Utils: javadocs

and some more

.github/workflows/server.yml

@@ -20,26 +20,21 @@ jobs:
     steps:
       - name: Checkout
         uses: actions/checkout@v4
+        with:
+          submodules: "recursive"
 
       - name: Install sudo for ACT
         run: apt-get update && apt-get install -y sudo
         if: env.ACT=='true'
 
-      - name: Install fuse and maven
-        run: sudo apt-get update && sudo apt-get install -y libfuse2
+      - name: Install FUSE
+        run: sudo apt-get update && sudo apt-get install -y libfuse2 libfuse3-dev libfuse3-3 fuse3
 
-      - name: Download maven
-        run: |
-          cd "$HOME"
-          mkdir maven-bin
-          curl -s -L https://dlcdn.apache.org/maven/maven-3/3.9.9/binaries/apache-maven-3.9.9-bin.tar.gz | tar xvz --strip-components=1 -C maven-bin
-          echo "$HOME"/maven-bin/bin >> $GITHUB_PATH
+      - name: User allow other for fuse
+        run: echo "user_allow_other" | sudo tee -a /etc/fuse.conf
 
-      - name: Maven info
-        run: |
-          echo $GITHUB_PATH
-          echo $PATH
-          mvn -v
+      - name: Dump fuse.conf
+        run: cat /etc/fuse.conf
 
       - name: Set up JDK 21
         uses: actions/setup-java@v4
@@ -48,8 +43,11 @@ jobs:
           distribution: "zulu"
           cache: maven
 
+      - name: Build LazyFS
+        run: cd thirdparty/lazyfs/ && ./build.sh
+
       - name: Test with Maven
-        run: cd dhfs-parent && mvn -T $(nproc) --batch-mode --update-snapshots package verify
+        run: cd dhfs-parent && mvn -T $(nproc) --batch-mode --update-snapshots package verify javadoc:aggregate
 
       # - name: Build with Maven
       #   run: cd dhfs-parent && mvn --batch-mode --update-snapshots package # -Dquarkus.log.category.\"com.usatiuk.dhfs\".min-level=DEBUG
@@ -57,7 +55,12 @@ jobs:
       - uses: actions/upload-artifact@v4
         with:
           name: DHFS Server Package
-          path: dhfs-parent/server/target/quarkus-app
+          path: dhfs-parent/dhfs-fuse/target/quarkus-app
+
+      - uses: actions/upload-artifact@v4
+        with:
+          name: DHFS Javadocs
+          path: dhfs-parent/target/reports/apidocs/
 
       - uses: actions/upload-artifact@v4
         if: ${{ always() }}
@@ -89,102 +92,6 @@ jobs:
           name: Webui
           path: webui/dist
 
-  build-native-libs:
-    strategy:
-      matrix:
-        include:
-          - os: ubuntu-latest
-            cross: "linux/amd64"
-          - os: ubuntu-latest
-            cross: "linux/arm64"
-          - os: macos-latest
-
-    runs-on: ${{ matrix.os }}
-    env:
-      DO_LOCAL_BUILD: ${{ matrix.os == 'macos-latest' }}
-      DOCKER_PLATFORM: ${{ matrix.cross || 'NATIVE' }}
-
-    steps:
-      - name: Checkout
-        uses: actions/checkout@v4
-
-      - name: Set SANITIZED_DOCKER_PLATFORM
-        run: echo "SANITIZED_DOCKER_PLATFORM=$(echo $DOCKER_PLATFORM | tr / _ )" >> $GITHUB_ENV
-
-      - name: Set DOCKER_BUILDER_IMAGE
-        run: echo "DOCKER_BUILDER_IMAGE=dhfs_lib_builder-${{matrix.os}}-$SANITIZED_DOCKER_PLATFORM" >> $GITHUB_ENV
-
-      - name: Build config
-        run: |
-          echo DO_LOCAL_BUILD: $DO_LOCAL_BUILD
-          echo DOCKER_PLATFORM: $DOCKER_PLATFORM
-          echo SANITIZED_DOCKER_PLATFORM: $SANITIZED_DOCKER_PLATFORM
-          echo DOCKER_BUILDER_IMAGE: $DOCKER_BUILDER_IMAGE
-
-      - name: Set up JDK 21
-        if: ${{ env.DO_LOCAL_BUILD == 'TRUE' }}
-        uses: actions/setup-java@v4
-        with:
-          java-version: "21"
-          distribution: "zulu"
-          cache: maven
-
-      - name: Set up Docker Buildx
-        if: ${{ env.DO_LOCAL_BUILD != 'TRUE' }}
-        uses: docker/setup-buildx-action@v3
-
-      - name: Set up QEMU
-        if: ${{ env.DO_LOCAL_BUILD != 'TRUE' }}
-        uses: docker/setup-qemu-action@v3
-
-      - name: Build Docker builder image
-        if: ${{ env.DO_LOCAL_BUILD != 'TRUE' }}
-        uses: docker/build-push-action@v5
-        with:
-          context: ./libdhfs_support/builder
-          file: ./libdhfs_support/builder/Dockerfile
-          push: false
-          platforms: ${{ env.DOCKER_PLATFORM }}
-          tags: ${{ env.DOCKER_BUILDER_IMAGE }}
-          cache-from: type=gha,scope=build-${{ env.DOCKER_BUILDER_IMAGE }}
-          cache-to: type=gha,mode=max,scope=build-${{ env.DOCKER_BUILDER_IMAGE }}
-          load: true
-
-      - name: Build the library
-        run: |
-          CMAKE_ARGS="-DCMAKE_BUILD_TYPE=Release" libdhfs_support/builder/cross-build.sh both build "$(pwd)/result"
-
-      - name: Upload build
-        uses: actions/upload-artifact@v4
-        with:
-          name: NativeLib-${{ matrix.os }}-${{ env.SANITIZED_DOCKER_PLATFORM }}
-          path: result
-
-  merge-native-libs:
-    runs-on: ubuntu-latest
-    needs: [build-native-libs]
-    steps:
-      - name: Checkout
-        uses: actions/checkout@v4
-
-      - name: Download artifacts
-        uses: actions/download-artifact@v4
-        with:
-          path: downloaded-libs
-
-      - name: Merge all
-        run: rsync -av downloaded-libs/NativeLib*/* result/
-
-      - name: Check that libs exists
-        run: |
-          test -f "result/Linux-x86_64/libdhfs_support.so" || exit 1
-
-      - name: Upload
-        uses: actions/upload-artifact@v4
-        with:
-          name: NativeLibs
-          path: result
-
   publish-docker:
     runs-on: ubuntu-latest
     permissions:
@@ -194,7 +101,7 @@ jobs:
       # with sigstore/fulcio when running outside of PRs.
       id-token: write
 
-    needs: [build-webui, merge-native-libs, build-dhfs]
+    needs: [build-webui, build-dhfs]
 
     steps:
       - name: Checkout repository
@@ -212,12 +119,6 @@ jobs:
           name: Webui
           path: webui-dist-downloaded
 
-      - name: Download native libs
-        uses: actions/download-artifact@v4
-        with:
-          name: NativeLibs
-          path: dhfs-native-downloaded
-
       - name: Show all the files
         run: find .
 
@@ -293,7 +194,7 @@ jobs:
       # with sigstore/fulcio when running outside of PRs.
       id-token: write
 
-    needs: [build-webui, merge-native-libs, build-dhfs]
+    needs: [build-webui, build-dhfs]
 
     steps:
       - name: Checkout repository
@@ -309,11 +210,6 @@ jobs:
           name: Webui
           path: webui-dist-downloaded
 
-      - uses: actions/download-artifact@v4
-        with:
-          name: NativeLibs
-          path: dhfs-native-downloaded
-
       - name: Show all the files
         run: find .
 
@@ -321,14 +217,11 @@ jobs:
         run: mkdir -p run-wrapper-out/dhfs/data && mkdir -p run-wrapper-out/dhfs/fuse && mkdir -p run-wrapper-out/dhfs/app
 
       - name: Copy DHFS
-        run: cp -r ./dhfs-package-downloaded "run-wrapper-out/dhfs/app/DHFS Package"
+        run: cp -r ./dhfs-package-downloaded "run-wrapper-out/dhfs/app/Server"
 
       - name: Copy Webui
         run: cp -r ./webui-dist-downloaded "run-wrapper-out/dhfs/app/Webui"
 
-      - name: Copy Webui
-        run: cp -r ./dhfs-native-downloaded "run-wrapper-out/dhfs/app/NativeLibs"
-
       - name: Copy run wrapper
         run: cp -r ./run-wrapper/* "run-wrapper-out/dhfs/app/"
 
@@ -343,3 +236,37 @@ jobs:
         with:
           name: Run wrapper
           path: ~/run-wrapper.tar.gz
+
+  publish-javadoc:
+    environment:
+      name: github-pages
+      url: ${{ steps.deployment.outputs.page_url }}
+    runs-on: ubuntu-latest
+    permissions:
+      contents: read
+      pages: write
+      id-token: write
+
+    needs: [build-webui, build-dhfs]
+
+    steps:
+      - name: Checkout repository
+        uses: actions/checkout@v4
+
+      - uses: actions/download-artifact@v4
+        with:
+          name: DHFS Javadocs
+          path: dhfs-javadocs-downloaded
+
+      - name: Setup Pages
+        uses: actions/configure-pages@v5
+      - name: Upload artifact
+        uses: actions/upload-pages-artifact@v3
+        with:
+          # Upload entire repository
+          path: 'dhfs-javadocs-downloaded'
+      - name: Deploy to GitHub Pages
+        id: deployment
+        uses: actions/deploy-pages@v4
+
+

.gitmodules

@@ -0,0 +1,3 @@
+[submodule "thirdparty/lazyfs/lazyfs"]
+	path = thirdparty/lazyfs/lazyfs
+	url = git@github.com:dsrhaslab/lazyfs.git

Dockerfile.ci

@@ -9,8 +9,6 @@ COPY ./dhfs-package-downloaded/*.jar .
 COPY ./dhfs-package-downloaded/app .
 COPY ./dhfs-package-downloaded/quarkus .
 
-WORKDIR /usr/src/app/native-libs
-COPY ./dhfs-native-downloaded/. .
 WORKDIR /usr/src/app/webui
 COPY ./webui-dist-downloaded/. .
 

README.md

@@ -14,6 +14,9 @@ Syncthing and allowing you to stream your files like Google Drive File Stream
 This is a simple wrapper around the jar/web ui distribution that allows you to run/stop
 the DHFS server in the background, and update itself (hopefully!)
 
-## How to use it and how it works?
+## How to use it?
 
-TODO 😁
+
+Unpack the run-wrapper and run the `run` script. The filesystem should be mounted to the `fuse` folder in the run-wrapper root directory.
+
+Then, a web interface will be available at `losthost:8080`, that can be used to connect with other peers.

dhfs-parent/.gitignore

@@ -41,3 +41,5 @@ nb-configuration.xml
 
 # Plugin directory
 /.quarkus/cli/plugins/
+
+.jqwik-database

dhfs-parent/.run/Main 2.run.xml

@@ -1,17 +1,16 @@
 <component name="ProjectRunConfigurationManager">
-    <configuration default="false" name="Main 2" type="QsApplicationConfigurationType" factoryName="QuarkusApplication">
-        <option name="MAIN_CLASS_NAME" value="com.usatiuk.dhfs.Main"/>
-        <module name="server"/>
-        <option name="VM_PARAMETERS"
-                value="-XX:+UnlockDiagnosticVMOptions -XX:+DebugNonSafepoints --add-exports java.base/sun.nio.ch=ALL-UNNAMED --add-opens=java.base/java.nio=ALL-UNNAMED --add-exports java.base/jdk.internal.access=ALL-UNNAMED -ea -Dcom.usatiuk.dhfs.supportlib.native-path=$ProjectFileDir$/target/classes/native -Xmx2G -Ddhfs.webui.root=$ProjectFileDir$/../webui/dist -Ddhfs.fuse.root=${HOME}/dhfs_test/2/fuse -Ddhfs.objects.persistence.files.root=${HOME}/dhfs_test/2/data -Ddhfs.objects.persistence.stuff.root=${HOME}/dhfs_test/2/data/stuff -Ddhfs.objects.peerdiscovery.broadcast=false -Dquarkus.http.port=9020 -Dquarkus.http.ssl-port=9021 -Ddhfs.peerdiscovery.preset-uuid=22000000-0000-0000-0000-000000000000 -Ddhfs.peerdiscovery.static-peers=11000000-0000-0000-0000-000000000000:127.0.0.1:9010:9011"/>
-        <extension name="coverage">
-            <pattern>
-                <option name="PATTERN" value="com.usatiuk.dhfs.*"/>
-                <option name="ENABLED" value="true"/>
-            </pattern>
-        </extension>
-        <method v="2">
-            <option name="Make" enabled="true"/>
-        </method>
-    </configuration>
+  <configuration default="false" name="Main 2" type="QsApplicationConfigurationType" factoryName="QuarkusApplication">
+    <option name="MAIN_CLASS_NAME" value="com.usatiuk.dhfsfuse.Main" />
+    <module name="dhfs-fuse" />
+    <option name="VM_PARAMETERS" value="-XX:+UnlockDiagnosticVMOptions -XX:+UseParallelGC -XX:+DebugNonSafepoints --enable-preview --add-exports java.base/sun.nio.ch=ALL-UNNAMED --add-opens=java.base/java.nio=ALL-UNNAMED --add-exports java.base/jdk.internal.access=ALL-UNNAMED -ea -Xmx512M -Ddhfs.webui.root=$ProjectFileDir$/../webui/dist -Ddhfs.fuse.root=${HOME}/dhfs_test/2/fuse -Ddhfs.objects.persistence.files.root=${HOME}/dhfs_test/2/data -Ddhfs.objects.persistence.stuff.root=${HOME}/dhfs_test/2/data/stuff -Ddhfs.objects.peerdiscovery.broadcast=false -Dquarkus.http.port=9020 -Dquarkus.http.ssl-port=9021 -Ddhfs.peerdiscovery.preset-uuid=22000000-0000-0000-0000-000000000000 -Ddhfs.peerdiscovery.static-peers=11000000-0000-0000-0000-000000000000:127.0.0.1:9010:9011" />
+    <extension name="coverage">
+      <pattern>
+        <option name="PATTERN" value="com.usatiuk.dhfs.remoteobj.*" />
+        <option name="ENABLED" value="true" />
+      </pattern>
+    </extension>
+    <method v="2">
+      <option name="Make" enabled="true" />
+    </method>
+  </configuration>
 </component>

dhfs-parent/.run/Main.run.xml

@@ -1,18 +1,16 @@
 <component name="ProjectRunConfigurationManager">
-    <configuration default="false" name="Main" type="QsApplicationConfigurationType" factoryName="QuarkusApplication"
-                   nameIsGenerated="true">
-        <option name="MAIN_CLASS_NAME" value="com.usatiuk.dhfs.Main"/>
-        <module name="server"/>
-        <option name="VM_PARAMETERS"
-                value="-XX:+UnlockDiagnosticVMOptions -XX:+DebugNonSafepoints --add-exports java.base/sun.nio.ch=ALL-UNNAMED --add-opens=java.base/java.nio=ALL-UNNAMED --add-exports java.base/jdk.internal.access=ALL-UNNAMED -ea -Dcom.usatiuk.dhfs.supportlib.native-path=$ProjectFileDir$/target/classes/native -Xmx2G -Ddhfs.webui.root=$ProjectFileDir$/../webui/dist -Ddhfs.fuse.root=${HOME}/dhfs_test/1/fuse -Ddhfs.objects.persistence.files.root=${HOME}/dhfs_test/1/data -Ddhfs.objects.persistence.stuff.root=${HOME}/dhfs_test/1/data/stuff -Ddhfs.objects.peerdiscovery.broadcast=false -Dquarkus.http.port=9010 -Dquarkus.http.ssl-port=9011 -Ddhfs.peerdiscovery.preset-uuid=11000000-0000-0000-0000-000000000000 -Ddhfs.peerdiscovery.static-peers=22000000-0000-0000-0000-000000000000:127.0.0.1:9020:9021"/>
-        <extension name="coverage">
-            <pattern>
-                <option name="PATTERN" value="com.usatiuk.dhfs.*"/>
-                <option name="ENABLED" value="true"/>
-            </pattern>
-        </extension>
-        <method v="2">
-            <option name="Make" enabled="true"/>
-        </method>
-    </configuration>
+  <configuration default="false" name="Main" type="QsApplicationConfigurationType" factoryName="QuarkusApplication" nameIsGenerated="true">
+    <option name="MAIN_CLASS_NAME" value="com.usatiuk.dhfsfuse.Main" />
+    <module name="dhfs-fuse" />
+    <option name="VM_PARAMETERS" value="-XX:+UnlockDiagnosticVMOptions -XX:+UseZGC -XX:+ZGenerational --enable-preview -XX:+DebugNonSafepoints --add-exports java.base/sun.nio.ch=ALL-UNNAMED --add-opens=java.base/java.nio=ALL-UNNAMED --add-exports java.base/jdk.internal.access=ALL-UNNAMED -ea -Xmx1G -Ddhfs.webui.root=$ProjectFileDir$/../webui/dist -Ddhfs.fuse.root=${HOME}/dhfs_test/1/fuse -Ddhfs.objects.persistence.files.root=${HOME}/dhfs_test/1/data -Ddhfs.objects.persistence.stuff.root=${HOME}/dhfs_test/1/data/stuff -Ddhfs.objects.peerdiscovery.broadcast=true -Dquarkus.http.port=9010 -Dquarkus.http.ssl-port=9011 -Ddhfs.peerdiscovery.preset-uuid=11000000-0000-0000-0000-000000000000 -Ddhfs.peerdiscovery.static-peers=22000000-0000-0000-0000-000000000000:127.0.0.1:9020:9021 -Dquarkus.http.host=0.0.0.0" />
+    <extension name="coverage">
+      <pattern>
+        <option name="PATTERN" value="com.usatiuk.dhfs.remoteobj.*" />
+        <option name="ENABLED" value="true" />
+      </pattern>
+    </extension>
+    <method v="2">
+      <option name="Make" enabled="true" />
+    </method>
+  </configuration>
 </component>

dhfs-parent/autoprotomap/deployment/pom.xml

@@ -1,60 +0,0 @@
-<?xml version="1.0" encoding="UTF-8"?>
-<project xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xmlns="http://maven.apache.org/POM/4.0.0"
-         xsi:schemaLocation="http://maven.apache.org/POM/4.0.0 https://maven.apache.org/xsd/maven-4.0.0.xsd">
-    <modelVersion>4.0.0</modelVersion>
-
-    <parent>
-        <groupId>com.usatiuk</groupId>
-        <artifactId>autoprotomap-parent</artifactId>
-        <version>1.0-SNAPSHOT</version>
-    </parent>
-    <artifactId>autoprotomap-deployment</artifactId>
-    <name>Autoprotomap - Deployment</name>
-
-    <dependencies>
-        <dependency>
-            <groupId>io.quarkus</groupId>
-            <artifactId>quarkus-arc-deployment</artifactId>
-        </dependency>
-        <dependency>
-            <groupId>com.usatiuk</groupId>
-            <artifactId>autoprotomap</artifactId>
-            <version>${project.version}</version>
-        </dependency>
-        <dependency>
-            <groupId>io.quarkus</groupId>
-            <artifactId>quarkus-junit5-internal</artifactId>
-            <scope>test</scope>
-        </dependency>
-        <dependency>
-            <groupId>io.quarkus</groupId>
-            <artifactId>quarkus-grpc-deployment</artifactId>
-        </dependency>
-        <dependency>
-            <groupId>org.apache.commons</groupId>
-            <artifactId>commons-collections4</artifactId>
-        </dependency>
-    </dependencies>
-
-    <build>
-        <plugins>
-            <plugin>
-                <artifactId>maven-compiler-plugin</artifactId>
-                <executions>
-                    <execution>
-                        <id>default-compile</id>
-                        <configuration>
-                            <annotationProcessorPaths>
-                                <path>
-                                    <groupId>io.quarkus</groupId>
-                                    <artifactId>quarkus-extension-processor</artifactId>
-                                    <version>${quarkus.platform.version}</version>
-                                </path>
-                            </annotationProcessorPaths>
-                        </configuration>
-                    </execution>
-                </executions>
-            </plugin>
-        </plugins>
-    </build>
-</project>

dhfs-parent/autoprotomap/deployment/src/main/java/com/usatiuk/autoprotomap/deployment/AutoprotomapProcessor.java

