benchmark/viatra/queries/ViatraQuerySwitchSet.java (100%)
 rename {trainbenchmark-tool-viatra => trainbenchmark/trainbenchmark-tool-viatra}/src/main/java/hu/bme/mit/trainbenchmark/benchmark/viatra/queries/ViatraQuerySwitchSetInject.java (100%)
 rename {trainbenchmark-tool-viatra => trainbenchmark/trainbenchmark-tool-viatra}/src/main/java/hu/bme/mit/trainbenchmark/benchmark/viatra/transformations/ViatraTransformation.java (100%)
 rename {trainbenchmark-tool-viatra => trainbenchmark/trainbenchmark-tool-viatra}/src/main/java/hu/bme/mit/trainbenchmark/benchmark/viatra/transformations/inject/ViatraTransformationInjectConnectedSegments.java (100%)
 rename {trainbenchmark-tool-viatra => trainbenchmark/trainbenchmark-tool-viatra}/src/main/java/hu/bme/mit/trainbenchmark/benchmark/viatra/transformations/inject/ViatraTransformationInjectPosLength.java (100%)
 rename {trainbenchmark-tool-viatra => trainbenchmark/trainbenchmark-tool-viatra}/src/main/java/hu/bme/mit/trainbenchmark/benchmark/viatra/transformations/inject/ViatraTransformationInjectRouteSensor.java (100%)
 rename {trainbenchmark-tool-viatra => trainbenchmark/trainbenchmark-tool-viatra}/src/main/java/hu/bme/mit/trainbenchmark/benchmark/viatra/transformations/inject/ViatraTransformationInjectSemaphoreNeighbor.java (100%)
 rename {trainbenchmark-tool-viatra => trainbenchmark/trainbenchmark-tool-viatra}/src/main/java/hu/bme/mit/trainbenchmark/benchmark/viatra/transformations/inject/ViatraTransformationInjectSwitchMonitored.java (100%)
 rename {trainbenchmark-tool-viatra => trainbenchmark/trainbenchmark-tool-viatra}/src/main/java/hu/bme/mit/trainbenchmark/benchmark/viatra/transformations/inject/ViatraTransformationInjectSwitchSet.java (100%)
 rename {trainbenchmark-tool-viatra => trainbenchmark/trainbenchmark-tool-viatra}/src/main/java/hu/bme/mit/trainbenchmark/benchmark/viatra/transformations/repair/ViatraTransformationRepairConnectedSegments.java (100%)
 rename {trainbenchmark-tool-viatra => trainbenchmark/trainbenchmark-tool-viatra}/src/main/java/hu/bme/mit/trainbenchmark/benchmark/viatra/transformations/repair/ViatraTransformationRepairPosLength.java (100%)
 rename {trainbenchmark-tool-viatra => trainbenchmark/trainbenchmark-tool-viatra}/src/main/java/hu/bme/mit/trainbenchmark/benchmark/viatra/transformations/repair/ViatraTransformationRepairRouteSensor.java (100%)
 rename {trainbenchmark-tool-viatra => trainbenchmark/trainbenchmark-tool-viatra}/src/main/java/hu/bme/mit/trainbenchmark/benchmark/viatra/transformations/repair/ViatraTransformationRepairSemaphoreNeighbor.java (100%)
 rename {trainbenchmark-tool-viatra => trainbenchmark/trainbenchmark-tool-viatra}/src/main/java/hu/bme/mit/trainbenchmark/benchmark/viatra/transformations/repair/ViatraTransformationRepairSwitchMonitored.java (100%)
 rename {trainbenchmark-tool-viatra => trainbenchmark/trainbenchmark-tool-viatra}/src/main/java/hu/bme/mit/trainbenchmark/benchmark/viatra/transformations/repair/ViatraTransformationRepairSwitchSet.java (100%)
 rename {trainbenchmark-tool-viatra => trainbenchmark/trainbenchmark-tool-viatra}/src/test/java/hu/bme/mit/trainbenchmark/benchmark/viatra/test/ViatraTest.java (100%)