@@ -1,78 +0,0 @@
-package com.usatiuk.autoprotomap.deployment;
-
-import com.usatiuk.autoprotomap.runtime.ProtoMirror;
-import com.usatiuk.autoprotomap.runtime.ProtoSerializer;
-import io.quarkus.arc.deployment.GeneratedBeanBuildItem;
-import io.quarkus.arc.deployment.GeneratedBeanGizmoAdaptor;
-import io.quarkus.deployment.annotations.BuildProducer;
-import io.quarkus.deployment.annotations.BuildStep;
-import io.quarkus.deployment.builditem.ApplicationIndexBuildItem;
-import io.quarkus.gizmo.ClassCreator;
-import io.quarkus.gizmo.SignatureBuilder;
-import jakarta.inject.Singleton;
-import org.jboss.jandex.ClassType;
-import org.jboss.jandex.Type;
-
-class AutoprotomapProcessor {
-    @BuildStep
-    ProtoIndexBuildItem index(ApplicationIndexBuildItem jandex) {
-        var ret = new ProtoIndexBuildItem();
-        var annot = jandex.getIndex().getAnnotations(ProtoMirror.class);
-        for (var a : annot) {
-            var protoTarget = jandex.getIndex().getClassByName(((ClassType) a.value().value()).name());
-//            if (!messageImplementors.contains(protoTarget))
-//                throw new IllegalArgumentException("Expected " + protoTarget + " to be a proto message");
-            System.out.println("Found: " + a.name().toString() + " at " + protoTarget.name().toString() + " of " + a.target().asClass().name().toString());
-            ret.protoMsgToObj.put(protoTarget, a.target().asClass());
-        }
-        return ret;
-    }
-
-    @BuildStep
-    void generateProtoSerializer(ApplicationIndexBuildItem jandex,
-                                 ProtoIndexBuildItem protoIndex,
-                                 BuildProducer<GeneratedBeanBuildItem> generatedClasses) {
-        try {
-            for (var o : protoIndex.protoMsgToObj.entrySet()) {
-                System.out.println("Generating " + o.getKey().toString() + " -> " + o.getValue().toString());
-                var gizmoAdapter = new GeneratedBeanGizmoAdaptor(generatedClasses);
-
-                var msgType = io.quarkus.gizmo.Type.classType(o.getKey().name());
-                var objType = io.quarkus.gizmo.Type.classType(o.getValue().name());
-
-                var type = io.quarkus.gizmo.Type.ParameterizedType.parameterizedType(
-                        io.quarkus.gizmo.Type.classType(ProtoSerializer.class),
-                        msgType, objType);
-
-                var msgJType = Type.create(o.getKey().name(), Type.Kind.CLASS);
-                var objJType = Type.create(o.getValue().name(), Type.Kind.CLASS);
-
-                try (ClassCreator classCreator = ClassCreator.builder()
-                        .className("com.usatiuk.autoprotomap.generated.for" + o.getKey().simpleName())
-                        .signature(SignatureBuilder.forClass().addInterface(type))
-                        .classOutput(gizmoAdapter)
-                        .setFinal(true)
-                        .build()) {
-                    classCreator.addAnnotation(Singleton.class);
-
-                    var generator = new ProtoSerializerGenerator(
-                            jandex.getIndex(),
-                            protoIndex,
-                            classCreator,
-                            msgJType,
-                            objJType
-                    );
-
-                    generator.generate();
-                }
-            }
-        } catch (Throwable e) {
-            StringBuilder sb = new StringBuilder();
-            sb.append(e + "\n");
-            for (var el : e.getStackTrace()) {
-                sb.append(el.toString() + "\n");
-            }
-            System.out.println(sb);
-        }
-    }
-}

dhfs-parent/autoprotomap/deployment/src/main/java/com/usatiuk/autoprotomap/deployment/Constants.java

@@ -1,18 +0,0 @@
-package com.usatiuk.autoprotomap.deployment;
-
-public class Constants {
-    public static final String FIELD_PREFIX = "_";
-
-    public static String capitalize(String str) {
-        return str.substring(0, 1).toUpperCase() + str.substring(1);
-    }
-
-    public static String stripPrefix(String str, String prefix) {
-        if (str.startsWith(prefix)) {
-            return str.substring(prefix.length());
-        }
-        return str;
-    }
-
-
-}

dhfs-parent/autoprotomap/deployment/src/main/java/com/usatiuk/autoprotomap/deployment/Effect.java

@@ -1,6 +0,0 @@
-package com.usatiuk.autoprotomap.deployment;
-
-@FunctionalInterface
-public interface Effect {
-    void apply();
-}

dhfs-parent/autoprotomap/deployment/src/main/java/com/usatiuk/autoprotomap/deployment/ProtoIndexBuildItem.java

@@ -1,10 +0,0 @@
-package com.usatiuk.autoprotomap.deployment;
-
-import io.quarkus.builder.item.SimpleBuildItem;
-import org.apache.commons.collections4.BidiMap;
-import org.apache.commons.collections4.bidimap.DualHashBidiMap;
-import org.jboss.jandex.ClassInfo;
-
-public final class ProtoIndexBuildItem extends SimpleBuildItem {
-    BidiMap<ClassInfo, ClassInfo> protoMsgToObj = new DualHashBidiMap<>();
-}

dhfs-parent/autoprotomap/deployment/src/main/java/com/usatiuk/autoprotomap/deployment/ProtoSerializerGenerator.java

@@ -1,342 +0,0 @@
-package com.usatiuk.autoprotomap.deployment;
-
-import com.google.protobuf.ByteString;
-import com.google.protobuf.Message;
-import com.usatiuk.autoprotomap.runtime.ProtoSerializer;
-import io.quarkus.gizmo.*;
-import jakarta.inject.Inject;
-import org.apache.commons.lang3.tuple.Pair;
-import org.jboss.jandex.*;
-import org.jboss.jandex.Type;
-import org.objectweb.asm.Opcodes;
-
-import java.util.ArrayList;
-import java.util.HashSet;
-import java.util.Objects;
-import java.util.function.Consumer;
-import java.util.function.Function;
-import java.util.function.IntConsumer;
-import java.util.function.Supplier;
-import java.util.stream.Collectors;
-import java.util.stream.Stream;
-
-import static com.usatiuk.autoprotomap.deployment.Constants.*;
-
-public class ProtoSerializerGenerator {
-    private final Index index;
-    private final ProtoIndexBuildItem protoIndex;
-    private final ClassCreator classCreator;
-    private final HashSet<Pair<ClassInfo, ClassInfo>> externalSerializers = new HashSet<>();
-    private final Type topMessageType;
-    private final Type topObjectType;
-
-    public ProtoSerializerGenerator(Index index, ProtoIndexBuildItem protoIndex, ClassCreator classCreator, Type topMessageType, Type topObjectType) {
-        this.index = index;
-        this.protoIndex = protoIndex;
-        this.classCreator = classCreator;
-        this.topMessageType = topMessageType;
-        this.topObjectType = topObjectType;
-    }
-
-    private FieldDescriptor getOutsideSerializer(ClassInfo messageClass, ClassInfo objectClass) {
-        var name = messageClass.name().withoutPackagePrefix() + objectClass.name().withoutPackagePrefix() + "serializer";
-        var msgType = io.quarkus.gizmo.Type.classType(messageClass.name());
-        var objType = io.quarkus.gizmo.Type.classType(objectClass.name());
-        var type = io.quarkus.gizmo.Type.ParameterizedType.parameterizedType(
-                io.quarkus.gizmo.Type.classType(ProtoSerializer.class),
-                msgType, objType);
-        var sig = SignatureBuilder.forField().setType(type).build();
-        var fd = FieldDescriptor.of(classCreator.getClassName(), name, ProtoSerializer.class);
-        if (externalSerializers.add(Pair.of(messageClass, objectClass))) {
-            var fc = classCreator.getFieldCreator(fd);
-            fc.addAnnotation(Inject.class);
-            fc.setSignature(sig);
-            fc.setModifiers(Opcodes.ACC_PUBLIC);
-        }
-        return fd;
-    }
-
-    private void traverseHierarchy(Index index, ClassInfo klass, Consumer<ClassInfo> visitor) {
-        var cur = klass;
-        while (true) {
-            visitor.accept(cur);
-
-            var next = cur.superClassType().name();
-            if (next.equals(DotName.OBJECT_NAME) || next.equals(DotName.RECORD_NAME)) break;
-            cur = index.getClassByName(next);
-        }
-    }
-
-    private ArrayList<FieldInfo> findAllFields(Index index, ClassInfo klass) {
-        ArrayList<FieldInfo> ret = new ArrayList<>();
-        traverseHierarchy(index, klass, cur -> {
-            ret.addAll(cur.fields());
-        });
-        return ret;
-    }
-
-    private void generateBuilderUse(BytecodeCreator bytecodeCreator,
-                                    ResultHandle builder,
-                                    Type messageType, Type objectType,
-                                    ResultHandle object) {
-        var builderType = Type.create(DotName.createComponentized(messageType.name(), "Builder", true), Type.Kind.CLASS);
-
-        var objectClass = index.getClassByName(objectType.name().toString());
-
-        Function<String, String> getterGetter = objectClass.isRecord()
-                ? Function.identity()
-                : s -> "get" + capitalize(stripPrefix(s, FIELD_PREFIX));
-
-        for (var f : findAllFields(index, objectClass)) {
-            var consideredFieldName = stripPrefix(f.name(), FIELD_PREFIX);
-
-            Supplier<ResultHandle> get = () -> {
-                if ((f.flags() & Opcodes.ACC_PUBLIC) != 0)
-                    return bytecodeCreator.readInstanceField(f, object);
-                else {
-                    var fieldGetter = getterGetter.apply(f.name());
-                    return bytecodeCreator.invokeVirtualMethod(
-                            MethodDescriptor.ofMethod(objectType.toString(), fieldGetter, f.type().name().toString()), object);
-                }
-            };
-
-            Effect doSimpleCopy = () -> {
-                var setter = MethodDescriptor.ofMethod(builderType.name().toString(), "set" + capitalize(consideredFieldName),
-                        builderType.name().toString(), f.type().toString());
-
-                var val = get.get();
-                bytecodeCreator.invokeVirtualMethod(setter, builder, val);
-            };
-
-            switch (f.type().kind()) {
-                case CLASS -> {
-                    if (f.type().equals(Type.create(String.class)) || f.type().equals(Type.create(ByteString.class))) {
-                        doSimpleCopy.apply();
-                    } else {
-                        var builderGetter = "get" + capitalize(f.name()) + "Builder";
-                        var protoType = protoIndex.protoMsgToObj.inverseBidiMap().get(index.getClassByName(f.type().name()));
-                        var nestedBuilderType = Type.create(DotName.createComponentized(protoType.name(), "Builder", true), Type.Kind.CLASS);
-                        var nestedBuilder = bytecodeCreator.invokeVirtualMethod(
-                                MethodDescriptor.ofMethod(builderType.toString(), builderGetter, nestedBuilderType.name().toString()), builder);
-
-                        var val = get.get();
-
-                        generateBuilderUse(bytecodeCreator, nestedBuilder, Type.create(protoType.name(), Type.Kind.CLASS), f.type(), val);
-                    }
-                }
-                case PRIMITIVE -> {
-                    doSimpleCopy.apply();
-                }
-                case WILDCARD_TYPE -> throw new UnsupportedOperationException("Wildcards not supported yet");
-                case PARAMETERIZED_TYPE ->
-                        throw new UnsupportedOperationException("Parametrized types not supported yet");
-                case ARRAY -> throw new UnsupportedOperationException("Arrays not supported yet");
-                default -> throw new IllegalStateException("Unexpected type: " + f.type());
-            }
-        }
-    }
-
-    private ResultHandle generateConstructorUse(
-            BytecodeCreator bytecodeCreator,
-            ClassCreator classCreator,
-            Type messageType, Type objectType,
-            ResultHandle message
-    ) {
-        var constructor = findAllArgsConstructor(index, index.getClassByName(objectType.name()));
-        if (constructor == null) {
-            throw new IllegalStateException("No constructor found for type: " + objectType.name());
-        }
-        var argMap = new ResultHandle[constructor.parametersCount()];
-
-        for (int i = 0; i < argMap.length; i++) {
-            var type = constructor.parameterType(i);
-            var strippedName = stripPrefix(constructor.parameterName(i), FIELD_PREFIX);
-
-            IntConsumer doSimpleCopy = (arg) -> {
-                var call = MethodDescriptor.ofMethod(messageType.name().toString(), "get" + capitalize(strippedName),
-                        type.name().toString());
-                argMap[arg] = bytecodeCreator.invokeVirtualMethod(call, message);
-            };
-
-            switch (type.kind()) {
-                case CLASS -> {
-                    if (type.equals(Type.create(String.class)) || type.equals(Type.create(ByteString.class))) {
-                        doSimpleCopy.accept(i);
-                    } else {
-                        var nestedProtoType = protoIndex.protoMsgToObj.inverseBidiMap().get(index.getClassByName(type.name()));
-                        var call = MethodDescriptor.ofMethod(messageType.name().toString(), "get" + capitalize(strippedName),
-                                nestedProtoType.name().toString());
-                        var nested = bytecodeCreator.invokeVirtualMethod(call, message);
-                        argMap[i] = generateConstructorUse(bytecodeCreator, classCreator, Type.create(nestedProtoType.name(), Type.Kind.CLASS), type, nested);
-                    }
-                }
-                case PRIMITIVE -> {
-                    doSimpleCopy.accept(i);
-                }
-                case WILDCARD_TYPE -> throw new UnsupportedOperationException("Wildcards not supported yet");
-                case PARAMETERIZED_TYPE ->
-                        throw new UnsupportedOperationException("Parametrized types not supported yet");
-                case ARRAY -> throw new UnsupportedOperationException("Arrays not supported yet");
-                default -> throw new IllegalStateException("Unexpected type: " + type);
-            }
-        }
-
-        return bytecodeCreator.newInstance(constructor, argMap);
-    }
-
-    private MethodInfo findAllArgsConstructor(Index index, ClassInfo klass) {
-        ArrayList<FieldInfo> fields = findAllFields(index, klass);
-
-        var fieldCount = fields.size();
-        var fieldNames = fields.stream().map(f -> stripPrefix(f.name(), FIELD_PREFIX)).sorted().toList();
-        var fieldNameToType = fields.stream().collect(Collectors.toMap(f -> stripPrefix(f.name(), FIELD_PREFIX), FieldInfo::type));
-
-        for (var m : klass.constructors()) {
-            if (m.parametersCount() != fieldCount) continue;
-            var parameterNames = m.parameters().stream().map(n -> stripPrefix(n.name(), FIELD_PREFIX)).sorted().toList();
-            if (!Objects.equals(fieldNames, parameterNames)) continue;
-
-            for (var p : m.parameters()) {
-                if (!Objects.equals(fieldNameToType.get(stripPrefix(p.name(), FIELD_PREFIX)), p.type())) continue;
-            }
-
-            return m;
-        }
-
-        return null;
-    }
-
-    public void generateAbstract() {
-        var kids = Stream.concat(index.getAllKnownSubclasses(topObjectType.name()).stream(),
-                        index.getAllKnownImplementors(topObjectType.name()).stream())
-                .filter(k -> !k.isAbstract() && !k.isInterface()).toList();
-
-        try (MethodCreator method = classCreator.getMethodCreator("serialize",
-                Message.class, Object.class)) {
-
-            method.setModifiers(Opcodes.ACC_PUBLIC);
-
-            var builderType = Type.create(DotName.createComponentized(topMessageType.name(), "Builder", true), Type.Kind.CLASS);
-
-            var builder = method.invokeStaticMethod(MethodDescriptor.ofMethod(topMessageType.name().toString(), "newBuilder", builderType.name().toString()));
-
-            var arg = method.getMethodParam(0);
-
-            for (var nestedObjClass : kids) {
-                System.out.println("Generating " + nestedObjClass.name() + " serializer for " + topObjectType.name());
-                var nestedObjType = Type.create(nestedObjClass.name(), Type.Kind.CLASS);
-                var nestedMessageClass = protoIndex.protoMsgToObj.inverseBidiMap().get(nestedObjClass);
-                boolean doExternalCall = false;
-                if (nestedMessageClass == null) {
-                    var msgInfo = index.getClassByName(topMessageType.name());
-                    nestedMessageClass = index.getClassByName(msgInfo.method("get" + capitalize(nestedObjType.name().withoutPackagePrefix())).returnType().name());
-                    doExternalCall = true;
-                }
-                var nestedMessageType = Type.create(nestedMessageClass.name(), Type.Kind.CLASS);
-
-                var statement = method.ifTrue(method.instanceOf(arg, nestedObjClass.name().toString()));
-
-                try (var branch = statement.trueBranch()) {
-                    if (doExternalCall) {
-                        var externalSerializer = getOutsideSerializer(nestedMessageClass, nestedObjClass);
-                        var serializerLoaded = branch.readInstanceField(externalSerializer, branch.getThis());
-                        var serialized = branch.invokeInterfaceMethod(
-                                MethodDescriptor.ofMethod(ProtoSerializer.class,
-                                        "serialize", Message.class, Object.class),
-                                serializerLoaded, arg);
-                        branch.invokeVirtualMethod(MethodDescriptor.ofMethod(builderType.name().toString(),
-                                "set" + capitalize(nestedObjType.name().withoutPackagePrefix()),
-                                builderType.name().toString(), nestedMessageType.name().toString()), builder, serialized);
-                    } else {
-                        var nestedBuilderType = Type.create(DotName.createComponentized(nestedMessageType.name(), "Builder", true), Type.Kind.CLASS);
-                        var nestedBuilder = branch.invokeVirtualMethod(MethodDescriptor.ofMethod(builderType.name().toString(),
-                                "get" + capitalize(nestedObjType.name().withoutPackagePrefix()) + "Builder",
-                                nestedBuilderType.name().toString()), builder);
-                        generateBuilderUse(branch, nestedBuilder, nestedMessageType, nestedObjType, arg);
-                    }
-                    var result = branch.invokeVirtualMethod(MethodDescriptor.ofMethod(builderType.name().toString(), "build", topMessageType.name().toString()), builder);
-                    branch.returnValue(result);
-                }
-            }
-            method.throwException(IllegalArgumentException.class, "Unknown object type");
-        }
-
-        try (MethodCreator method = classCreator.getMethodCreator("deserialize",
-                Object.class, Message.class)) {
-            method.setModifiers(Opcodes.ACC_PUBLIC);
-            var arg = method.getMethodParam(0);
-
-            for (var nestedObjClass : kids) {
-                System.out.println("Generating " + nestedObjClass.name() + " deserializer for " + topObjectType.name());
-                var nestedObjType = Type.create(nestedObjClass.name(), Type.Kind.CLASS);
-
-                var nestedMessageClass = protoIndex.protoMsgToObj.inverseBidiMap().get(nestedObjClass);
-                boolean doExternalCall = false;
-                if (nestedMessageClass == null) {
-                    var msgInfo = index.getClassByName(topMessageType.name());
-                    nestedMessageClass = index.getClassByName(msgInfo.method("get" + capitalize(nestedObjType.name().withoutPackagePrefix())).returnType().name());
-                    doExternalCall = true;
-                }
-
-                var nestedMessageType = Type.create(nestedMessageClass.name(), Type.Kind.CLASS);
-
-                var typeCheck = method.invokeVirtualMethod(MethodDescriptor.ofMethod(topMessageType.name().toString(),
-                        "has" + capitalize(nestedObjType.name().withoutPackagePrefix()), boolean.class), arg);
-
-                var statement = method.ifTrue(typeCheck);
-
-                try (var branch = statement.trueBranch()) {
-                    var nestedMessage = branch.invokeVirtualMethod(MethodDescriptor.ofMethod(topMessageType.name().toString(),
-                            "get" + capitalize(nestedObjType.name().withoutPackagePrefix()), nestedMessageType.name().toString()), arg);
-                    if (doExternalCall) {
-                        var externalSerializer = getOutsideSerializer(nestedMessageClass, nestedObjClass);
-                        var serializerLoaded = branch.readInstanceField(externalSerializer, branch.getThis());
-                        branch.returnValue(branch.invokeInterfaceMethod(
-                                MethodDescriptor.ofMethod(ProtoSerializer.class,
-                                        "deserialize", Object.class, Message.class),
-                                serializerLoaded, nestedMessage));
-                    } else {
-                        branch.returnValue(generateConstructorUse(branch, classCreator, nestedMessageType, nestedObjType, nestedMessage));
-                    }
-                }
-            }
-            method.throwException(IllegalArgumentException.class, "Unknown object type");
-        }
-    }
-
-    public void generate() {
-        var objInfo = index.getClassByName(topObjectType.name());
-        if (objInfo.isAbstract() || objInfo.isInterface()) {
-            generateAbstract();
-            return;
-        }
-
-        try (MethodCreator method = classCreator.getMethodCreator("serialize",
-                Message.class, Object.class)) {
-
-            method.setModifiers(Opcodes.ACC_PUBLIC);
-
-            var builderType = Type.create(DotName.createComponentized(topMessageType.name(), "Builder", true), Type.Kind.CLASS);
-
-            var builder = method.invokeStaticMethod(MethodDescriptor.ofMethod(topMessageType.name().toString(), "newBuilder", builderType.name().toString()));
-
-            var arg = method.getMethodParam(0);
-
-            generateBuilderUse(method, builder, topMessageType, topObjectType, arg);
-
-            var result = method.invokeVirtualMethod(MethodDescriptor.ofMethod(builderType.name().toString(), "build", topMessageType.name().toString()), builder);
-
-            method.returnValue(result);
-        }
-
-        try (MethodCreator method = classCreator.getMethodCreator("deserialize",
-                Object.class, Message.class)) {
-            method.setModifiers(Opcodes.ACC_PUBLIC);
-
-            var arg = method.getMethodParam(0);
-
-            method.returnValue(generateConstructorUse(method, classCreator, topMessageType, topObjectType, arg));
-        }
-
-    }
-}