 rename {trainbenchmark-tool => trainbenchmark/trainbenchmark-tool}/build.gradle (100%)
 rename {trainbenchmark-tool => trainbenchmark/trainbenchmark-tool}/build.properties (100%)
 rename {trainbenchmark-tool => trainbenchmark/trainbenchmark-tool}/src/main/java/hu/bme/mit/trainbenchmark/benchmark/comparators/LongComparator.java (100%)
 rename {trainbenchmark-tool => trainbenchmark/trainbenchmark-tool}/src/main/java/hu/bme/mit/trainbenchmark/benchmark/comparators/LongMatchComparator.java (100%)
 rename {trainbenchmark-tool => trainbenchmark/trainbenchmark-tool}/src/main/java/hu/bme/mit/trainbenchmark/benchmark/config/BenchmarkConfig.java (100%)
 rename {trainbenchmark-tool => trainbenchmark/trainbenchmark-tool}/src/main/java/hu/bme/mit/trainbenchmark/benchmark/config/BenchmarkConfigBase.java (100%)
 rename {trainbenchmark-tool => trainbenchmark/trainbenchmark-tool}/src/main/java/hu/bme/mit/trainbenchmark/benchmark/config/BenchmarkConfigBaseBuilder.java (100%)
 rename {trainbenchmark-tool => trainbenchmark/trainbenchmark-tool}/src/main/java/hu/bme/mit/trainbenchmark/benchmark/config/BenchmarkConfigBuilder.java (100%)
 rename {trainbenchmark-tool => trainbenchmark/trainbenchmark-tool}/src/main/java/hu/bme/mit/trainbenchmark/benchmark/config/ModelSetConfig.java (100%)
 rename {trainbenchmark-tool => trainbenchmark/trainbenchmark-tool}/src/main/java/hu/bme/mit/trainbenchmark/benchmark/config/TransformationChangeSetStrategy.java (100%)
 rename {trainbenchmark-tool => trainbenchmark/trainbenchmark-tool}/src/main/java/hu/bme/mit/trainbenchmark/benchmark/driver/Driver.java (100%)
 rename {trainbenchmark-tool => trainbenchmark/trainbenchmark-tool}/src/main/java/hu/bme/mit/trainbenchmark/benchmark/driver/DriverFactory.java (100%)
 rename {trainbenchmark-tool => trainbenchmark/trainbenchmark-tool}/src/main/java/hu/bme/mit/trainbenchmark/benchmark/matches/BaseMatch.java (100%)
 rename {trainbenchmark-tool => trainbenchmark/trainbenchmark-tool}/src/main/java/hu/bme/mit/trainbenchmark/benchmark/matches/ConnectedSegmentsInjectMatch.java (100%)
 rename {trainbenchmark-tool => trainbenchmark/trainbenchmark-tool}/src/main/java/hu/bme/mit/trainbenchmark/benchmark/matches/ConnectedSegmentsMatch.java (100%)
 rename {trainbenchmark-tool => trainbenchmark/trainbenchmark-tool}/src/main/java/hu/bme/mit/trainbenchmark/benchmark/matches/LongMatch.java (100%)
 rename {trainbenchmark-tool => trainbenchmark/trainbenchmark-tool}/src/main/java/hu/bme/mit/trainbenchmark/benchmark/matches/Match.java (100%)
 rename {trainbenchmark-tool => trainbenchmark/trainbenchmark-tool}/src/main/java/hu/bme/mit/trainbenchmark/benchmark/matches/PosLengthInjectMatch.java (100%)
 rename {trainbenchmark-tool => trainbenchmark/trainbenchmark-tool}/src/main/java/hu/bme/mit/trainbenchmark/benchmark/matches/PosLengthMatch.java (100%)
 rename {trainbenchmark-tool => trainbenchmark/trainbenchmark-tool}/src/main/java/hu/bme/mit/trainbenchmark/benchmark/matches/RouteSensorInjectMatch.java (100%)
 rename {trainbenchmark-tool => trainbenchmark/trainbenchmark-tool}/src/main/java/hu/bme/mit/trainbenchmark/benchmark/matches/RouteSensorMatch.java (100%)