dhfs-parent/autoprotomap/deployment/src/test/java/com/usatiuk/autoprotomap/test/AutoprotomapDevModeTest.java

@@ -1,22 +0,0 @@
-package com.usatiuk.autoprotomap.test;
-
-import io.quarkus.test.QuarkusDevModeTest;
-import org.jboss.shrinkwrap.api.ShrinkWrap;
-import org.jboss.shrinkwrap.api.spec.JavaArchive;
-import org.junit.jupiter.api.Assertions;
-import org.junit.jupiter.api.Test;
-import org.junit.jupiter.api.extension.RegisterExtension;
-
-public class AutoprotomapDevModeTest {
-
-    // Start hot reload (DevMode) test with your extension loaded
-    @RegisterExtension
-    static final QuarkusDevModeTest devModeTest = new QuarkusDevModeTest()
-            .setArchiveProducer(() -> ShrinkWrap.create(JavaArchive.class));
-
-    @Test
-    public void writeYourOwnDevModeTest() {
-        // Write your dev mode tests here - see the testing extension guide https://quarkus.io/guides/writing-extensions#testing-hot-reload for more information
-        Assertions.assertTrue(true, "Add dev mode assertions to " + getClass().getName());
-    }
-}

dhfs-parent/autoprotomap/deployment/src/test/java/com/usatiuk/autoprotomap/test/AutoprotomapTest.java

@@ -1,22 +0,0 @@
-package com.usatiuk.autoprotomap.test;
-
-import io.quarkus.test.QuarkusUnitTest;
-import org.jboss.shrinkwrap.api.ShrinkWrap;
-import org.jboss.shrinkwrap.api.spec.JavaArchive;
-import org.junit.jupiter.api.Assertions;
-import org.junit.jupiter.api.Test;
-import org.junit.jupiter.api.extension.RegisterExtension;
-
-public class AutoprotomapTest {
-
-    // Start unit test with your extension loaded
-    @RegisterExtension
-    static final QuarkusUnitTest unitTest = new QuarkusUnitTest()
-            .setArchiveProducer(() -> ShrinkWrap.create(JavaArchive.class));
-
-    @Test
-    public void writeYourOwnUnitTest() {
-        // Write your unit tests here - see the testing extension guide https://quarkus.io/guides/writing-extensions#testing-extensions for more information
-        Assertions.assertTrue(true, "Add some assertions to " + getClass().getName());
-    }
-}

dhfs-parent/autoprotomap/integration-tests/pom.xml

@@ -1,107 +0,0 @@
-<?xml version="1.0" encoding="UTF-8"?>
-<project xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xmlns="http://maven.apache.org/POM/4.0.0"
-         xsi:schemaLocation="http://maven.apache.org/POM/4.0.0 https://maven.apache.org/xsd/maven-4.0.0.xsd">
-    <modelVersion>4.0.0</modelVersion>
-
-    <parent>
-        <groupId>com.usatiuk</groupId>
-        <artifactId>autoprotomap-parent</artifactId>
-        <version>1.0-SNAPSHOT</version>
-    </parent>
-
-    <artifactId>autoprotomap-integration-tests</artifactId>
-    <name>Autoprotomap - Integration Tests</name>
-
-    <properties>
-        <skipITs>true</skipITs>
-    </properties>
-
-    <dependencies>
-        <dependency>
-            <groupId>org.projectlombok</groupId>
-            <artifactId>lombok</artifactId>
-            <scope>provided</scope>
-        </dependency>
-        <dependency>
-            <groupId>com.usatiuk</groupId>
-            <artifactId>autoprotomap</artifactId>
-            <version>${project.version}</version>
-        </dependency>
-        <dependency>
-            <groupId>com.usatiuk</groupId>
-            <artifactId>autoprotomap-deployment</artifactId>
-            <version>${project.version}</version>
-        </dependency>
-        <dependency>
-            <groupId>io.quarkus</groupId>
-            <artifactId>quarkus-junit5</artifactId>
-            <scope>test</scope>
-        </dependency>
-        <dependency>
-            <groupId>io.quarkus</groupId>
-            <artifactId>quarkus-grpc</artifactId>
-        </dependency>
-    </dependencies>
-
-    <build>
-        <plugins>
-            <plugin>
-                <groupId>io.quarkus</groupId>
-                <artifactId>quarkus-maven-plugin</artifactId>
-                <executions>
-                    <execution>
-                        <goals>
-                            <goal>build</goal>
-                            <goal>generate-code</goal>
-                            <goal>generate-code-tests</goal>
-                        </goals>
-                    </execution>
-                </executions>
-            </plugin>
-            <plugin>
-                <artifactId>maven-failsafe-plugin</artifactId>
-                <executions>
-                    <execution>
-                        <goals>
-                            <goal>integration-test</goal>
-                            <goal>verify</goal>
-                        </goals>
-                    </execution>
-                </executions>
-                <configuration>
-                    <systemPropertyVariables>
-                        <native.image.path>${project.build.directory}/${project.build.finalName}-runner
-                        </native.image.path>
-                        <java.util.logging.manager>org.jboss.logmanager.LogManager</java.util.logging.manager>
-                        <maven.home>${maven.home}</maven.home>
-                    </systemPropertyVariables>
-                </configuration>
-            </plugin>
-        </plugins>
-    </build>
-
-    <profiles>
-        <profile>
-            <id>native</id>
-            <activation>
-                <property>
-                    <name>native</name>
-                </property>
-            </activation>
-            <build>
-                <plugins>
-                    <plugin>
-                        <artifactId>maven-surefire-plugin</artifactId>
-                        <configuration>
-                            <skipTests>${native.surefire.skip}</skipTests>
-                        </configuration>
-                    </plugin>
-                </plugins>
-            </build>
-            <properties>
-                <skipITs>false</skipITs>
-                <quarkus.native.enabled>true</quarkus.native.enabled>
-            </properties>
-        </profile>
-    </profiles>
-</project>

dhfs-parent/autoprotomap/integration-tests/src/main/java/com/usatiuk/autoprotomap/it/AbstractObject.java

@@ -1,7 +0,0 @@
-package com.usatiuk.autoprotomap.it;
-
-import com.usatiuk.autoprotomap.runtime.ProtoMirror;
-
-@ProtoMirror(AbstractProto.class)
-public abstract class AbstractObject {
-}

dhfs-parent/autoprotomap/integration-tests/src/main/java/com/usatiuk/autoprotomap/it/CustomObject.java

@@ -1,10 +0,0 @@
-package com.usatiuk.autoprotomap.it;
-
-import lombok.AllArgsConstructor;
-import lombok.Getter;
-
-@AllArgsConstructor
-@Getter
-public class CustomObject extends AbstractObject {
-    public int testNum = 0;
-}

dhfs-parent/autoprotomap/integration-tests/src/main/java/com/usatiuk/autoprotomap/it/CustomObjectSerializer.java

@@ -1,17 +0,0 @@
-package com.usatiuk.autoprotomap.it;
-
-import com.usatiuk.autoprotomap.runtime.ProtoSerializer;
-import jakarta.inject.Singleton;
-
-@Singleton
-public class CustomObjectSerializer implements ProtoSerializer<CustomObjectProto, CustomObject> {
-    @Override
-    public CustomObject deserialize(CustomObjectProto message) {
-        return new CustomObject(2);
-    }
-
-    @Override
-    public CustomObjectProto serialize(CustomObject object) {
-        return CustomObjectProto.newBuilder().setTest(1).build();
-    }
-}

dhfs-parent/autoprotomap/integration-tests/src/main/java/com/usatiuk/autoprotomap/it/InterfaceObject.java

@@ -1,8 +0,0 @@
-package com.usatiuk.autoprotomap.it;
-
-import com.usatiuk.autoprotomap.runtime.ProtoMirror;
-
-@ProtoMirror(InterfaceObjectProto.class)
-public interface InterfaceObject {
-    String key();
-}

dhfs-parent/autoprotomap/integration-tests/src/main/java/com/usatiuk/autoprotomap/it/NestedObject.java

@@ -1,15 +0,0 @@
-package com.usatiuk.autoprotomap.it;
-
-import com.google.protobuf.ByteString;
-import com.usatiuk.autoprotomap.runtime.ProtoMirror;
-import lombok.AllArgsConstructor;
-import lombok.Getter;
-
-@ProtoMirror(NestedObjectProto.class)
-@AllArgsConstructor
-@Getter
-public class NestedObject extends AbstractObject {
-    public SimpleObject object;
-    public String _nestedName;
-    public ByteString _nestedSomeBytes;
-}

dhfs-parent/autoprotomap/integration-tests/src/main/java/com/usatiuk/autoprotomap/it/RecordObject.java

@@ -1,7 +0,0 @@
-package com.usatiuk.autoprotomap.it;
-
-import com.usatiuk.autoprotomap.runtime.ProtoMirror;
-
-@ProtoMirror(RecordObjectProto.class)
-public record RecordObject(String key) implements InterfaceObject {
-}

dhfs-parent/autoprotomap/integration-tests/src/main/java/com/usatiuk/autoprotomap/it/RecordObject2.java

@@ -1,7 +0,0 @@
-package com.usatiuk.autoprotomap.it;
-
-import com.usatiuk.autoprotomap.runtime.ProtoMirror;
-
-@ProtoMirror(RecordObject2Proto.class)
-public record RecordObject2(String key, int value) implements InterfaceObject {
-}

dhfs-parent/autoprotomap/integration-tests/src/main/java/com/usatiuk/autoprotomap/it/SimpleObject.java

@@ -1,15 +0,0 @@
-package com.usatiuk.autoprotomap.it;
-
-import com.google.protobuf.ByteString;
-import com.usatiuk.autoprotomap.runtime.ProtoMirror;
-import lombok.AllArgsConstructor;
-import lombok.Getter;
-
-@ProtoMirror(SimpleObjectProto.class)
-@AllArgsConstructor
-@Getter
-public class SimpleObject extends AbstractObject {
-    public int numfield = 0;
-    private String name;
-    public ByteString someBytes;
-}

dhfs-parent/autoprotomap/integration-tests/src/main/proto/autoprotomap_test.proto

@@ -1,47 +0,0 @@
-syntax = "proto3";
-
-option java_multiple_files = true;
-option java_package = "com.usatiuk.autoprotomap.it";
-option java_outer_classname = "TestProto";
-
-package autoprotomap.test;
-
-message SimpleObjectProto {
-  int32 numfield = 1;
-  string name = 2;
-  bytes someBytes = 3;
-}
-
-message NestedObjectProto {
-  SimpleObjectProto object = 1;
-  string nestedName = 2;
-  bytes nestedSomeBytes = 3;
-}
-
-message CustomObjectProto {
-  int64 test = 1;
-}
-
-message AbstractProto {
-  oneof obj {
-    NestedObjectProto nestedObject = 1;
-    SimpleObjectProto simpleObject = 2;
-    CustomObjectProto customObject = 3;
-  }
-}
-
-message RecordObjectProto {
-  string key = 1;
-}
-
-message RecordObject2Proto {
-  string key = 1;
-  int32 value = 2;
-}
-
-message InterfaceObjectProto {
-  oneof obj {
-    RecordObjectProto recordObject = 1;
-    RecordObject2Proto recordObject2 = 2;
-  }
-}

dhfs-parent/autoprotomap/integration-tests/src/test/java/com/usatiuk/autoprotomap/it/AutoprotomapResourceIT.java

@@ -1,7 +0,0 @@
-package com.usatiuk.autoprotomap.it;
-
-import io.quarkus.test.junit.QuarkusIntegrationTest;
-
-@QuarkusIntegrationTest
-public class AutoprotomapResourceIT extends AutoprotomapResourceTest {
-}

dhfs-parent/autoprotomap/integration-tests/src/test/java/com/usatiuk/autoprotomap/it/AutoprotomapResourceTest.java

@@ -1,113 +0,0 @@
-package com.usatiuk.autoprotomap.it;
-
-import com.google.protobuf.ByteString;
-import com.usatiuk.autoprotomap.runtime.ProtoSerializer;
-import io.quarkus.test.junit.QuarkusTest;
-import jakarta.inject.Inject;
-import org.junit.jupiter.api.Assertions;
-import org.junit.jupiter.api.Test;
-
-
-@QuarkusTest
-public class AutoprotomapResourceTest {
-    @Inject
-    ProtoSerializer<SimpleObjectProto, SimpleObject> simpleProtoSerializer;
-    @Inject
-    ProtoSerializer<NestedObjectProto, NestedObject> nestedProtoSerializer;
-    @Inject
-    ProtoSerializer<AbstractProto, AbstractObject> abstractProtoSerializer;
-    @Inject
-    ProtoSerializer<InterfaceObjectProto, InterfaceObject> interfaceProtoSerializer;
-
-    @Test
-    public void testSimple() {
-        var ret = simpleProtoSerializer.serialize(new SimpleObject(1234, "simple test", ByteString.copyFrom(new byte[]{1, 2, 3})));
-        Assertions.assertEquals(1234, ret.getNumfield());
-        Assertions.assertEquals("simple test", ret.getName());
-        Assertions.assertEquals(ByteString.copyFrom(new byte[]{1, 2, 3}), ret.getSomeBytes());
-
-        var des = simpleProtoSerializer.deserialize(ret);
-        Assertions.assertEquals(1234, des.getNumfield());
-        Assertions.assertEquals("simple test", des.getName());
-        Assertions.assertEquals(ByteString.copyFrom(new byte[]{1, 2, 3}), des.getSomeBytes());
-    }
-
-    @Test
-    public void testNested() {
-        var ret = nestedProtoSerializer.serialize(
-                new NestedObject(
-                        new SimpleObject(333, "nested so", ByteString.copyFrom(new byte[]{1, 2, 3})),
-                        "nested obj", ByteString.copyFrom(new byte[]{4, 5, 6})));
-        Assertions.assertEquals(333, ret.getObject().getNumfield());
-        Assertions.assertEquals("nested so", ret.getObject().getName());
-        Assertions.assertEquals(ByteString.copyFrom(new byte[]{1, 2, 3}), ret.getObject().getSomeBytes());
-        Assertions.assertEquals("nested obj", ret.getNestedName());
-        Assertions.assertEquals(ByteString.copyFrom(new byte[]{4, 5, 6}), ret.getNestedSomeBytes());
-
-        var des = nestedProtoSerializer.deserialize(ret);
-        Assertions.assertEquals(333, des.object.numfield);
-        Assertions.assertEquals(333, des.getObject().getNumfield());
-        Assertions.assertEquals("nested so", des.getObject().getName());
-        Assertions.assertEquals(ByteString.copyFrom(new byte[]{1, 2, 3}), des.getObject().getSomeBytes());
-        Assertions.assertEquals("nested obj", des.get_nestedName());
-        Assertions.assertEquals(ByteString.copyFrom(new byte[]{4, 5, 6}), des.get_nestedSomeBytes());
-    }
-
-    @Test
-    public void testAbstractSimple() {
-        var ret = abstractProtoSerializer.serialize(new SimpleObject(1234, "simple test", ByteString.copyFrom(new byte[]{1, 2, 3})));
-        Assertions.assertEquals(1234, ret.getSimpleObject().getNumfield());
-        Assertions.assertEquals("simple test", ret.getSimpleObject().getName());
-        Assertions.assertEquals(ByteString.copyFrom(new byte[]{1, 2, 3}), ret.getSimpleObject().getSomeBytes());
-
-        var des = (SimpleObject) abstractProtoSerializer.deserialize(ret);
-        Assertions.assertEquals(1234, des.getNumfield());
-        Assertions.assertEquals("simple test", des.getName());
-        Assertions.assertEquals(ByteString.copyFrom(new byte[]{1, 2, 3}), des.getSomeBytes());
-    }
-
-    @Test
-    public void testAbstractCustom() {
-        var ret = abstractProtoSerializer.serialize(new CustomObject(1234));
-        Assertions.assertEquals(1, ret.getCustomObject().getTest());
-
-        var des = (CustomObject) abstractProtoSerializer.deserialize(ret);
-        Assertions.assertEquals(2, des.getTestNum());
-    }
-
-    @Test
-    public void testAbstractNested() {
-        var ret = abstractProtoSerializer.serialize(
-                new NestedObject(
-                        new SimpleObject(333, "nested so", ByteString.copyFrom(new byte[]{1, 2, 3})),
-                        "nested obj", ByteString.copyFrom(new byte[]{4, 5, 6})));
-        Assertions.assertEquals(333, ret.getNestedObject().getObject().getNumfield());
-        Assertions.assertEquals("nested so", ret.getNestedObject().getObject().getName());
-        Assertions.assertEquals(ByteString.copyFrom(new byte[]{1, 2, 3}), ret.getNestedObject().getObject().getSomeBytes());
-        Assertions.assertEquals("nested obj", ret.getNestedObject().getNestedName());
-        Assertions.assertEquals(ByteString.copyFrom(new byte[]{4, 5, 6}), ret.getNestedObject().getNestedSomeBytes());
-
-        var des = (NestedObject) abstractProtoSerializer.deserialize(ret);
-        Assertions.assertEquals(333, des.object.numfield);
-        Assertions.assertEquals(333, des.getObject().getNumfield());
-        Assertions.assertEquals("nested so", des.getObject().getName());
-        Assertions.assertEquals(ByteString.copyFrom(new byte[]{1, 2, 3}), des.getObject().getSomeBytes());
-        Assertions.assertEquals("nested obj", des.get_nestedName());
-        Assertions.assertEquals(ByteString.copyFrom(new byte[]{4, 5, 6}), des.get_nestedSomeBytes());
-    }
-
-    @Test
-    public void testInterface() {
-        var ret = interfaceProtoSerializer.serialize(new RecordObject("record test"));
-        Assertions.assertEquals("record test", ret.getRecordObject().getKey());
-        var des = (RecordObject) interfaceProtoSerializer.deserialize(ret);
-        Assertions.assertEquals("record test", des.key());
-
-        var ret2 = interfaceProtoSerializer.serialize(new RecordObject2("record test 2", 1234));
-        Assertions.assertEquals("record test 2", ret2.getRecordObject2().getKey());
-        Assertions.assertEquals(1234, ret2.getRecordObject2().getValue());
-        var des2 = (RecordObject2) interfaceProtoSerializer.deserialize(ret2);
-        Assertions.assertEquals("record test 2", des2.key());
-        Assertions.assertEquals(1234, des2.value());
-    }
-}

dhfs-parent/autoprotomap/pom.xml

@@ -1,24 +0,0 @@
-<?xml version="1.0" encoding="UTF-8"?>
-<project xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xmlns="http://maven.apache.org/POM/4.0.0"
-         xsi:schemaLocation="http://maven.apache.org/POM/4.0.0 https://maven.apache.org/xsd/maven-4.0.0.xsd">
-    <modelVersion>4.0.0</modelVersion>
-
-    <parent>
-        <groupId>com.usatiuk.dhfs</groupId>
-        <artifactId>parent</artifactId>
-        <version>1.0-SNAPSHOT</version>
-    </parent>
-
-    <groupId>com.usatiuk</groupId>
-    <artifactId>autoprotomap-parent</artifactId>
-    <version>1.0-SNAPSHOT</version>
-    <packaging>pom</packaging>
-    <name>Autoprotomap - Parent</name>
-
-    <modules>
-        <module>deployment</module>
-        <module>runtime</module>
-        <module>integration-tests</module>
-    </modules>
-
-</project>

dhfs-parent/autoprotomap/runtime/pom.xml

@@ -1,63 +0,0 @@
-<?xml version="1.0" encoding="UTF-8"?>
-<project xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xmlns="http://maven.apache.org/POM/4.0.0"
-         xsi:schemaLocation="http://maven.apache.org/POM/4.0.0 https://maven.apache.org/xsd/maven-4.0.0.xsd">
-    <modelVersion>4.0.0</modelVersion>
-
-    <parent>
-        <groupId>com.usatiuk</groupId>
-        <artifactId>autoprotomap-parent</artifactId>
-        <version>1.0-SNAPSHOT</version>
-    </parent>
-    <artifactId>autoprotomap</artifactId>
-    <name>Autoprotomap - Runtime</name>
-
-    <dependencies>
-        <dependency>
-            <groupId>io.quarkus</groupId>
-            <artifactId>quarkus-arc</artifactId>
-        </dependency>
-        <dependency>
-            <groupId>io.quarkus</groupId>
-            <artifactId>quarkus-grpc</artifactId>
-        </dependency>
-    </dependencies>
-
-    <build>
-        <plugins>
-            <plugin>
-                <groupId>io.quarkus</groupId>
-                <artifactId>quarkus-extension-maven-plugin</artifactId>
-                <version>${quarkus.platform.version}</version>
-                <executions>
-                    <execution>
-                        <phase>compile</phase>
-                        <goals>
-                            <goal>extension-descriptor</goal>
-                        </goals>
-                        <configuration>
-                            <deployment>${project.groupId}:${project.artifactId}-deployment:${project.version}
-                            </deployment>
-                        </configuration>
-                    </execution>
-                </executions>
-            </plugin>
-            <plugin>
-                <artifactId>maven-compiler-plugin</artifactId>
-                <executions>
-                    <execution>
-                        <id>default-compile</id>
-                        <configuration>
-                            <annotationProcessorPaths>
-                                <path>
-                                    <groupId>io.quarkus</groupId>
-                                    <artifactId>quarkus-extension-processor</artifactId>
-                                    <version>${quarkus.platform.version}</version>
-                                </path>
-                            </annotationProcessorPaths>
-                        </configuration>
-                    </execution>
-                </executions>
-            </plugin>
-        </plugins>
-    </build>
-</project>

dhfs-parent/autoprotomap/runtime/src/main/java/com/usatiuk/autoprotomap/runtime/ProtoMirror.java

@@ -1,12 +0,0 @@
-package com.usatiuk.autoprotomap.runtime;
-
-import java.lang.annotation.ElementType;
-import java.lang.annotation.Retention;
-import java.lang.annotation.RetentionPolicy;
-import java.lang.annotation.Target;
-
-@Retention(RetentionPolicy.CLASS)
-@Target(ElementType.TYPE)
-public @interface ProtoMirror {
-    Class<?> value() default Object.class;
-}

dhfs-parent/autoprotomap/runtime/src/main/resources/META-INF/quarkus-extension.yaml

@@ -1,9 +0,0 @@
-name: Autoprotomap
-#description: Do something useful.
-metadata:
-#  keywords:
-#    - autoprotomap
-#  guide: ... # To create and publish this guide, see https://github.com/quarkiverse/quarkiverse/wiki#documenting-your-extension
-#  categories:
-#    - "miscellaneous"
-#  status: "preview"

dhfs-parent/dhfs-fs/pom.xml

@@ -0,0 +1,164 @@
+<?xml version="1.0" encoding="UTF-8"?>
+<project xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xmlns="http://maven.apache.org/POM/4.0.0"
+         xsi:schemaLocation="http://maven.apache.org/POM/4.0.0 https://maven.apache.org/xsd/maven-4.0.0.xsd">
+    <modelVersion>4.0.0</modelVersion>
+    <groupId>com.usatiuk.dhfs</groupId>
+    <artifactId>dhfs-fs</artifactId>
+    <version>1.0-SNAPSHOT</version>
+
+    <parent>
+        <groupId>com.usatiuk.dhfs</groupId>
+        <artifactId>parent</artifactId>
+        <version>1.0-SNAPSHOT</version>
+    </parent>
+
+    <dependencies>
+        <dependency>
+            <groupId>org.testcontainers</groupId>
+            <artifactId>testcontainers</artifactId>
+            <scope>test</scope>
+        </dependency>
+        <dependency>
+            <groupId>org.awaitility</groupId>
+            <artifactId>awaitility</artifactId>
+            <scope>test</scope>
+        </dependency>
+        <dependency>
+            <groupId>org.bouncycastle</groupId>
+            <artifactId>bcprov-jdk18on</artifactId>
+        </dependency>
+        <dependency>
+            <groupId>org.bouncycastle</groupId>
+            <artifactId>bcpkix-jdk18on</artifactId>
+        </dependency>
+        <dependency>
+            <groupId>io.quarkus</groupId>
+            <artifactId>quarkus-security</artifactId>
+        </dependency>
+        <dependency>
+            <groupId>net.openhft</groupId>
+            <artifactId>zero-allocation-hashing</artifactId>
+        </dependency>
+        <dependency>
+            <groupId>io.quarkus</groupId>
+            <artifactId>quarkus-grpc</artifactId>
+        </dependency>
+        <dependency>
+            <groupId>io.quarkus</groupId>
+            <artifactId>quarkus-arc</artifactId>
+        </dependency>
+        <dependency>
+            <groupId>io.quarkus</groupId>
+            <artifactId>quarkus-rest</artifactId>
+        </dependency>
+        <dependency>
+            <groupId>io.quarkus</groupId>
+            <artifactId>quarkus-rest-client</artifactId>
+        </dependency>
+        <dependency>
+            <groupId>io.quarkus</groupId>
+            <artifactId>quarkus-rest-client-jsonb</artifactId>
+        </dependency>
+        <dependency>
+            <groupId>io.quarkus</groupId>
+            <artifactId>quarkus-rest-jsonb</artifactId>
+        </dependency>
+        <dependency>
+            <groupId>io.quarkus</groupId>
+            <artifactId>quarkus-scheduler</artifactId>
+        </dependency>
+        <dependency>
+            <groupId>io.quarkus</groupId>
+            <artifactId>quarkus-junit5</artifactId>
+            <scope>test</scope>
+        </dependency>
+        <dependency>
+            <groupId>org.apache.commons</groupId>
+            <artifactId>commons-lang3</artifactId>
+        </dependency>
+        <dependency>
+            <groupId>commons-io</groupId>
+            <artifactId>commons-io</artifactId>
+        </dependency>
+        <dependency>
+            <groupId>org.jboss.slf4j</groupId>
+            <artifactId>slf4j-jboss-logmanager</artifactId>
+            <scope>test</scope>
+        </dependency>
+        <dependency>
+            <groupId>commons-codec</groupId>
+            <artifactId>commons-codec</artifactId>
+        </dependency>
+        <dependency>
+            <groupId>org.apache.commons</groupId>
+            <artifactId>commons-collections4</artifactId>
+        </dependency>
+        <dependency>
+            <groupId>org.pcollections</groupId>
+            <artifactId>pcollections</artifactId>
+        </dependency>
+        <dependency>
+            <groupId>org.apache.commons</groupId>
+            <artifactId>commons-math3</artifactId>
+            <version>3.6.1</version>
+        </dependency>
+        <dependency>
+            <groupId>com.usatiuk.dhfs</groupId>
+            <artifactId>sync-base</artifactId>
+            <version>1.0-SNAPSHOT</version>
+        </dependency>
+    </dependencies>
+
+    <build>
+        <plugins>
+            <plugin>
+                <groupId>org.apache.maven.plugins</groupId>
+                <artifactId>maven-surefire-plugin</artifactId>
+                <configuration>
+                    <forkCount>1C</forkCount>
+                    <reuseForks>false</reuseForks>
+                    <parallel>classes</parallel>
+                    <systemPropertyVariables>
+                        <junit.jupiter.execution.parallel.enabled>
+                            false
+                        </junit.jupiter.execution.parallel.enabled>
+                    </systemPropertyVariables>
+                </configuration>
+            </plugin>
+            <plugin>
+                <groupId>org.apache.maven.plugins</groupId>
+                <artifactId>maven-failsafe-plugin</artifactId>
+                <configuration>
+                    <systemPropertyVariables>
+                        <junit.jupiter.execution.parallel.enabled>
+                            true
+                        </junit.jupiter.execution.parallel.enabled>
+                        <junit.jupiter.execution.parallel.mode.default>
+                            concurrent
+                        </junit.jupiter.execution.parallel.mode.default>
+                        <junit.jupiter.execution.parallel.config.dynamic.factor>
+                            0.5
+                        </junit.jupiter.execution.parallel.config.dynamic.factor>
+                        <junit.platform.output.capture.stdout>true</junit.platform.output.capture.stdout>
+                        <junit.platform.output.capture.stderr>true</junit.platform.output.capture.stderr>
+                    </systemPropertyVariables>
+                </configuration>
+            </plugin>
+            <plugin>
+                <groupId>${quarkus.platform.group-id}</groupId>
+                <artifactId>quarkus-maven-plugin</artifactId>
+                <version>${quarkus.platform.version}</version>
+                <extensions>true</extensions>
+                <executions>
+                    <execution>
+                        <id>quarkus-plugin</id>
+                        <goals>
+                            <goal>generate-code</goal>
+                            <goal>generate-code-tests</goal>
+                        </goals>
+                    </execution>
+                </executions>
+            </plugin>
+        </plugins>
+    </build>
+</project>

dhfs-parent/dhfs-fs/src/main/java/com/usatiuk/dhfsfs/objects/ChunkData.java

@@ -0,0 +1,18 @@
+package com.usatiuk.dhfsfs.objects;
+
+import com.google.protobuf.ByteString;
+import com.usatiuk.dhfs.remoteobj.JDataRemote;
+import com.usatiuk.dhfs.remoteobj.JDataRemoteDto;
+import com.usatiuk.objects.JObjectKey;
+
+/**
+ * ChunkData is a data structure that represents an immutable binary blob
+ * @param key unique key
+ * @param data binary data
+ */
+public record ChunkData(JObjectKey key, ByteString data) implements JDataRemote, JDataRemoteDto {
+    @Override
+    public int estimateSize() {
+        return data.size();
+    }
+}

dhfs-parent/dhfs-fs/src/main/java/com/usatiuk/dhfsfs/objects/File.java

@@ -1,14 +1,22 @@
-package com.usatiuk.dhfs.files.objects;
+package com.usatiuk.dhfsfs.objects;
 
-import com.usatiuk.dhfs.JDataRemote;
-import com.usatiuk.objects.JObjectKey;
 import com.usatiuk.dhfs.jmap.JMapHolder;
 import com.usatiuk.dhfs.jmap.JMapLongKey;
-import com.usatiuk.dhfs.repository.JDataRemoteDto;
+import com.usatiuk.dhfs.remoteobj.JDataRemote;
+import com.usatiuk.dhfs.remoteobj.JDataRemoteDto;
+import com.usatiuk.objects.JObjectKey;
 
 import java.util.Collection;
 import java.util.Set;
 
+/**
+ * File is a data structure that represents a file in the file system
+ * @param key unique key
+ * @param mode file mode
+ * @param cTime creation time
+ * @param mTime modification time
+ * @param symlink true if the file is a symlink, false otherwise
+ */
 public record File(JObjectKey key, long mode, long cTime, long mTime,
                    boolean symlink
 ) implements JDataRemote, JMapHolder<JMapLongKey> {
@@ -28,6 +36,10 @@ public record File(JObjectKey key, long mode, long cTime, long mTime,
         return new File(key, mode, cTime, mTime, symlink);
     }
 
+    public File withCurrentMTime() {
+        return new File(key, mode, cTime, System.currentTimeMillis(), symlink);
+    }
+
     @Override
     public Collection<JObjectKey> collectRefsTo() {
         return Set.of();

dhfs-parent/dhfs-fs/src/main/java/com/usatiuk/dhfsfs/objects/FileDto.java

@@ -0,0 +1,20 @@
+package com.usatiuk.dhfsfs.objects;
+
+import com.usatiuk.dhfs.remoteobj.JDataRemote;
+import com.usatiuk.dhfs.remoteobj.JDataRemoteDto;
+import com.usatiuk.objects.JObjectKey;
+import org.apache.commons.lang3.tuple.Pair;
+
+import java.util.List;
+
+/**
+ * FileDto is a data transfer object that contains a file and its chunks.
+ * @param file the file
+ * @param chunks the list of chunks, each represented as a pair of a long and a JObjectKey
+ */
+public record FileDto(File file, List<Pair<Long, JObjectKey>> chunks) implements JDataRemoteDto {
+    @Override
+    public Class<? extends JDataRemote> objClass() {
+        return File.class;
+    }
+}

dhfs-parent/dhfs-fs/src/main/java/com/usatiuk/dhfsfs/objects/FileDtoMapper.java

@@ -1,10 +1,13 @@
-package com.usatiuk.dhfs.files.objects;
+package com.usatiuk.dhfsfs.objects;
 
 import com.usatiuk.dhfs.jmap.JMapHelper;
-import com.usatiuk.dhfs.repository.syncmap.DtoMapper;
+import com.usatiuk.dhfs.syncmap.DtoMapper;
 import jakarta.enterprise.context.ApplicationScoped;
 import jakarta.inject.Inject;
 
+/**
+ * Maps a {@link File} object to a {@link FileDto} object and vice versa.
+ */
 @ApplicationScoped
 public class FileDtoMapper implements DtoMapper<File, FileDto> {
     @Inject

dhfs-parent/dhfs-fs/src/main/java/com/usatiuk/dhfsfs/objects/FileHelper.java

@@ -1,8 +1,8 @@
-package com.usatiuk.dhfs.files.objects;
+package com.usatiuk.dhfsfs.objects;
 
-import com.usatiuk.objects.JObjectKey;
 import com.usatiuk.dhfs.jmap.JMapHelper;
 import com.usatiuk.dhfs.jmap.JMapLongKey;
+import com.usatiuk.objects.JObjectKey;
 import jakarta.enterprise.context.ApplicationScoped;
 import jakarta.inject.Inject;
 import org.apache.commons.lang3.tuple.Pair;
@@ -10,11 +10,20 @@ import org.apache.commons.lang3.tuple.Pair;
 import java.util.ArrayList;
 import java.util.List;
 
+/**
+ * Helper class for working with files.
+ */
 @ApplicationScoped
 public class FileHelper {
     @Inject
     JMapHelper jMapHelper;
 
+    /**
+     * Get the chunks of a file.
+     * Transaction is expected to be already started.
+     * @param file the file to get chunks from
+     * @return a list of pairs of chunk offset and chunk key
+     */
     public List<Pair<Long, JObjectKey>> getChunks(File file) {
         ArrayList<Pair<Long, JObjectKey>> chunks = new ArrayList<>();
         try (var it = jMapHelper.getIterator(file)) {
@@ -26,6 +35,13 @@ public class FileHelper {
         return List.copyOf(chunks);
     }
 
+    /**
+     * Replace the chunks of a file.
+     * All previous chunks will be deleted.
+     * Transaction is expected to be already started.
+     * @param file the file to replace chunks in
+     * @param chunks the list of pairs of chunk offset and chunk key
+     */
     public void replaceChunks(File file, List<Pair<Long, JObjectKey>> chunks) {
         jMapHelper.deleteAll(file);
 

dhfs-parent/dhfs-fs/src/main/java/com/usatiuk/dhfsfs/objects/FileSyncHandler.java

@@ -1,20 +1,14 @@
-package com.usatiuk.dhfs.files.objects;
+package com.usatiuk.dhfsfs.objects;
 
-import com.usatiuk.dhfs.PeerId;
-import com.usatiuk.dhfs.RemoteObjectDataWrapper;
-import com.usatiuk.dhfs.RemoteObjectMeta;
-import com.usatiuk.dhfs.RemoteTransaction;
-import com.usatiuk.dhfs.files.service.DhfsFileService;
 import com.usatiuk.dhfs.jkleppmanntree.JKleppmannTreeManager;
-import com.usatiuk.dhfs.jkleppmanntree.structs.JKleppmannTreeNodeMetaFile;
 import com.usatiuk.dhfs.jmap.JMapHelper;
-import com.usatiuk.dhfs.repository.ObjSyncHandler;
-import com.usatiuk.dhfs.repository.PersistentPeerDataService;
-import com.usatiuk.dhfs.repository.SyncHelper;
-import com.usatiuk.objects.JObjectKey;
-import com.usatiuk.objects.transaction.LockingStrategy;
-import com.usatiuk.objects.transaction.Transaction;
+import com.usatiuk.dhfs.peersync.PeerId;
+import com.usatiuk.dhfs.peersync.PersistentPeerDataService;
+import com.usatiuk.dhfs.remoteobj.*;
+import com.usatiuk.dhfsfs.service.DhfsFileService;
 import com.usatiuk.kleppmanntree.AlreadyExistsException;
+import com.usatiuk.objects.JObjectKey;
+import com.usatiuk.objects.transaction.Transaction;
 import io.grpc.Status;
 import io.grpc.StatusRuntimeException;
 import io.quarkus.logging.Log;
@@ -29,6 +23,9 @@ import javax.annotation.Nullable;
 import java.util.List;
 import java.util.Objects;
 