 rename {trainbenchmark-tool => trainbenchmark/trainbenchmark-tool}/src/main/java/hu/bme/mit/trainbenchmark/benchmark/matches/SemaphoreNeighborInjectMatch.java (100%)
 rename {trainbenchmark-tool => trainbenchmark/trainbenchmark-tool}/src/main/java/hu/bme/mit/trainbenchmark/benchmark/matches/SemaphoreNeighborMatch.java (100%)
 rename {trainbenchmark-tool => trainbenchmark/trainbenchmark-tool}/src/main/java/hu/bme/mit/trainbenchmark/benchmark/matches/SwitchMonitoredInjectMatch.java (100%)
 rename {trainbenchmark-tool => trainbenchmark/trainbenchmark-tool}/src/main/java/hu/bme/mit/trainbenchmark/benchmark/matches/SwitchMonitoredMatch.java (100%)
 rename {trainbenchmark-tool => trainbenchmark/trainbenchmark-tool}/src/main/java/hu/bme/mit/trainbenchmark/benchmark/matches/SwitchSetInjectMatch.java (100%)
 rename {trainbenchmark-tool => trainbenchmark/trainbenchmark-tool}/src/main/java/hu/bme/mit/trainbenchmark/benchmark/matches/SwitchSetMatch.java (100%)
 rename {trainbenchmark-tool => trainbenchmark/trainbenchmark-tool}/src/main/java/hu/bme/mit/trainbenchmark/benchmark/matches/comparators/BaseMatchComparator.java (100%)
 rename {trainbenchmark-tool => trainbenchmark/trainbenchmark-tool}/src/main/java/hu/bme/mit/trainbenchmark/benchmark/matches/comparators/MatchComparator.java (100%)
 rename {trainbenchmark-tool => trainbenchmark/trainbenchmark-tool}/src/main/java/hu/bme/mit/trainbenchmark/benchmark/memory/MemoryResult.java (100%)
 rename {trainbenchmark-tool => trainbenchmark/trainbenchmark-tool}/src/main/java/hu/bme/mit/trainbenchmark/benchmark/operations/ModelOperation.java (100%)
 rename {trainbenchmark-tool => trainbenchmark/trainbenchmark-tool}/src/main/java/hu/bme/mit/trainbenchmark/benchmark/operations/ModelOperationFactory.java (100%)
 rename {trainbenchmark-tool => trainbenchmark/trainbenchmark-tool}/src/main/java/hu/bme/mit/trainbenchmark/benchmark/operations/ModelOperationRegistry.java (100%)
 rename {trainbenchmark-tool => trainbenchmark/trainbenchmark-tool}/src/main/java/hu/bme/mit/trainbenchmark/benchmark/operations/ModelQuery.java (100%)
 rename {trainbenchmark-tool => trainbenchmark/trainbenchmark-tool}/src/main/java/hu/bme/mit/trainbenchmark/benchmark/operations/ModelTransformation.java (100%)
 rename {trainbenchmark-tool => trainbenchmark/trainbenchmark-tool}/src/main/java/hu/bme/mit/trainbenchmark/benchmark/phases/BenchmarkScenario.java (100%)
 rename {trainbenchmark-tool => trainbenchmark/trainbenchmark-tool}/src/main/java/hu/bme/mit/trainbenchmark/benchmark/phases/CleanupPhase.java (100%)
 rename {trainbenchmark-tool => trainbenchmark/trainbenchmark-tool}/src/main/java/hu/bme/mit/trainbenchmark/benchmark/phases/InitializeOperationsPhase.java (100%)
 rename {trainbenchmark-tool => trainbenchmark/trainbenchmark-tool}/src/main/java/hu/bme/mit/trainbenchmark/benchmark/phases/Phase.java (100%)
 rename {trainbenchmark-tool => trainbenchmark/trainbenchmark-tool}/src/main/java/hu/bme/mit/trainbenchmark/benchmark/phases/PhaseExecutor.java (100%)
 rename {trainbenchmark-tool => trainbenchmark/trainbenchmark-tool}/src/main/java/hu/bme/mit/trainbenchmark/benchmark/phases/QueryPhase.java (100%)