+/**
+ * Handles synchronization of file objects.
+ */
 @ApplicationScoped
 public class FileSyncHandler implements ObjSyncHandler<File, FileDto> {
     @Inject
@@ -47,14 +44,18 @@ public class FileSyncHandler implements ObjSyncHandler<File, FileDto> {
     @Inject
     DhfsFileService fileService;
 
-    private JKleppmannTreeManager.JKleppmannTree getTreeW() {
-        return jKleppmannTreeManager.getTree(JObjectKey.of("fs"));
-    }
-
-    private JKleppmannTreeManager.JKleppmannTree getTreeR() {
-        return jKleppmannTreeManager.getTree(JObjectKey.of("fs"), LockingStrategy.OPTIMISTIC);
+    private JKleppmannTreeManager.JKleppmannTree getTree() {
+        return jKleppmannTreeManager.getTree(JObjectKey.of("fs")).orElseThrow();
     }
 
+    /**
+     * Resolve conflict between two file versions, update the file in storage and create a conflict file.
+     *
+     * @param from              the peer that sent the update
+     * @param key               the key of the file
+     * @param receivedChangelog the changelog of the received file
+     * @param receivedData      the received file data
+     */
     private void resolveConflict(PeerId from, JObjectKey key, PMap<PeerId, Long> receivedChangelog,
                                  @Nullable FileDto receivedData) {
         var oursCurMeta = curTx.get(RemoteObjectMeta.class, key).orElse(null);
@@ -136,12 +137,12 @@ public class FileSyncHandler implements ObjSyncHandler<File, FileDto> {
 
             do {
                 try {
-                    getTreeW().move(parent.getRight(),
+                    getTree().move(parent.getRight(),
                             new JKleppmannTreeNodeMetaFile(
                                     parent.getLeft() + ".fconflict." + persistentPeerDataService.getSelfUuid() + "." + otherHostname.toString() + "." + i,
                                     newFile.key()
                             ),
-                            getTreeW().getNewNodeId()
+                            getTree().getNewNodeId()
                     );
                 } catch (AlreadyExistsException aex) {
                     i++;

dhfs-parent/dhfs-fs/src/main/java/com/usatiuk/dhfsfs/objects/JKleppmannTreeNodeMetaDirectory.java

@@ -0,0 +1,22 @@
+package com.usatiuk.dhfsfs.objects;
+
+import com.usatiuk.dhfs.jkleppmanntree.structs.JKleppmannTreeNodeMeta;
+import com.usatiuk.objects.JObjectKey;
+
+import java.util.Collection;
+import java.util.List;
+
+/**
+ * JKleppmannTreeNodeMetaDirectory is a record that represents a directory in the JKleppmann tree.
+ * @param name the name of the directory
+ */
+public record JKleppmannTreeNodeMetaDirectory(String name) implements JKleppmannTreeNodeMeta {
+    public JKleppmannTreeNodeMeta withName(String name) {
+        return new JKleppmannTreeNodeMetaDirectory(name);
+    }
+
+    @Override
+    public Collection<JObjectKey> collectRefsTo() {
+        return List.of();
+    }
+}

dhfs-parent/dhfs-fs/src/main/java/com/usatiuk/dhfsfs/objects/JKleppmannTreeNodeMetaFile.java

@@ -0,0 +1,24 @@
+package com.usatiuk.dhfsfs.objects;
+
+import com.usatiuk.dhfs.jkleppmanntree.structs.JKleppmannTreeNodeMeta;
+import com.usatiuk.objects.JObjectKey;
+
+import java.util.Collection;
+import java.util.List;
+
+/**
+ * JKleppmannTreeNodeMetaFile is a record that represents a file in the JKleppmann tree.
+ * @param name the name of the file
+ * @param fileIno a reference to the `File` object
+ */
+public record JKleppmannTreeNodeMetaFile(String name, JObjectKey fileIno) implements JKleppmannTreeNodeMeta {
+    @Override
+    public JKleppmannTreeNodeMeta withName(String name) {
+        return new JKleppmannTreeNodeMetaFile(name, fileIno);
+    }
+
+    @Override
+    public Collection<JObjectKey> collectRefsTo() {
+        return List.of(fileIno);
+    }
+}

dhfs-parent/dhfs-fs/src/main/java/com/usatiuk/dhfsfs/service/DhfsFileService.java

@@ -1,28 +1,27 @@
-package com.usatiuk.dhfs.files.service;
+package com.usatiuk.dhfsfs.service;
 
 import com.google.protobuf.ByteString;
 import com.google.protobuf.UnsafeByteOperations;
-import com.usatiuk.dhfs.JDataRemote;
-import com.usatiuk.dhfs.RemoteObjectMeta;
-import com.usatiuk.dhfs.RemoteTransaction;
-import com.usatiuk.dhfs.files.objects.ChunkData;
-import com.usatiuk.dhfs.files.objects.File;
-import com.usatiuk.objects.JData;
-import com.usatiuk.objects.JObjectKey;
-import com.usatiuk.objects.JObjectKeyImpl;
-import com.usatiuk.objects.iterators.IteratorStart;
 import com.usatiuk.dhfs.jkleppmanntree.JKleppmannTreeManager;
 import com.usatiuk.dhfs.jkleppmanntree.structs.JKleppmannTreeNode;
+import com.usatiuk.dhfs.jkleppmanntree.structs.JKleppmannTreeNodeHolder;
 import com.usatiuk.dhfs.jkleppmanntree.structs.JKleppmannTreeNodeMeta;
-import com.usatiuk.dhfs.jkleppmanntree.structs.JKleppmannTreeNodeMetaDirectory;
-import com.usatiuk.dhfs.jkleppmanntree.structs.JKleppmannTreeNodeMetaFile;
 import com.usatiuk.dhfs.jmap.JMapEntry;
 import com.usatiuk.dhfs.jmap.JMapHelper;
 import com.usatiuk.dhfs.jmap.JMapLongKey;
-import com.usatiuk.objects.transaction.LockingStrategy;
+import com.usatiuk.dhfs.remoteobj.JDataRemote;
+import com.usatiuk.dhfs.remoteobj.RemoteObjectMeta;
+import com.usatiuk.dhfs.remoteobj.RemoteTransaction;
+import com.usatiuk.dhfsfs.objects.ChunkData;
+import com.usatiuk.dhfsfs.objects.File;
+import com.usatiuk.dhfsfs.objects.JKleppmannTreeNodeMetaDirectory;
+import com.usatiuk.dhfsfs.objects.JKleppmannTreeNodeMetaFile;
+import com.usatiuk.objects.JData;
+import com.usatiuk.objects.JObjectKey;
+import com.usatiuk.objects.iterators.IteratorStart;
 import com.usatiuk.objects.transaction.Transaction;
 import com.usatiuk.objects.transaction.TransactionManager;
-import com.usatiuk.dhfs.utils.StatusRuntimeExceptionNoStacktrace;
+import com.usatiuk.utils.StatusRuntimeExceptionNoStacktrace;
 import io.grpc.Status;
 import io.grpc.StatusRuntimeException;
 import io.quarkus.logging.Log;
@@ -34,94 +33,84 @@ import jakarta.inject.Inject;
 import org.apache.commons.lang3.tuple.Pair;
 import org.eclipse.microprofile.config.inject.ConfigProperty;
 
+import java.nio.ByteBuffer;
 import java.nio.charset.StandardCharsets;
 import java.nio.file.Path;
 import java.util.*;
 import java.util.stream.StreamSupport;
 
+/**
+ * Actual filesystem implementation.
+ */
 @ApplicationScoped
-public class DhfsFileServiceImpl implements DhfsFileService {
+public class DhfsFileService {
+    @ConfigProperty(name = "dhfs.files.target_chunk_alignment")
+    int targetChunkAlignment;
+    @ConfigProperty(name = "dhfs.files.target_chunk_size")
+    int targetChunkSize;
+    @ConfigProperty(name = "dhfs.files.max_chunk_size", defaultValue = "524288")
+    int maxChunkSize;
+    @ConfigProperty(name = "dhfs.files.use_hash_for_chunks")
+    boolean useHashForChunks;
+    @ConfigProperty(name = "dhfs.files.allow_recursive_delete")
+    boolean allowRecursiveDelete;
+    @ConfigProperty(name = "dhfs.objects.ref_verification")
+    boolean refVerification;
+    @ConfigProperty(name = "dhfs.objects.write_log")
+    boolean writeLogging;
+
     @Inject
     Transaction curTx;
     @Inject
     RemoteTransaction remoteTx;
     @Inject
     TransactionManager jObjectTxManager;
-
-    @ConfigProperty(name = "dhfs.files.target_chunk_size")
-    int targetChunkSize;
-
-    @ConfigProperty(name = "dhfs.files.write_merge_threshold")
-    float writeMergeThreshold;
-
-    @ConfigProperty(name = "dhfs.files.write_merge_max_chunk_to_take")
-    float writeMergeMaxChunkToTake;
-
-    @ConfigProperty(name = "dhfs.files.write_merge_limit")
-    float writeMergeLimit;
-
-    @ConfigProperty(name = "dhfs.files.write_last_chunk_limit")
-    float writeLastChunkLimit;
-
-    @ConfigProperty(name = "dhfs.files.use_hash_for_chunks")
-    boolean useHashForChunks;
-
-    @ConfigProperty(name = "dhfs.files.allow_recursive_delete")
-    boolean allowRecursiveDelete;
-
-    @ConfigProperty(name = "dhfs.objects.ref_verification")
-    boolean refVerification;
-
-    @ConfigProperty(name = "dhfs.objects.write_log")
-    boolean writeLogging;
-
     @Inject
     JKleppmannTreeManager jKleppmannTreeManager;
-
     @Inject
     JMapHelper jMapHelper;
 
-    private JKleppmannTreeManager.JKleppmannTree getTreeW() {
-        return jKleppmannTreeManager.getTree(JObjectKey.of("fs"));
-    }
-
-    private JKleppmannTreeManager.JKleppmannTree getTreeR() {
-        return jKleppmannTreeManager.getTree(JObjectKey.of("fs"), LockingStrategy.OPTIMISTIC);
+    private JKleppmannTreeManager.JKleppmannTree getTree() {
+        return jKleppmannTreeManager.getTree(JObjectKey.of("fs"), () -> new JKleppmannTreeNodeMetaDirectory(""));
     }
 
+    /**
+     * Create a new chunk with the given data and a new unique ID.
+     *
+     * @param bytes the data to store in the chunk
+     * @return the created chunk
+     */
     private ChunkData createChunk(ByteString bytes) {
         var newChunk = new ChunkData(JObjectKey.of(UUID.randomUUID().toString()), bytes);
-        remoteTx.putData(newChunk);
+        remoteTx.putDataNew(newChunk);
         return newChunk;
     }
 
     void init(@Observes @Priority(500) StartupEvent event) {
         Log.info("Initializing file service");
-        getTreeW();
+        getTree();
     }
 
-    private JKleppmannTreeNode getDirEntryW(String name) {
-        var res = getTreeW().traverse(StreamSupport.stream(Path.of(name).spliterator(), false).map(p -> p.toString()).toList());
+    private JKleppmannTreeNode getDirEntry(String name) {
+        var res = getTree().traverse(StreamSupport.stream(Path.of(name).spliterator(), false).map(p -> p.toString()).toList());
         if (res == null) throw new StatusRuntimeExceptionNoStacktrace(Status.NOT_FOUND);
-        var ret = curTx.get(JKleppmannTreeNode.class, res).orElseThrow(() -> new StatusRuntimeException(Status.NOT_FOUND.withDescription("Tree node exists but not found as jObject: " + name)));
-        return ret;
-    }
-
-    private JKleppmannTreeNode getDirEntryR(String name) {
-        var res = getTreeR().traverse(StreamSupport.stream(Path.of(name).spliterator(), false).map(p -> p.toString()).toList());
-        if (res == null) throw new StatusRuntimeExceptionNoStacktrace(Status.NOT_FOUND);
-        var ret = curTx.get(JKleppmannTreeNode.class, res).orElseThrow(() -> new StatusRuntimeException(Status.NOT_FOUND.withDescription("Tree node exists but not found as jObject: " + name)));
+        var ret = curTx.get(JKleppmannTreeNodeHolder.class, res).map(JKleppmannTreeNodeHolder::node).orElseThrow(() -> new StatusRuntimeException(Status.NOT_FOUND.withDescription("Tree node exists but not found as jObject: " + name)));
         return ret;
     }
 
     private Optional<JKleppmannTreeNode> getDirEntryOpt(String name) {
-        var res = getTreeW().traverse(StreamSupport.stream(Path.of(name).spliterator(), false).map(p -> p.toString()).toList());
+        var res = getTree().traverse(StreamSupport.stream(Path.of(name).spliterator(), false).map(p -> p.toString()).toList());
         if (res == null) return Optional.empty();
-        var ret = curTx.get(JKleppmannTreeNode.class, res);
+        var ret = curTx.get(JKleppmannTreeNodeHolder.class, res).map(JKleppmannTreeNodeHolder::node);
         return ret;
     }
 
-    @Override
+    /**
+     * Get the attributes of a file or directory.
+     *
+     * @param uuid the UUID of the file or directory
+     * @return the attributes of the file or directory
+     */
     public Optional<GetattrRes> getattr(JObjectKey uuid) {
         return jObjectTxManager.executeTx(() -> {
             var ref = curTx.get(JData.class, uuid).orElse(null);
@@ -134,7 +123,7 @@ public class DhfsFileServiceImpl implements DhfsFileService {
                 } else {
                     throw new StatusRuntimeException(Status.DATA_LOSS.withDescription("FsNode is not an FsNode: " + ref.key()));
                 }
-            } else if (ref instanceof JKleppmannTreeNode) {
+            } else if (ref instanceof JKleppmannTreeNodeHolder) {
                 ret = new GetattrRes(100, 100, 0700, GetattrType.DIRECTORY);
             } else {
                 throw new StatusRuntimeException(Status.DATA_LOSS.withDescription("FsNode is not an FsNode: " + ref.key()));
@@ -143,13 +132,18 @@ public class DhfsFileServiceImpl implements DhfsFileService {
         });
     }
 
-    @Override
+    /**
+     * Try to resolve a path to a file or directory.
+     *
+     * @param name the path to resolve
+     * @return the key of the file or directory, or an empty optional if it does not exist
+     */
     public Optional<JObjectKey> open(String name) {
         return jObjectTxManager.executeTx(() -> {
             try {
-                var ret = getDirEntryR(name);
+                var ret = getDirEntry(name);
                 return switch (ret.meta()) {
-                    case JKleppmannTreeNodeMetaFile f -> Optional.of(f.getFileIno());
+                    case JKleppmannTreeNodeMetaFile f -> Optional.of(f.fileIno());
                     case JKleppmannTreeNodeMetaDirectory f -> Optional.of(ret.key());
                     default -> Optional.empty();
                 };
@@ -167,11 +161,17 @@ public class DhfsFileServiceImpl implements DhfsFileService {
             throw new StatusRuntimeExceptionNoStacktrace(Status.INVALID_ARGUMENT.withDescription("Not a directory: " + entry.key()));
     }
 
-    @Override
+    /**
+     * Create a new file with the given name and mode.
+     *
+     * @param name the name of the file
+     * @param mode the mode of the file
+     * @return the key of the created file
+     */
     public Optional<JObjectKey> create(String name, long mode) {
         return jObjectTxManager.executeTx(() -> {
             Path path = Path.of(name);
-            var parent = getDirEntryW(path.getParent().toString());
+            var parent = getDirEntry(path.getParent().toString());
 
             ensureDir(parent);
 
@@ -183,7 +183,7 @@ public class DhfsFileServiceImpl implements DhfsFileService {
             remoteTx.putData(f);
 
             try {
-                getTreeW().move(parent.key(), new JKleppmannTreeNodeMetaFile(fname, f.key()), getTreeW().getNewNodeId());
+                getTree().move(parent.key(), new JKleppmannTreeNodeMetaFile(fname, f.key()), getTree().getNewNodeId());
             } catch (Exception e) {
 //                fobj.getMeta().removeRef(newNodeId);
                 throw e;
@@ -192,71 +192,101 @@ public class DhfsFileServiceImpl implements DhfsFileService {
         });
     }
 
-    //FIXME: Slow..
-    @Override
+    /**
+     * Get the parent directory of a file or directory.
+     *
+     * @param ino the key of the file or directory
+     * @return the parent directory
+     */
     public Pair<String, JObjectKey> inoToParent(JObjectKey ino) {
         return jObjectTxManager.executeTx(() -> {
-            return getTreeW().findParent(w -> {
+            // FIXME: Slow
+            return getTree().findParent(w -> {
                 if (w.meta() instanceof JKleppmannTreeNodeMetaFile f)
-                    return f.getFileIno().equals(ino);
+                    return f.fileIno().equals(ino);
                 return false;
             });
         });
     }
 
-    @Override
+    /**
+     * Create a new directory with the given name and mode.
+     *
+     * @param name the name of the directory
+     * @param mode the mode of the directory
+     */
     public void mkdir(String name, long mode) {
         jObjectTxManager.executeTx(() -> {
             Path path = Path.of(name);
-            var parent = getDirEntryW(path.getParent().toString());
+            var parent = getDirEntry(path.getParent().toString());
             ensureDir(parent);
 
             String dname = path.getFileName().toString();
 
             Log.debug("Creating directory " + name);
 
-            getTreeW().move(parent.key(), new JKleppmannTreeNodeMetaDirectory(dname), getTreeW().getNewNodeId());
+            // TODO: No modes for directories yet
+            getTree().move(parent.key(), new JKleppmannTreeNodeMetaDirectory(dname), getTree().getNewNodeId());
         });
     }
 
-    @Override
+    /**
+     * Unlink a file or directory.
+     *
+     * @param name the name of the file or directory
+     * @throws DirectoryNotEmptyException if the directory is not empty and recursive delete is not allowed
+     */
     public void unlink(String name) {
         jObjectTxManager.executeTx(() -> {
             var node = getDirEntryOpt(name).orElse(null);
+            if (node == null)
+                throw new StatusRuntimeException(Status.NOT_FOUND.withDescription("File not found when trying to unlink: " + name));
             if (node.meta() instanceof JKleppmannTreeNodeMetaDirectory f) {
                 if (!allowRecursiveDelete && !node.children().isEmpty())
                     throw new DirectoryNotEmptyException();
             }
-            getTreeW().trash(node.meta(), node.key());
+            getTree().trash(node.meta(), node.key());
         });
     }
 
-    @Override
+    /**
+     * Rename a file or directory.
+     *
+     * @param from the old name
+     * @param to   the new name
+     * @return true if the rename was successful, false otherwise
+     */
     public Boolean rename(String from, String to) {
         return jObjectTxManager.executeTx(() -> {
-            var node = getDirEntryW(from);
+            var node = getDirEntry(from);
             JKleppmannTreeNodeMeta meta = node.meta();
 
             var toPath = Path.of(to);
-            var toDentry = getDirEntryW(toPath.getParent().toString());
+            var toDentry = getDirEntry(toPath.getParent().toString());
             ensureDir(toDentry);
 
-            getTreeW().move(toDentry.key(), meta.withName(toPath.getFileName().toString()), node.key());
+            getTree().move(toDentry.key(), meta.withName(toPath.getFileName().toString()), node.key());
             return true;
         });
     }
 
-    @Override
+    /**
+     * Change the mode of a file or directory.
+     *
+     * @param uuid the ID of the file or directory
+     * @param mode the new mode
+     * @return true if the mode was changed successfully, false otherwise
+     */
     public Boolean chmod(JObjectKey uuid, long mode) {
         return jObjectTxManager.executeTx(() -> {
             var dent = curTx.get(JData.class, uuid).orElseThrow(() -> new StatusRuntimeExceptionNoStacktrace(Status.NOT_FOUND));
 
-            if (dent instanceof JKleppmannTreeNode) {
+            if (dent instanceof JKleppmannTreeNodeHolder) {
                 return true;
             } else if (dent instanceof RemoteObjectMeta) {
                 var remote = remoteTx.getData(JDataRemote.class, uuid).orElse(null);
                 if (remote instanceof File f) {
-                    remoteTx.putData(f.withMode(mode).withMTime(System.currentTimeMillis()));
+                    remoteTx.putData(f.withMode(mode).withCurrentMTime());
                     return true;
                 } else {
                     throw new IllegalArgumentException(uuid + " is not a file");
@@ -267,10 +297,15 @@ public class DhfsFileServiceImpl implements DhfsFileService {
         });
     }
 
-    @Override
+    /**
+     * Read the contents of a directory.
+     *
+     * @param name the path of the directory
+     * @return an iterable of the names of the files in the directory
+     */
     public Iterable<String> readDir(String name) {
         return jObjectTxManager.executeTx(() -> {
-            var found = getDirEntryW(name);
+            var found = getDirEntry(name);
 
             if (!(found.meta() instanceof JKleppmannTreeNodeMetaDirectory md))
                 throw new StatusRuntimeException(Status.INVALID_ARGUMENT);
@@ -279,8 +314,15 @@ public class DhfsFileServiceImpl implements DhfsFileService {
         });
     }
 
-    @Override
-    public Optional<ByteString> read(JObjectKey fileUuid, long offset, int length) {
+    /**
+     * Read the contents of a file.
+     *
+     * @param fileUuid the ID of the file
+     * @param offset   the offset to start reading from
+     * @param length   the number of bytes to read
+     * @return the contents of the file as a ByteString
+     */
+    public ByteString read(JObjectKey fileUuid, long offset, int length) {
         return jObjectTxManager.executeTx(() -> {
             if (length < 0)
                 throw new StatusRuntimeException(Status.INVALID_ARGUMENT.withDescription("Length should be more than zero: " + length));
@@ -290,12 +332,12 @@ public class DhfsFileServiceImpl implements DhfsFileService {
             var file = remoteTx.getData(File.class, fileUuid).orElse(null);
             if (file == null) {
                 Log.error("File not found when trying to read: " + fileUuid);
-                return Optional.empty();
+                throw new StatusRuntimeException(Status.NOT_FOUND.withDescription("File not found when trying to read: " + fileUuid));
             }
 
             try (var it = jMapHelper.getIterator(file, IteratorStart.LE, JMapLongKey.of(offset))) {
                 if (!it.hasNext())
-                    return Optional.of(ByteString.empty());
+                    return ByteString.empty();
 
 //                if (it.peekNextKey().key() != offset) {
 //                    Log.warnv("Read over the end of file: {0} {1} {2}, next chunk: {3}", fileUuid, offset, length, it.peekNextKey());
@@ -333,14 +375,20 @@ public class DhfsFileServiceImpl implements DhfsFileService {
                     chunk = it.next();
                 }
 
-                return Optional.of(buf);
+                return buf;
             } catch (Exception e) {
                 Log.error("Error reading file: " + fileUuid, e);
-                return Optional.empty();
+                throw new StatusRuntimeException(Status.INTERNAL.withDescription("Error reading file: " + fileUuid));
             }
         });
     }
 
+    /**
+     * Get the size of a file.
+     *
+     * @param uuid the ID of the file
+     * @return the size of the file
+     */
     private ByteString readChunk(JObjectKey uuid) {
         var chunkRead = remoteTx.getData(ChunkData.class, uuid).orElse(null);
 
@@ -352,189 +400,103 @@ public class DhfsFileServiceImpl implements DhfsFileService {
         return chunkRead.data();
     }
 
+    /**
+     * Get the size of a chunk.
+     *
+     * @param uuid the ID of the chunk
+     * @return the size of the chunk
+     */
     private int getChunkSize(JObjectKey uuid) {
         return readChunk(uuid).size();
     }
 
-    private void cleanupChunks(File f, Collection<JObjectKey> uuids) {
-        // FIXME:
-//        var inFile = useHashForChunks ? new HashSet<>(f.getChunks().values()) : Collections.emptySet();
-//        for (var cuuid : uuids) {
-//            try {
-//                if (inFile.contains(cuuid)) continue;
-//                jObjectManager.get(cuuid)
-//                        .ifPresent(jObject -> jObject.runWriteLocked(JObjectManager.ResolutionStrategy.NO_RESOLUTION,
-//                                (m, d, b, v) -> {
-//                                    m.removeRef(f.getName());
-//                                    return null;
-//                                }));
-//            } catch (Exception e) {
-//                Log.error("Error when cleaning chunk " + cuuid, e);
-//            }
-//        }
+    private long alignDown(long num, long n) {
+        return num & -(1L << n);
     }
 
-    @Override
+    /**
+     * Write data to a file.
+     *
+     * @param fileUuid the ID of the file
+     * @param offset   the offset to write to
+     * @param data     the data to write
+     * @return the number of bytes written
+     */
     public Long write(JObjectKey fileUuid, long offset, ByteString data) {
         return jObjectTxManager.executeTx(() -> {
             if (offset < 0)
                 throw new StatusRuntimeException(Status.INVALID_ARGUMENT.withDescription("Offset should be more than zero: " + offset));
 
-            // FIXME:
-            var file = remoteTx.getData(File.class, fileUuid, LockingStrategy.WRITE).orElse(null);
+            var file = remoteTx.getData(File.class, fileUuid).orElse(null);
             if (file == null) {
-                Log.error("File not found when trying to write: " + fileUuid);
-                return -1L;
+                throw new StatusRuntimeException(Status.NOT_FOUND.withDescription("File not found when trying to write: " + fileUuid));
             }
 
-            if (writeLogging) {
-                Log.info("Writing to file: " + file.key() + " size=" + size(fileUuid) + " "
-                        + offset + " " + data.size());
-            }
+            Map<Long, JObjectKey> removedChunks = new HashMap<>();
 
-            if (size(fileUuid) < offset) {
-                truncate(fileUuid, offset);
-                file = remoteTx.getData(File.class, fileUuid).orElse(null);
-            }
+            long realOffset = targetChunkAlignment >= 0 ? alignDown(offset, targetChunkAlignment) : offset;
+            long writeEnd = offset + data.size();
+            long start = realOffset;
+            long existingEnd = 0;
+            ByteString pendingPrefix = ByteString.empty();
+            ByteString pendingSuffix = ByteString.empty();
 
-            Pair<JMapLongKey, JMapEntry<JMapLongKey>> first;
-            Pair<JMapLongKey, JMapEntry<JMapLongKey>> last;
-            Log.tracev("Getting last");
-            try (var it = jMapHelper.getIterator(file, IteratorStart.LT, JMapLongKey.of(offset + data.size()))) {
-                last = it.hasNext() ? it.next() : null;
-                Log.tracev("Last: {0}", last);
-            }
+            try (var it = jMapHelper.getIterator(file, IteratorStart.LE, JMapLongKey.of(realOffset))) {
+                while (it.hasNext()) {
+                    var curEntry = it.next();
+                    long curChunkStart = curEntry.getKey().key();
+                    var curChunkId = curEntry.getValue().ref();
+                    long curChunkEnd = it.hasNext() ? it.peekNextKey().key() : curChunkStart + getChunkSize(curChunkId);
+                    existingEnd = curChunkEnd;
+                    if (curChunkEnd <= realOffset) break;
 
-            NavigableMap<Long, JObjectKey> removedChunks = new TreeMap<>();
+                    removedChunks.put(curEntry.getKey().key(), curChunkId);
 
-            long start = 0;
+                    if (curChunkStart < offset) {
+                        if (curChunkStart < start)
+                            start = curChunkStart;
 
-            try (var it = jMapHelper.getIterator(file, IteratorStart.LE, JMapLongKey.of(offset))) {
-                first = it.hasNext() ? it.next() : null;
-                Log.tracev("First: {0}", first);
-                boolean empty = last == null;
-                if (first != null && getChunkSize(first.getValue().ref()) + first.getKey().key() <= offset) {
-                    first = null;
-                    last = null;
-                    start = offset;
-                } else if (!empty) {
-                    assert first != null;
-                    removedChunks.put(first.getKey().key(), first.getValue().ref());
-                    while (it.hasNext() && it.peekNextKey().compareTo(last.getKey()) <= 0) {
-                        var next = it.next();
-                        Log.tracev("Next: {0}", next);
-                        removedChunks.put(next.getKey().key(), next.getValue().ref());
+                        var readChunk = readChunk(curChunkId);
+                        pendingPrefix = pendingPrefix.concat(readChunk.substring(0, Math.min(readChunk.size(), (int) (offset - curChunkStart))));
                     }
-                    removedChunks.put(last.getKey().key(), last.getValue().ref());
-                    start = first.getKey().key();
+
+                    if (curChunkEnd > writeEnd) {
+                        var readChunk = readChunk(curChunkId);
+                        pendingSuffix = pendingSuffix.concat(readChunk.substring((int) (writeEnd - curChunkStart), readChunk.size()));
+                    }
+
+                    if (curChunkEnd >= writeEnd) break;
                 }
             }
 
 
-//            NavigableMap<Long, JObjectKey> beforeFirst = first != null ? chunksAll.headMap(first.getKey(), false) : Collections.emptyNavigableMap();
-//            NavigableMap<Long, JObjectKey> afterLast = last != null ? chunksAll.tailMap(last.getKey(), false) : Collections.emptyNavigableMap();
+            Map<Long, JObjectKey> newChunks = new HashMap<>();
 
-//            if (first != null && (getChunkSize(first.getValue()) + first.getKey() <= offset)) {
-//                beforeFirst = chunksAll;
-//                afterLast = Collections.emptyNavigableMap();
-//                first = null;
-//                last = null;
-//                start = offset;
-//            } else if (!chunksAll.isEmpty()) {
-//                var between = chunksAll.subMap(first.getKey(), true, last.getKey(), true);
-//                removedChunks.putAll(between);
-//                start = first.getKey();
-//            }
-
-            ByteString pendingWrites = ByteString.empty();
-
-            if (first != null && first.getKey().key() < offset) {
-                var chunkBytes = readChunk(first.getValue().ref());
-                pendingWrites = pendingWrites.concat(chunkBytes.substring(0, (int) (offset - first.getKey().key())));
-            }
-            pendingWrites = pendingWrites.concat(data);
-
-            if (last != null) {
-                var lchunkBytes = readChunk(last.getValue().ref());
-                if (last.getKey().key() + lchunkBytes.size() > offset + data.size()) {
-                    var startInFile = offset + data.size();
-                    var startInChunk = startInFile - last.getKey().key();
-                    pendingWrites = pendingWrites.concat(lchunkBytes.substring((int) startInChunk, lchunkBytes.size()));
+            if (existingEnd < offset) {
+                if (!pendingPrefix.isEmpty()) {
+                    int diff = Math.toIntExact(offset - existingEnd);
+                    pendingPrefix = pendingPrefix.concat(UnsafeByteOperations.unsafeWrap(ByteBuffer.allocateDirect(diff)));
+                } else {
+                    fillZeros(existingEnd, offset, newChunks);
+                    start = offset;
                 }
             }
 
+            ByteString pendingWrites = pendingPrefix.concat(data).concat(pendingSuffix);
+
             int combinedSize = pendingWrites.size();
 
-            if (targetChunkSize > 0) {
-//                if (combinedSize < (targetChunkSize * writeMergeThreshold)) {
-//                    boolean leftDone = false;
-//                    boolean rightDone = false;
-//                    while (!leftDone && !rightDone) {
-//                        if (beforeFirst.isEmpty()) leftDone = true;
-//                        if (!beforeFirst.isEmpty() || !leftDone) {
-//                            var takeLeft = beforeFirst.lastEntry();
-//
-//                            var cuuid = takeLeft.getValue();
-//
-//                            if (getChunkSize(cuuid) >= (targetChunkSize * writeMergeMaxChunkToTake)) {
-//                                leftDone = true;
-//                                continue;
-//                            }
-//
-//                            if ((combinedSize + getChunkSize(cuuid)) > (targetChunkSize * writeMergeLimit)) {
-//                                leftDone = true;
-//                                continue;
-//                            }
-//
-//                            // FIXME: (and test this)
-//                            beforeFirst = beforeFirst.headMap(takeLeft.getKey(), false);
-//                            start = takeLeft.getKey();
-//                            pendingWrites = readChunk(cuuid).concat(pendingWrites);
-//                            combinedSize += getChunkSize(cuuid);
-//                            removedChunks.put(takeLeft.getKey(), takeLeft.getValue());
-//                        }
-//                        if (afterLast.isEmpty()) rightDone = true;
-//                        if (!afterLast.isEmpty() && !rightDone) {
-//                            var takeRight = afterLast.firstEntry();
-//
-//                            var cuuid = takeRight.getValue();
-//
-//                            if (getChunkSize(cuuid) >= (targetChunkSize * writeMergeMaxChunkToTake)) {
-//                                rightDone = true;
-//                                continue;
-//                            }
-//
-//                            if ((combinedSize + getChunkSize(cuuid)) > (targetChunkSize * writeMergeLimit)) {
-//                                rightDone = true;
-//                                continue;
-//                            }
-//
-//                            // FIXME: (and test this)
-//                            afterLast = afterLast.tailMap(takeRight.getKey(), false);
-//                            pendingWrites = pendingWrites.concat(readChunk(cuuid));
-//                            combinedSize += getChunkSize(cuuid);
-//                            removedChunks.put(takeRight.getKey(), takeRight.getValue());
-//                        }
-//                    }
-//                }
-            }
-
-            NavigableMap<Long, JObjectKey> newChunks = new TreeMap<>();
-
             {
                 int cur = 0;
                 while (cur < combinedSize) {
                     int end;
 
-                    if (targetChunkSize <= 0)
+                    if (combinedSize - cur < maxChunkSize)
                         end = combinedSize;
-                    else {
-                        if ((combinedSize - cur) > (targetChunkSize * writeLastChunkLimit)) {
-                            end = Math.min(cur + targetChunkSize, combinedSize);
-                        } else {
-                            end = combinedSize;
-                        }
-                    }
+                    else if (targetChunkAlignment < 0)
+                        end = combinedSize;
+                    else
+                        end = Math.min(cur + targetChunkSize, combinedSize);
 
                     var thisChunk = pendingWrites.substring(cur, end);
 
@@ -547,23 +509,28 @@ public class DhfsFileServiceImpl implements DhfsFileService {
             }
 
             for (var e : removedChunks.entrySet()) {
-                Log.tracev("Removing chunk {0}-{1}", e.getKey(), e.getValue());
+//                Log.tracev("Removing chunk {0}-{1}", e.getKey(), e.getValue());
                 jMapHelper.delete(file, JMapLongKey.of(e.getKey()));
             }
 
             for (var e : newChunks.entrySet()) {
-                Log.tracev("Adding chunk {0}-{1}", e.getKey(), e.getValue());
+//                Log.tracev("Adding chunk {0}-{1}", e.getKey(), e.getValue());
                 jMapHelper.put(file, JMapLongKey.of(e.getKey()), e.getValue());
             }
 
-            remoteTx.putData(file);
-            cleanupChunks(file, removedChunks.values());
+            remoteTx.putData(file.withCurrentMTime());
 
             return (long) data.size();
         });
     }
 
-    @Override
+    /**
+     * Truncate a file to the given length.
+     *
+     * @param fileUuid the ID of the file
+     * @param length   the new length of the file
+     * @return true if the truncate was successful, false otherwise
+     */
     public Boolean truncate(JObjectKey fileUuid, long length) {
         return jObjectTxManager.executeTx(() -> {
             if (length < 0)
@@ -576,17 +543,8 @@ public class DhfsFileServiceImpl implements DhfsFileService {
             }
 
             if (length == 0) {
-                try (var it = jMapHelper.getIterator(file, IteratorStart.GE, JMapLongKey.of(0))) {
-                    while (it.hasNext()) {
-                        var next = it.next();
-                        jMapHelper.delete(file, next.getKey());
-                    }
-                }
-//                var oldChunks = file.chunks();
-//
-//                file = file.withChunks(TreePMap.empty()).withMTime(System.currentTimeMillis());
+                jMapHelper.deleteAll(file);
                 remoteTx.putData(file);
-//                cleanupChunks(file, oldChunks.values());
                 return true;
             }
 
@@ -597,38 +555,7 @@ public class DhfsFileServiceImpl implements DhfsFileService {
             NavigableMap<Long, JObjectKey> newChunks = new TreeMap<>();
 
             if (curSize < length) {
-                long combinedSize = (length - curSize);
-
-                long start = curSize;
-
-                // Hack
-                HashMap<Long, ChunkData> zeroCache = new HashMap<>();
-
-                {
-                    long cur = 0;
-                    while (cur < combinedSize) {
-                        long end;
-
-                        if (targetChunkSize <= 0)
-                            end = combinedSize;
-                        else {
-                            if ((combinedSize - cur) > (targetChunkSize * 1.5)) {
-                                end = cur + targetChunkSize;
-                            } else {
-                                end = combinedSize;
-                            }
-                        }
-
-                        if (!zeroCache.containsKey(end - cur))
-                            zeroCache.put(end - cur, createChunk(UnsafeByteOperations.unsafeWrap(new byte[Math.toIntExact(end - cur)])));
-
-                        ChunkData newChunkData = zeroCache.get(end - cur);
-                        newChunks.put(start, newChunkData.key());
-
-                        start += newChunkData.data().size();
-                        cur = end;
-                    }
-                }
+                fillZeros(curSize, length, newChunks);
             } else {
 //                Pair<JMapLongKey, JMapEntry<JMapLongKey>> first;
                 Pair<JMapLongKey, JMapEntry<JMapLongKey>> last;
@@ -679,41 +606,98 @@ public class DhfsFileServiceImpl implements DhfsFileService {
 //            file = file.withChunks(file.chunks().minusAll(removedChunks.keySet()).plusAll(newChunks)).withMTime(System.currentTimeMillis());
 
             for (var e : removedChunks.entrySet()) {
-                Log.tracev("Removing chunk {0}-{1}", e.getKey(), e.getValue());
+//                Log.tracev("Removing chunk {0}-{1}", e.getKey(), e.getValue());
                 jMapHelper.delete(file, JMapLongKey.of(e.getKey()));
             }
 
             for (var e : newChunks.entrySet()) {
-                Log.tracev("Adding chunk {0}-{1}", e.getKey(), e.getValue());
+//                Log.tracev("Adding chunk {0}-{1}", e.getKey(), e.getValue());
                 jMapHelper.put(file, JMapLongKey.of(e.getKey()), e.getValue());
             }
 
-            remoteTx.putData(file);
-            cleanupChunks(file, removedChunks.values());
+            remoteTx.putData(file.withCurrentMTime());
             return true;
         });
     }
 