 rename {trainbenchmark-tool => trainbenchmark/trainbenchmark-tool}/src/main/java/hu/bme/mit/trainbenchmark/benchmark/phases/ReadPhase.java (100%)
 rename {trainbenchmark-tool => trainbenchmark/trainbenchmark-tool}/src/main/java/hu/bme/mit/trainbenchmark/benchmark/phases/TransformationPhase.java (100%)
 rename {trainbenchmark-tool => trainbenchmark/trainbenchmark-tool}/src/main/java/hu/bme/mit/trainbenchmark/benchmark/result/AbstractResult.java (100%)
 rename {trainbenchmark-tool => trainbenchmark/trainbenchmark-tool}/src/main/java/hu/bme/mit/trainbenchmark/benchmark/result/ResultHelper.java (100%)
 rename {trainbenchmark-tool => trainbenchmark/trainbenchmark-tool}/src/main/java/hu/bme/mit/trainbenchmark/benchmark/runcomponents/BenchmarkBundle.java (100%)
 rename {trainbenchmark-tool => trainbenchmark/trainbenchmark-tool}/src/main/java/hu/bme/mit/trainbenchmark/benchmark/runcomponents/BenchmarkReporter.java (100%)
 rename {trainbenchmark-tool => trainbenchmark/trainbenchmark-tool}/src/main/java/hu/bme/mit/trainbenchmark/benchmark/runcomponents/BenchmarkResult.java (100%)
 rename {trainbenchmark-tool => trainbenchmark/trainbenchmark-tool}/src/main/java/hu/bme/mit/trainbenchmark/benchmark/runcomponents/BenchmarkRunner.java (100%)
 rename {trainbenchmark-tool => trainbenchmark/trainbenchmark-tool}/src/main/java/hu/bme/mit/trainbenchmark/benchmark/runcomponents/QueryShuffleTransformation.java (100%)
 rename {trainbenchmark-tool => trainbenchmark/trainbenchmark-tool}/src/main/java/hu/bme/mit/trainbenchmark/benchmark/runcomponents/RunResult.java (100%)
 rename {trainbenchmark-tool => trainbenchmark/trainbenchmark-tool}/src/main/java/hu/bme/mit/trainbenchmark/benchmark/test/TrainBenchmarkTest.java (100%)
 rename {trainbenchmark-tool => trainbenchmark/trainbenchmark-tool}/src/main/java/hu/bme/mit/trainbenchmark/benchmark/test/queryspecific/QueryTest.java (100%)
 rename {trainbenchmark-tool => trainbenchmark/trainbenchmark-tool}/src/main/java/hu/bme/mit/trainbenchmark/benchmark/test/queryspecific/RouteSensorTest.java (100%)
 rename {trainbenchmark-tool => trainbenchmark/trainbenchmark-tool}/src/main/java/hu/bme/mit/trainbenchmark/benchmark/test/queryspecific/SemaphoreNeighborTest.java (100%)
 rename {trainbenchmark-tool => trainbenchmark/trainbenchmark-tool}/src/main/resources/.gitignore (100%)
 rename {trainbenchmark-tool => trainbenchmark/trainbenchmark-tool}/src/test/java/hu/bme/mit/trainbenchmark/benchmark/runcomponents/test/BenchmarkReporterTest.java (100%)
 rename {visualization => trainbenchmark/visualization}/.gitignore (100%)
 rename {visualization => trainbenchmark/visualization}/query-plans/RouteSensorA-Relalg.tex (100%)
 rename {visualization => trainbenchmark/visualization}/query-plans/RouteSensorA-Rete-cost.tex (100%)
 rename {visualization => trainbenchmark/visualization}/query-plans/RouteSensorA-Rete.tex (100%)
 rename {visualization => trainbenchmark/visualization}/query-plans/RouteSensorA-ReteExpression.tex (100%)
 rename {visualization => trainbenchmark/visualization}/query-plans/RouteSensorB-Relalg.tex (100%)
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 rename {visualization => trainbenchmark/visualization}/query-plans/RouteSensorB-ReteExpression.tex (100%)
 rename {visualization => trainbenchmark/visualization}/query-plans/RouteSensorC-Relalg.tex (100%)
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 rename {visualization => trainbenchmark/visualization}/query-plans/SemaphoreNeighborA-Rete-cost.tex (100%)
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 rename {visualization => trainbenchmark/visualization}/query-plans/SemaphoreNeighborB-Relalg.tex (100%)
 rename {visualization => trainbenchmark/visualization}/query-plans/SemaphoreNeighborB-Rete.tex (100%)
 rename {visualization => trainbenchmark/visualization}/query-plans/SemaphoreNeighborB-ReteExpression.tex (100%)
 rename {visualization => trainbenchmark/visualization}/query-plans/SemaphoreNeighborC-Relalg.tex (100%)
 rename {visualization => trainbenchmark/visualization}/query-plans/SemaphoreNeighborC-Rete.tex (100%)
 rename {visualization => trainbenchmark/visualization}/query-plans/SemaphoreNeighborC-ReteExpression.tex (100%)
 rename {visualization => trainbenchmark/visualization}/query-plans/SemaphoreNeighborD-Relalg.tex (100%)
 rename {visualization => trainbenchmark/visualization}/query-plans/SemaphoreNeighborD-Rete.tex (100%)
 rename {visualization => trainbenchmark/visualization}/query-plans/SemaphoreNeighborD-ReteExpression.tex (100%)
 rename {visualization => trainbenchmark/visualization}/query-plans/SemaphoreNeighborE-Relalg.tex (100%)
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 rename {visualization => trainbenchmark/visualization}/query-plans/SemaphoreNeighborE-ReteExpression.tex (100%)
 rename {visualization => trainbenchmark/visualization}/query-plans/SemaphoreNeighborF-Relalg.tex (100%)
 rename {visualization => trainbenchmark/visualization}/query-plans/SemaphoreNeighborF-Rete.tex (100%)
 rename {visualization => trainbenchmark/visualization}/query-plans/SemaphoreNeighborF-ReteExpression.tex (100%)
 rename {visualization => trainbenchmark/visualization}/query-plans/bootstrap.min.css (100%)
 rename {visualization => trainbenchmark/visualization}/query-plans/convert.sh (100%)
 rename {visualization => trainbenchmark/visualization}/query-plans/template-footer.html (100%)
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diff --git a/Dockerfile b/Dockerfile
new file mode 100644
index 000000000..0c18c673d
--- /dev/null
+++ b/Dockerfile
@@ -0,0 +1,44 @@
+# glpk also from https://github.com/dmccloskey/glpk/blob/master/Dockerfile
+
+# Set the base image to Ubuntu
+FROM ubuntu:latest
+# Switch to root for install
+USER root
+
+ENV DEBIAN_FRONTEND noninteractive
+ENV HOME /home/user
+RUN useradd --create-home --home-dir $HOME user \
+    && chmod -R u+rwx $HOME \
+    && chown -R user:user $HOME
+
+RUN apt-get update -y && apt-get install -y \
+	openjdk-8-jdk \
+	r-base \
+	r-base-dev \
+	libudunits2-dev \
+	cowsay \
+	less \
+	--no-install-recommends \
+	&& apt-get clean \
+	&& rm -rf /var/lib/apt/lists/*
+
+COPY trainbenchmark-reporting/install.R /trainbenchmark/trainbenchmark-reporting/install.R
+RUN Rscript /trainbenchmark/trainbenchmark-reporting/install.R
+
+#USER user
+WORKDIR /trainbenchmark
+
+COPY --chown=user:user . .