-    @Override
+    /**
+     * Fill the given range with zeroes.
+     *
+     * @param fillStart the start of the range
+     * @param length    the end of the range
+     * @param newChunks the map to store the new chunks in
+     */
+    private void fillZeros(long fillStart, long length, Map<Long, JObjectKey> newChunks) {
+        long combinedSize = (length - fillStart);
+
+        long start = fillStart;
+
+        // Hack
+        HashMap<Long, ChunkData> zeroCache = new HashMap<>();
+
+        {
+            long cur = 0;
+            while (cur < combinedSize) {
+                long end;
+
+                if (targetChunkSize <= 0)
+                    end = combinedSize;
+                else {
+                    if ((combinedSize - cur) > (targetChunkSize * 1.5)) {
+                        end = cur + targetChunkSize;
+                    } else {
+                        end = combinedSize;
+                    }
+                }
+
+                if (!zeroCache.containsKey(end - cur))
+                    zeroCache.put(end - cur, createChunk(UnsafeByteOperations.unsafeWrap(ByteBuffer.allocateDirect(Math.toIntExact(end - cur)))));
+
+                ChunkData newChunkData = zeroCache.get(end - cur);
+                newChunks.put(start, newChunkData.key());
+
+                start += newChunkData.data().size();
+                cur = end;
+            }
+        }
+    }
+
+    /**
+     * Read the contents of a symlink.
+     *
+     * @param uuid the ID of the symlink
+     * @return the contents of the symlink as a string
+     */
     public String readlink(JObjectKey uuid) {
         return jObjectTxManager.executeTx(() -> {
             return readlinkBS(uuid).toStringUtf8();
         });
     }
 
-    @Override
+    /**
+     * Read the contents of a symlink as a ByteString.
+     *
+     * @param uuid the ID of the symlink
+     * @return the contents of the symlink as a ByteString
+     */
     public ByteString readlinkBS(JObjectKey uuid) {
         return jObjectTxManager.executeTx(() -> {
             var fileOpt = remoteTx.getData(File.class, uuid).orElseThrow(() -> new StatusRuntimeException(Status.NOT_FOUND.withDescription("File not found when trying to readlink: " + uuid)));
-            return read(uuid, 0, Math.toIntExact(size(uuid))).get();
+            return read(uuid, 0, Math.toIntExact(size(uuid)));
         });
     }
 
-    @Override
+    /**
+     * Create a symlink.
+     *
+     * @param oldpath the target of the symlink
+     * @param newpath the path of the symlink
+     * @return the key of the created symlink
+     */
     public JObjectKey symlink(String oldpath, String newpath) {
         return jObjectTxManager.executeTx(() -> {
             Path path = Path.of(newpath);
-            var parent = getDirEntryW(path.getParent().toString());
+            var parent = getDirEntry(path.getParent().toString());
 
             ensureDir(parent);
 
@@ -727,18 +711,25 @@ public class DhfsFileServiceImpl implements DhfsFileService {
             jMapHelper.put(f, JMapLongKey.of(0), newChunkData.key());
 
             remoteTx.putData(f);
-            getTreeW().move(parent.key(), new JKleppmannTreeNodeMetaFile(fname, f.key()), getTreeW().getNewNodeId());
+            getTree().move(parent.key(), new JKleppmannTreeNodeMetaFile(fname, f.key()), getTree().getNewNodeId());
             return f.key();
         });
     }
 
-    @Override
+    /**
+     * Set the access and modification times of a file.
+     *
+     * @param fileUuid the ID of the file
+     * @param atimeMs  the access time in milliseconds
+     * @param mtimeMs  the modification time in milliseconds
+     * @return true if the times were set successfully, false otherwise
+     */
     public Boolean setTimes(JObjectKey fileUuid, long atimeMs, long mtimeMs) {
         return jObjectTxManager.executeTx(() -> {
             var dent = curTx.get(JData.class, fileUuid).orElseThrow(() -> new StatusRuntimeExceptionNoStacktrace(Status.NOT_FOUND));
 
             // FIXME:
-            if (dent instanceof JKleppmannTreeNode) {
+            if (dent instanceof JKleppmannTreeNodeHolder) {
                 return true;
             } else if (dent instanceof RemoteObjectMeta) {
                 var remote = remoteTx.getData(JDataRemote.class, fileUuid).orElse(null);
@@ -754,7 +745,12 @@ public class DhfsFileServiceImpl implements DhfsFileService {
         });
     }
 
-    @Override
+    /**
+     * Get the size of a file.
+     *
+     * @param fileUuid the ID of the file
+     * @return the size of the file
+     */
     public long size(JObjectKey fileUuid) {
         return jObjectTxManager.executeTx(() -> {
             long realSize = 0;
@@ -773,4 +769,16 @@ public class DhfsFileServiceImpl implements DhfsFileService {
             return realSize;
         });
     }
+
+    /**
+     * Write data to a file.
+     *
+     * @param fileUuid the ID of the file
+     * @param offset   the offset to write to
+     * @param data     the data to write
+     * @return the number of bytes written
+     */
+    public Long write(JObjectKey fileUuid, long offset, byte[] data) {
+        return write(fileUuid, offset, UnsafeByteOperations.unsafeWrap(data));
+    }
 }

dhfs-parent/dhfs-fs/src/main/java/com/usatiuk/dhfsfs/service/DirectoryNotEmptyException.java

@@ -0,0 +1,13 @@
+package com.usatiuk.dhfsfs.service;
+
+/**
+ * DirectoryNotEmptyException is thrown when a directory is not empty.
+ * This exception is used to indicate that a directory cannot be deleted
+ * because it contains files or subdirectories.
+ */
+public class DirectoryNotEmptyException extends RuntimeException {
+    @Override
+    public synchronized Throwable fillInStackTrace() {
+        return this;
+    }
+}

dhfs-parent/dhfs-fs/src/main/java/com/usatiuk/dhfsfs/service/GetattrRes.java

@@ -0,0 +1,11 @@
+package com.usatiuk.dhfsfs.service;
+
+/**
+ * GetattrRes is a record that represents the result of a getattr operation.
+ * @param mtime File modification time
+ * @param ctime File creation time
+ * @param mode File mode
+ * @param type File type
+ */
+ public record GetattrRes(long mtime, long ctime, long mode, GetattrType type) {
+}

dhfs-parent/dhfs-fs/src/main/java/com/usatiuk/dhfsfs/service/GetattrType.java

@@ -1,4 +1,4 @@
-package com.usatiuk.dhfs.files.service;
+package com.usatiuk.dhfsfs.service;
 
 public enum GetattrType {
     FILE,

dhfs-parent/dhfs-fs/src/main/resources/application.properties

@@ -15,13 +15,7 @@ dhfs.fuse.debug=false
 dhfs.fuse.enabled=true
 dhfs.files.allow_recursive_delete=false
 dhfs.files.target_chunk_size=2097152
-# Writes strictly smaller than this will try to merge with blocks nearby
-dhfs.files.write_merge_threshold=0.8
-# If a merge would result in a block of greater size than this, stop merging
-dhfs.files.write_merge_limit=1.2
-# Don't take blocks of this size and above when merging
-dhfs.files.write_merge_max_chunk_to_take=1
-dhfs.files.write_last_chunk_limit=1.5
+dhfs.files.target_chunk_alignment=19
 dhfs.objects.deletion.delay=1000
 dhfs.objects.deletion.can-delete-retry-delay=10000
 dhfs.objects.ref_verification=true

dhfs-parent/dhfs-fs/src/test/java/com/usatiuk/dhfsfs/DhfsFileServiceSimpleTest.java

@@ -1,4 +1,4 @@
-package com.usatiuk.dhfs.files;
+package com.usatiuk.dhfsfs;
 
 import io.quarkus.test.junit.QuarkusTest;
 import io.quarkus.test.junit.TestProfile;

dhfs-parent/dhfs-fs/src/test/java/com/usatiuk/dhfsfs/DhfsFileServiceSimpleTestImpl.java

@@ -1,12 +1,11 @@
-package com.usatiuk.dhfs.files;
+package com.usatiuk.dhfsfs;
 
-import com.usatiuk.dhfs.TempDataProfile;
-import com.usatiuk.dhfs.files.objects.File;
-import com.usatiuk.dhfs.files.service.DhfsFileService;
-import com.usatiuk.dhfs.RemoteTransaction;
+import com.usatiuk.dhfs.remoteobj.RemoteTransaction;
+import com.usatiuk.dhfsfs.objects.File;
+import com.usatiuk.dhfsfs.service.DhfsFileService;
+import com.usatiuk.kleppmanntree.AlreadyExistsException;
 import com.usatiuk.objects.transaction.Transaction;
 import com.usatiuk.objects.transaction.TransactionManager;
-import com.usatiuk.kleppmanntree.AlreadyExistsException;
 import jakarta.inject.Inject;
 import org.junit.jupiter.api.Assertions;
 import org.junit.jupiter.api.RepeatedTest;
@@ -27,6 +26,7 @@ class Profiles {
         protected void getConfigOverrides(Map<String, String> ret) {
             ret.put("dhfs.fuse.enabled", "false");
             ret.put("dhfs.files.target_chunk_size", "-1");
+            ret.put("dhfs.files.target_chunk_alignment", "-1");
         }
     }
 
@@ -35,6 +35,7 @@ class Profiles {
         protected void getConfigOverrides(Map<String, String> ret) {
             ret.put("dhfs.fuse.enabled", "false");
             ret.put("dhfs.files.target_chunk_size", "3");
+            ret.put("dhfs.files.target_chunk_alignment", "2");
         }
     }
 }
@@ -88,7 +89,7 @@ public abstract class DhfsFileServiceSimpleTestImpl {
 //            for (int start = 0; start < all.length(); start++) {
 //                for (int end = start; end <= all.length(); end++) {
 //                    var read = fileService.read(fuuid.toString(), start, end - start);
-//                    Assertions.assertArrayEquals(all.substring(start, end).getBytes(), read.get().toByteArray());
+//                    Assertions.assertArrayEquals(all.substring(start, end).getBytes(), read.toByteArray());
 //                }
 //            }
 //        }
@@ -109,17 +110,21 @@ public abstract class DhfsFileServiceSimpleTestImpl {
 
         var uuid = ret.get();
 
+        var curMtime = fileService.getattr(uuid).get().mtime();
         fileService.write(uuid, 0, new byte[]{0, 1, 2, 3, 4, 5, 6, 7, 8, 9});
-        Assertions.assertArrayEquals(new byte[]{0, 1, 2, 3, 4, 5, 6, 7, 8, 9}, fileService.read(uuid, 0, 10).get().toByteArray());
-        Assertions.assertArrayEquals(new byte[]{2, 3, 4, 5, 6, 7, 8, 9}, fileService.read(uuid, 2, 8).get().toByteArray());
+        Assertions.assertArrayEquals(new byte[]{0, 1, 2, 3, 4, 5, 6, 7, 8, 9}, fileService.read(uuid, 0, 10).toByteArray());
+        Assertions.assertArrayEquals(new byte[]{2, 3, 4, 5, 6, 7, 8, 9}, fileService.read(uuid, 2, 8).toByteArray());
         fileService.write(uuid, 4, new byte[]{10, 11, 12});
-        Assertions.assertArrayEquals(new byte[]{0, 1, 2, 3, 10, 11, 12, 7, 8, 9}, fileService.read(uuid, 0, 10).get().toByteArray());
+        Assertions.assertArrayEquals(new byte[]{0, 1, 2, 3, 10, 11, 12, 7, 8, 9}, fileService.read(uuid, 0, 10).toByteArray());
         fileService.write(uuid, 10, new byte[]{13, 14});
-        Assertions.assertArrayEquals(new byte[]{0, 1, 2, 3, 10, 11, 12, 7, 8, 9, 13, 14}, fileService.read(uuid, 0, 12).get().toByteArray());
+        Assertions.assertArrayEquals(new byte[]{0, 1, 2, 3, 10, 11, 12, 7, 8, 9, 13, 14}, fileService.read(uuid, 0, 12).toByteArray());
         fileService.write(uuid, 6, new byte[]{15, 16});
-        Assertions.assertArrayEquals(new byte[]{0, 1, 2, 3, 10, 11, 15, 16, 8, 9, 13, 14}, fileService.read(uuid, 0, 12).get().toByteArray());
+        Assertions.assertArrayEquals(new byte[]{0, 1, 2, 3, 10, 11, 15, 16, 8, 9, 13, 14}, fileService.read(uuid, 0, 12).toByteArray());
         fileService.write(uuid, 3, new byte[]{17, 18});
-        Assertions.assertArrayEquals(new byte[]{0, 1, 2, 17, 18, 11, 15, 16, 8, 9, 13, 14}, fileService.read(uuid, 0, 12).get().toByteArray());
+        Assertions.assertArrayEquals(new byte[]{0, 1, 2, 17, 18, 11, 15, 16, 8, 9, 13, 14}, fileService.read(uuid, 0, 12).toByteArray());
+
+        var newMtime = fileService.getattr(uuid).get().mtime();
+        Assertions.assertTrue(newMtime > curMtime);
 
         fileService.unlink("/writeTest");
         Assertions.assertFalse(fileService.open("/writeTest").isPresent());
@@ -133,7 +138,7 @@ public abstract class DhfsFileServiceSimpleTestImpl {
         var uuid = ret.get();
 
         fileService.write(uuid, 0, new byte[]{0, 1, 2, 3, 4, 5, 6, 7, 8, 9});
-        Assertions.assertArrayEquals(new byte[]{0, 1, 2, 3, 4, 5, 6, 7, 8, 9}, fileService.read(uuid, 0, 10).get().toByteArray());
+        Assertions.assertArrayEquals(new byte[]{0, 1, 2, 3, 4, 5, 6, 7, 8, 9}, fileService.read(uuid, 0, 10).toByteArray());
 
         fileService.unlink("/removeTest");
         Assertions.assertFalse(fileService.open("/removeTest").isPresent());
@@ -147,11 +152,12 @@ public abstract class DhfsFileServiceSimpleTestImpl {
         var uuid = ret.get();
 
         fileService.write(uuid, 0, new byte[]{0, 1, 2, 3, 4, 5, 6, 7, 8, 9});
-        Assertions.assertArrayEquals(new byte[]{0, 1, 2, 3, 4, 5, 6, 7, 8, 9}, fileService.read(uuid, 0, 10).get().toByteArray());
+        Assertions.assertArrayEquals(new byte[]{0, 1, 2, 3, 4, 5, 6, 7, 8, 9}, fileService.read(uuid, 0, 10).toByteArray());
 
         fileService.truncate(uuid, 20);
+        Assertions.assertArrayEquals(new byte[]{0, 1, 2, 3, 4, 5, 6, 7, 8, 9, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0}, fileService.read(uuid, 0, 20).toByteArray());
         fileService.write(uuid, 5, new byte[]{10, 11, 12, 13, 14, 15, 16, 17});
-        Assertions.assertArrayEquals(new byte[]{0, 1, 2, 3, 4, 10, 11, 12, 13, 14, 15, 16, 17, 0, 0, 0, 0, 0, 0, 0}, fileService.read(uuid, 0, 20).get().toByteArray());
+        Assertions.assertArrayEquals(new byte[]{0, 1, 2, 3, 4, 10, 11, 12, 13, 14, 15, 16, 17, 0, 0, 0, 0, 0, 0, 0}, fileService.read(uuid, 0, 20).toByteArray());
     }
 
     @RepeatedTest(100)
@@ -163,11 +169,12 @@ public abstract class DhfsFileServiceSimpleTestImpl {
             var uuid = ret.get();
 
             fileService.write(uuid, 0, new byte[]{0, 1, 2, 3, 4, 5, 6, 7, 8, 9});
-            Assertions.assertArrayEquals(new byte[]{0, 1, 2, 3, 4, 5, 6, 7, 8, 9}, fileService.read(uuid, 0, 10).get().toByteArray());
+            Assertions.assertArrayEquals(new byte[]{0, 1, 2, 3, 4, 5, 6, 7, 8, 9}, fileService.read(uuid, 0, 10).toByteArray());
 
             fileService.truncate(uuid, 20);
+            Assertions.assertArrayEquals(new byte[]{0, 1, 2, 3, 4, 5, 6, 7, 8, 9, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0}, fileService.read(uuid, 0, 20).toByteArray());
             fileService.write(uuid, 10, new byte[]{11, 12, 13, 14, 15, 16, 17, 18, 19, 20});
-            Assertions.assertArrayEquals(new byte[]{0, 1, 2, 3, 4, 5, 6, 7, 8, 9, 11, 12, 13, 14, 15, 16, 17, 18, 19, 20}, fileService.read(uuid, 0, 20).get().toByteArray());
+            Assertions.assertArrayEquals(new byte[]{0, 1, 2, 3, 4, 5, 6, 7, 8, 9, 11, 12, 13, 14, 15, 16, 17, 18, 19, 20}, fileService.read(uuid, 0, 20).toByteArray());
         } finally {
             fileService.unlink("/truncateTest2");
         }
@@ -181,10 +188,10 @@ public abstract class DhfsFileServiceSimpleTestImpl {
         var uuid = ret.get();
 
         fileService.write(uuid, 0, new byte[]{0, 1, 2, 3, 4, 5, 6, 7, 8, 9});
-        Assertions.assertArrayEquals(new byte[]{0, 1, 2, 3, 4, 5, 6, 7, 8, 9}, fileService.read(uuid, 0, 10).get().toByteArray());
+        Assertions.assertArrayEquals(new byte[]{0, 1, 2, 3, 4, 5, 6, 7, 8, 9}, fileService.read(uuid, 0, 10).toByteArray());
 
         fileService.truncate(uuid, 7);
-        Assertions.assertArrayEquals(new byte[]{0, 1, 2, 3, 4, 5, 6,}, fileService.read(uuid, 0, 20).get().toByteArray());
+        Assertions.assertArrayEquals(new byte[]{0, 1, 2, 3, 4, 5, 6,}, fileService.read(uuid, 0, 20).toByteArray());
     }
 
     @Test
@@ -194,14 +201,14 @@ public abstract class DhfsFileServiceSimpleTestImpl {
         var uuid = ret.get();
 
         fileService.write(uuid, 0, new byte[]{0, 1, 2, 3, 4, 5, 6, 7, 8, 9});
-        Assertions.assertArrayEquals(new byte[]{0, 1, 2, 3, 4, 5, 6, 7, 8, 9}, fileService.read(uuid, 0, 10).get().toByteArray());
+        Assertions.assertArrayEquals(new byte[]{0, 1, 2, 3, 4, 5, 6, 7, 8, 9}, fileService.read(uuid, 0, 10).toByteArray());
 
         Assertions.assertTrue(fileService.rename("/moveTest", "/movedTest"));
         Assertions.assertFalse(fileService.open("/moveTest").isPresent());
         Assertions.assertTrue(fileService.open("/movedTest").isPresent());
 
         Assertions.assertArrayEquals(new byte[]{0, 1, 2, 3, 4, 5, 6, 7, 8, 9},
-                fileService.read(fileService.open("/movedTest").get(), 0, 10).get().toByteArray());
+                fileService.read(fileService.open("/movedTest").get(), 0, 10).toByteArray());
     }
 
     @Test
@@ -214,9 +221,9 @@ public abstract class DhfsFileServiceSimpleTestImpl {
         var uuid2 = ret2.get();
 
         fileService.write(uuid, 0, new byte[]{0, 1, 2, 3, 4, 5, 6, 7, 8, 9});
-        Assertions.assertArrayEquals(new byte[]{0, 1, 2, 3, 4, 5, 6, 7, 8, 9}, fileService.read(uuid, 0, 10).get().toByteArray());
+        Assertions.assertArrayEquals(new byte[]{0, 1, 2, 3, 4, 5, 6, 7, 8, 9}, fileService.read(uuid, 0, 10).toByteArray());
         fileService.write(uuid2, 0, new byte[]{11, 12, 13, 14, 15, 16, 17, 18, 19, 29});
-        Assertions.assertArrayEquals(new byte[]{11, 12, 13, 14, 15, 16, 17, 18, 19, 29}, fileService.read(uuid2, 0, 10).get().toByteArray());
+        Assertions.assertArrayEquals(new byte[]{11, 12, 13, 14, 15, 16, 17, 18, 19, 29}, fileService.read(uuid2, 0, 10).toByteArray());
 
 
         jObjectTxManager.run(() -> {
@@ -230,7 +237,7 @@ public abstract class DhfsFileServiceSimpleTestImpl {
         Assertions.assertTrue(fileService.open("/moveOverTest2").isPresent());
 