+COPY docker/bashrc /home/user/.bashrc
+
+RUN ./gradlew --no-daemon preprocess
+RUN ./gradlew --no-daemon build shadowJar -x test
+RUN ./gradlew --no-daemon initScripts
+
+
+
+# when benchmarking run:
+# RUN ./gradlew --no-daemon generate
+# RUN ./gradlew --no-daemon individualInjectBenchmark
+# RUN ./gradlew --no-daemon individualRepairBenchmark
+ENTRYPOINT /bin/bash
diff --git a/LICENSE b/trainbenchmark/LICENSE
similarity index 100%
rename from LICENSE
rename to trainbenchmark/LICENSE
diff --git a/README.md b/trainbenchmark/README.md
similarity index 100%
rename from README.md
rename to trainbenchmark/README.md
diff --git a/build.gradle b/trainbenchmark/build.gradle
similarity index 100%
rename from build.gradle
rename to trainbenchmark/build.gradle
diff --git a/diagrams/.gitignore b/trainbenchmark/diagrams/.gitignore
similarity index 100%
rename from diagrams/.gitignore
rename to trainbenchmark/diagrams/.gitignore
diff --git a/docs/README.md b/trainbenchmark/docs/README.md
similarity index 100%
rename from docs/README.md
rename to trainbenchmark/docs/README.md
diff --git a/docs/getting-started.md b/trainbenchmark/docs/getting-started.md
similarity index 100%
rename from docs/getting-started.md
rename to trainbenchmark/docs/getting-started.md
diff --git a/docs/how-to-run-the-benchmark.md b/trainbenchmark/docs/how-to-run-the-benchmark.md
similarity index 100%
rename from docs/how-to-run-the-benchmark.md
rename to trainbenchmark/docs/how-to-run-the-benchmark.md
diff --git a/docs/naming-conventions.md b/trainbenchmark/docs/naming-conventions.md
similarity index 100%
rename from docs/naming-conventions.md
rename to trainbenchmark/docs/naming-conventions.md
diff --git a/docs/projects.md b/trainbenchmark/docs/projects.md
similarity index 100%
rename from docs/projects.md
rename to trainbenchmark/docs/projects.md
diff --git a/docs/running-the-benchmark.md b/trainbenchmark/docs/running-the-benchmark.md
similarity index 100%
rename from docs/running-the-benchmark.md
rename to trainbenchmark/docs/running-the-benchmark.md
diff --git a/gradle/source-layout-xcore.gradle b/trainbenchmark/gradle/source-layout-xcore.gradle
similarity index 100%
rename from gradle/source-layout-xcore.gradle
rename to trainbenchmark/gradle/source-layout-xcore.gradle
diff --git a/gradle/source-layout-xtext.gradle b/trainbenchmark/gradle/source-layout-xtext.gradle
similarity index 100%
rename from gradle/source-layout-xtext.gradle
rename to trainbenchmark/gradle/source-layout-xtext.gradle
diff --git a/gradle/wrapper/gradle-wrapper.jar b/trainbenchmark/gradle/wrapper/gradle-wrapper.jar
similarity index 100%
rename from gradle/wrapper/gradle-wrapper.jar
rename to trainbenchmark/gradle/wrapper/gradle-wrapper.jar
diff --git a/gradle/wrapper/gradle-wrapper.properties b/trainbenchmark/gradle/wrapper/gradle-wrapper.properties
similarity index 100%
rename from gradle/wrapper/gradle-wrapper.properties
rename to trainbenchmark/gradle/wrapper/gradle-wrapper.properties
diff --git a/gradlew b/trainbenchmark/gradlew
similarity index 100%
rename from gradlew
rename to trainbenchmark/gradlew
diff --git a/gradlew.bat b/trainbenchmark/gradlew.bat
similarity index 100%
rename from gradlew.bat
rename to trainbenchmark/gradlew.bat
diff --git a/logs/.gitignore b/trainbenchmark/logs/.gitignore
similarity index 100%
rename from logs/.gitignore
rename to trainbenchmark/logs/.gitignore
diff --git a/logs/README.md b/trainbenchmark/logs/README.md
similarity index 100%
rename from logs/README.md
rename to trainbenchmark/logs/README.md
diff --git a/models/.gitignore b/trainbenchmark/models/.gitignore
similarity index 100%
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