         Assertions.assertArrayEquals(new byte[]{0, 1, 2, 3, 4, 5, 6, 7, 8, 9},
-                fileService.read(fileService.open("/moveOverTest2").get(), 0, 10).get().toByteArray());
+                fileService.read(fileService.open("/moveOverTest2").get(), 0, 10).toByteArray());
 
 //        await().atMost(5, TimeUnit.SECONDS).until(() -> {
 //                jObjectTxManager.run(() -> {
@@ -248,8 +255,8 @@ public abstract class DhfsFileServiceSimpleTestImpl {
         var uuid = ret.get();
 
         fileService.write(uuid, 0, new byte[]{0, 1, 2, 3, 4, 5, 6, 7, 8, 9});
-        Assertions.assertArrayEquals(new byte[]{0, 1, 2, 3, 4, 5, 6, 7, 8, 9}, fileService.read(uuid, 0, 10).get().toByteArray());
-        Assertions.assertArrayEquals(new byte[]{}, fileService.read(uuid, 20, 10).get().toByteArray());
+        Assertions.assertArrayEquals(new byte[]{0, 1, 2, 3, 4, 5, 6, 7, 8, 9}, fileService.read(uuid, 0, 10).toByteArray());
+        Assertions.assertArrayEquals(new byte[]{}, fileService.read(uuid, 20, 10).toByteArray());
     }
 
     @Test
@@ -259,13 +266,13 @@ public abstract class DhfsFileServiceSimpleTestImpl {
         var uuid = ret.get();
 
         fileService.write(uuid, 0, new byte[]{0, 1, 2, 3, 4, 5, 6, 7, 8, 9});
-        Assertions.assertArrayEquals(new byte[]{0, 1, 2, 3, 4, 5, 6, 7, 8, 9}, fileService.read(uuid, 0, 10).get().toByteArray());
+        Assertions.assertArrayEquals(new byte[]{0, 1, 2, 3, 4, 5, 6, 7, 8, 9}, fileService.read(uuid, 0, 10).toByteArray());
         fileService.write(uuid, 20, new byte[]{10, 11, 12, 13, 14, 15, 16, 17, 18, 19});
         Assertions.assertArrayEquals(new byte[]{
                 0, 1, 2, 3, 4, 5, 6, 7, 8, 9,
                 0, 0, 0, 0, 0, 0, 0, 0, 0, 0,
                 10, 11, 12, 13, 14, 15, 16, 17, 18, 19
-        }, fileService.read(uuid, 0, 30).get().toByteArray());
+        }, fileService.read(uuid, 0, 30).toByteArray());
     }
 
     @Test
@@ -275,7 +282,7 @@ public abstract class DhfsFileServiceSimpleTestImpl {
         var uuid = ret.get();
 
         fileService.write(uuid, 0, new byte[]{0, 1, 2, 3, 4, 5, 6, 7, 8, 9});
-        Assertions.assertArrayEquals(new byte[]{0, 1, 2, 3, 4, 5, 6, 7, 8, 9}, fileService.read(uuid, 0, 10).get().toByteArray());
+        Assertions.assertArrayEquals(new byte[]{0, 1, 2, 3, 4, 5, 6, 7, 8, 9}, fileService.read(uuid, 0, 10).toByteArray());
 
 //        var oldfile = jObjectManager.get(uuid).orElseThrow(IllegalStateException::new);
 //        var chunk = oldfile.runReadLocked(JObjectManager.ResolutionStrategy.LOCAL_ONLY, (m, d) -> d.extractRefs()).stream().toList().get(0);
@@ -290,6 +297,6 @@ public abstract class DhfsFileServiceSimpleTestImpl {
         Assertions.assertTrue(fileService.open("/movedTest2").isPresent());
 
         Assertions.assertArrayEquals(new byte[]{0, 1, 2, 3, 4, 5, 6, 7, 8, 9},
-                fileService.read(fileService.open("/movedTest2").get(), 0, 10).get().toByteArray());
+                fileService.read(fileService.open("/movedTest2").get(), 0, 10).toByteArray());
     }
 }

dhfs-parent/dhfs-fs/src/test/java/com/usatiuk/dhfsfs/DhfsFileServiceSimpleTestNoChunkingTest.java

@@ -1,4 +1,4 @@
-package com.usatiuk.dhfs.files;
+package com.usatiuk.dhfsfs;
 
 import io.quarkus.test.junit.QuarkusTest;
 import io.quarkus.test.junit.TestProfile;

dhfs-parent/dhfs-fs/src/test/java/com/usatiuk/dhfsfs/DhfsFileServiceSimpleTestSmallChunkingTest.java

@@ -1,4 +1,4 @@
-package com.usatiuk.dhfs.files;
+package com.usatiuk.dhfsfs;
 
 import io.quarkus.test.junit.QuarkusTest;
 import io.quarkus.test.junit.TestProfile;

dhfs-parent/dhfs-fs/src/test/java/com/usatiuk/dhfsfs/TempDataProfile.java

@@ -0,0 +1,29 @@
+package com.usatiuk.dhfsfs;
+
+import io.quarkus.test.junit.QuarkusTestProfile;
+
+import java.io.IOException;
+import java.nio.file.Files;
+import java.nio.file.Path;
+import java.util.HashMap;
+import java.util.Map;
+
+abstract public class TempDataProfile implements QuarkusTestProfile {
+    protected void getConfigOverrides(Map<String, String> toPut) {
+    }
+
+    @Override
+    final public Map<String, String> getConfigOverrides() {
+        Path tempDirWithPrefix;
+        try {
+            tempDirWithPrefix = Files.createTempDirectory("dhfs-test");
+        } catch (IOException e) {
+            throw new RuntimeException(e);
+        }
+        var ret = new HashMap<String, String>();
+        ret.put("dhfs.objects.persistence.files.root", tempDirWithPrefix.resolve("dhfs_root_test").toString());
+        ret.put("dhfs.fuse.root", tempDirWithPrefix.resolve("dhfs_fuse_root_test").toString());
+        getConfigOverrides(ret);
+        return ret;
+    }
+}

dhfs-parent/dhfs-fs/src/test/java/com/usatiuk/dhfsfs/TestDataCleaner.java

@@ -0,0 +1,40 @@
+package com.usatiuk.dhfsfs;
+
+import io.quarkus.logging.Log;
+import io.quarkus.runtime.ShutdownEvent;
+import io.quarkus.runtime.StartupEvent;
+import jakarta.annotation.Priority;
+import jakarta.enterprise.context.ApplicationScoped;
+import jakarta.enterprise.event.Observes;
+import org.eclipse.microprofile.config.inject.ConfigProperty;
+
+import java.io.File;
+import java.io.IOException;
+import java.nio.file.Path;
+import java.util.Objects;
+
+@ApplicationScoped
+public class TestDataCleaner {
+    @ConfigProperty(name = "dhfs.objects.persistence.files.root")
+    String tempDirectory;
+
+    void init(@Observes @Priority(1) StartupEvent event) throws IOException {
+        try {
+            purgeDirectory(Path.of(tempDirectory).toFile());
+        } catch (Exception ignored) {
+            Log.warn("Couldn't cleanup test data on init");
+        }
+    }
+
+    void shutdown(@Observes @Priority(1000000000) ShutdownEvent event) throws IOException {
+        purgeDirectory(Path.of(tempDirectory).toFile());
+    }
+
+    public void purgeDirectory(File dir) {
+        for (File file : Objects.requireNonNull(dir.listFiles())) {
+            if (file.isDirectory())
+                purgeDirectory(file);
+            file.delete();
+        }
+    }
+}

dhfs-parent/dhfs-fs/src/test/java/com/usatiuk/dhfsfs/benchmarks/Benchmarker.java

@@ -1,4 +1,4 @@
-package com.usatiuk.dhfs.benchmarks;
+package com.usatiuk.dhfsfs.benchmarks;
 
 import io.quarkus.logging.Log;
 import org.apache.commons.math3.stat.descriptive.DescriptiveStatistics;

dhfs-parent/dhfs-fs/src/test/java/com/usatiuk/dhfsfs/benchmarks/DhfsFileBenchmarkTest.java

@@ -1,8 +1,8 @@
-package com.usatiuk.dhfs.benchmarks;
+package com.usatiuk.dhfsfs.benchmarks;
 
 import com.google.protobuf.UnsafeByteOperations;
-import com.usatiuk.dhfs.TempDataProfile;
-import com.usatiuk.dhfs.files.service.DhfsFileService;
+import com.usatiuk.dhfsfs.TempDataProfile;
+import com.usatiuk.dhfsfs.service.DhfsFileService;
 import com.usatiuk.objects.JObjectKey;
 import io.quarkus.test.junit.QuarkusTest;
 import io.quarkus.test.junit.TestProfile;

dhfs-parent/dhfs-fs/src/test/resources/application.properties

@@ -5,7 +5,6 @@ dhfs.objects.ref_verification=true
 dhfs.objects.deletion.delay=0
 quarkus.log.category."com.usatiuk.dhfs".level=TRACE
 quarkus.log.category."com.usatiuk.dhfs".min-level=TRACE
-quarkus.class-loading.parent-first-artifacts=com.usatiuk.dhfs:supportlib
 quarkus.http.test-port=0
 quarkus.http.test-ssl-port=0
 dhfs.local-discovery=false

dhfs-parent/dhfs-fuse/.dockerignore

@@ -0,0 +1,5 @@
+*
+!target/*-runner
+!target/*-runner.jar
+!target/lib/*
+!target/quarkus-app/*

dhfs-parent/dhfs-fuse/.gitignore

@@ -0,0 +1,43 @@
+#Maven
+target/
+pom.xml.tag
+pom.xml.releaseBackup
+pom.xml.versionsBackup
+release.properties
+.flattened-pom.xml
+
+# Eclipse
+.project
+.classpath
+.settings/
+bin/
+
+# IntelliJ
+.idea
+*.ipr
+*.iml
+*.iws
+
+# NetBeans
+nb-configuration.xml
+
+# Visual Studio Code
+.vscode
+.factorypath
+
+# OSX
+.DS_Store
+
+# Vim
+*.swp
+*.swo
+
+# patch
+*.orig
+*.rej
+
+# Local environment
+.env
+
+# Plugin directory
+/.quarkus/cli/plugins/

dhfs-parent/dhfs-fuse/Dockerfile

@@ -0,0 +1,2 @@
+FROM azul/zulu-openjdk-debian:21-jre-latest
+RUN apt update && apt install -y libfuse2 curl

dhfs-parent/dhfs-fuse/docker-compose.yml

@@ -0,0 +1,43 @@
+version: "3.2"
+
+services:
+  dhfs1:
+    build: .
+    privileged: true
+    devices:
+      - /dev/fuse
+    volumes:
+      - $HOME/dhfs/dhfs1:/dhfs_root
+      - $HOME/dhfs/dhfs1_f:/dhfs_root/fuse:rshared
+      - ./target/quarkus-app:/app
+    command: "java --add-exports java.base/sun.nio.ch=ALL-UNNAMED
+     -Ddhfs.objects.persistence.files.root=/dhfs_root/p 
+     -Ddhfs.objects.root=/dhfs_root/d 
+     -Ddhfs.fuse.root=/dhfs_root/fuse -Dquarkus.http.host=0.0.0.0 
+     -agentlib:jdwp=transport=dt_socket,server=y,suspend=n,address=*:5005
+     -jar /app/quarkus-run.jar"
+    ports:
+      - 8080:8080
+      - 8081:8443
+      - 5005:5005
+  dhfs2:
+    build: .
+    privileged: true
+    devices:
+      - /dev/fuse
+    volumes:
+      - $HOME/dhfs/dhfs2:/dhfs_root
+      - $HOME/dhfs/dhfs2_f:/dhfs_root/fuse:rshared
+      - ./target/quarkus-app:/app
+    command: "java --add-exports java.base/sun.nio.ch=ALL-UNNAMED
+     --add-exports java.base/jdk.internal.access=ALL-UNNAMED
+     --add-opens=java.base/java.nio=ALL-UNNAMED
+     -Ddhfs.objects.persistence.files.root=/dhfs_root/p 
+     -Ddhfs.objects.root=/dhfs_root/d 
+     -Ddhfs.fuse.root=/dhfs_root/fuse -Dquarkus.http.host=0.0.0.0
+     -agentlib:jdwp=transport=dt_socket,server=y,suspend=n,address=*:5010
+     -jar /app/quarkus-run.jar"
+    ports:
+      - 8090:8080
+      - 8091:8443
+      - 5010:5010

dhfs-parent/dhfs-fuse/pom.xml

@@ -0,0 +1,172 @@
+<?xml version="1.0" encoding="UTF-8"?>
+<project xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xmlns="http://maven.apache.org/POM/4.0.0"
+         xsi:schemaLocation="http://maven.apache.org/POM/4.0.0 https://maven.apache.org/xsd/maven-4.0.0.xsd">
+    <modelVersion>4.0.0</modelVersion>
+    <groupId>com.usatiuk.dhfs</groupId>
+    <artifactId>dhfs-fuse</artifactId>
+    <version>1.0-SNAPSHOT</version>
+
+    <parent>
+        <groupId>com.usatiuk.dhfs</groupId>
+        <artifactId>parent</artifactId>
+        <version>1.0-SNAPSHOT</version>
+    </parent>
+
+    <dependencies>
+        <dependency>
+            <groupId>org.testcontainers</groupId>
+            <artifactId>testcontainers</artifactId>
+            <scope>test</scope>
+        </dependency>
+        <dependency>
+            <groupId>org.awaitility</groupId>
+            <artifactId>awaitility</artifactId>
+            <scope>test</scope>
+        </dependency>
+        <dependency>
+            <groupId>org.bouncycastle</groupId>
+            <artifactId>bcprov-jdk18on</artifactId>
+        </dependency>
+        <dependency>
+            <groupId>org.bouncycastle</groupId>
+            <artifactId>bcpkix-jdk18on</artifactId>
+        </dependency>
+        <dependency>
+            <groupId>io.quarkus</groupId>
+            <artifactId>quarkus-security</artifactId>
+        </dependency>
+        <dependency>
+            <groupId>net.openhft</groupId>
+            <artifactId>zero-allocation-hashing</artifactId>
+        </dependency>
+        <dependency>
+            <groupId>io.quarkus</groupId>
+            <artifactId>quarkus-grpc</artifactId>
+        </dependency>
+        <dependency>
+            <groupId>io.quarkus</groupId>
+            <artifactId>quarkus-arc</artifactId>
+        </dependency>
+        <dependency>
+            <groupId>io.quarkus</groupId>
+            <artifactId>quarkus-rest</artifactId>
+        </dependency>
+        <dependency>
+            <groupId>io.quarkus</groupId>
+            <artifactId>quarkus-rest-client</artifactId>
+        </dependency>
+        <dependency>
+            <groupId>io.quarkus</groupId>
+            <artifactId>quarkus-rest-client-jsonb</artifactId>
+        </dependency>
+        <dependency>
+            <groupId>io.quarkus</groupId>
+            <artifactId>quarkus-rest-jsonb</artifactId>
+        </dependency>
+        <dependency>
+            <groupId>io.quarkus</groupId>
+            <artifactId>quarkus-scheduler</artifactId>
+        </dependency>
+        <dependency>
+            <groupId>io.quarkus</groupId>
+            <artifactId>quarkus-junit5</artifactId>
+            <scope>test</scope>
+        </dependency>
+        <dependency>
+            <groupId>com.github.serceman</groupId>
+            <artifactId>jnr-fuse</artifactId>
+            <version>0.5.8</version>
+        </dependency>
+        <dependency>
+            <groupId>org.apache.commons</groupId>
+            <artifactId>commons-lang3</artifactId>
+        </dependency>
+        <dependency>
+            <groupId>commons-io</groupId>
+            <artifactId>commons-io</artifactId>
+        </dependency>
+        <dependency>
+            <groupId>org.jboss.slf4j</groupId>
+            <artifactId>slf4j-jboss-logmanager</artifactId>
+            <scope>test</scope>
+        </dependency>
+        <dependency>
+            <groupId>commons-codec</groupId>
+            <artifactId>commons-codec</artifactId>
+        </dependency>
+        <dependency>
+            <groupId>org.apache.commons</groupId>
+            <artifactId>commons-collections4</artifactId>
+        </dependency>
+        <dependency>
+            <groupId>org.pcollections</groupId>
+            <artifactId>pcollections</artifactId>
+        </dependency>
+        <dependency>
+            <groupId>org.apache.commons</groupId>
+            <artifactId>commons-math3</artifactId>
+            <version>3.6.1</version>
+        </dependency>
+        <dependency>
+            <groupId>com.usatiuk.dhfs</groupId>
+            <artifactId>dhfs-fs</artifactId>
+            <version>1.0-SNAPSHOT</version>
+        </dependency>
+        <dependency>
+            <groupId>com.usatiuk.dhfs</groupId>
+            <artifactId>utils</artifactId>
+            <version>1.0-SNAPSHOT</version>
+        </dependency>
+    </dependencies>
+
+    <build>
+        <plugins>
+            <plugin>
+                <groupId>org.apache.maven.plugins</groupId>
+                <artifactId>maven-surefire-plugin</artifactId>
+                <configuration>
+                    <forkCount>1C</forkCount>
+                    <reuseForks>false</reuseForks>
+                    <parallel>classes</parallel>
+                    <systemPropertyVariables>
+                        <junit.jupiter.execution.parallel.enabled>
+                            false
+                        </junit.jupiter.execution.parallel.enabled>
+                    </systemPropertyVariables>
+                </configuration>
+            </plugin>
+            <plugin>
+                <groupId>org.apache.maven.plugins</groupId>
+                <artifactId>maven-failsafe-plugin</artifactId>
+                <configuration>
+                    <forkCount>1C</forkCount>
+                    <reuseForks>false</reuseForks>
+                    <parallel>classes</parallel>
+                    <systemPropertyVariables>
+                        <junit.jupiter.execution.parallel.enabled>
+                            false
+                        </junit.jupiter.execution.parallel.enabled>
+                        <junit.platform.output.capture.stdout>true</junit.platform.output.capture.stdout>
+                        <junit.platform.output.capture.stderr>true</junit.platform.output.capture.stderr>
+                    </systemPropertyVariables>
+                </configuration>
+            </plugin>
+            <plugin>
+                <groupId>${quarkus.platform.group-id}</groupId>
+                <artifactId>quarkus-maven-plugin</artifactId>
+                <version>${quarkus.platform.version}</version>
+                <extensions>true</extensions>
+                <executions>
+                    <execution>
+                        <id>quarkus-plugin</id>
+                        <goals>
+                            <goal>build</goal>
+                            <goal>generate-code</goal>
+                            <goal>generate-code-tests</goal>
+                        </goals>
+                    </execution>
+                </executions>
+            </plugin>
+        </plugins>
+    </build>
+</project>

dhfs-parent/dhfs-fuse/src/main/docker/Dockerfile.jvm

@@ -0,0 +1,97 @@
+####
+# This Dockerfile is used in order to build a container that runs the Quarkus application in JVM mode
+#
+# Before building the container image run:
+#
+# ./mvnw package
+#
+# Then, build the image with:
+#
+# docker build -f src/main/docker/Dockerfile.jvm -t quarkus/server-jvm .
+#
+# Then run the container using:
+#
+# docker run -i --rm -p 8080:8080 quarkus/server-jvm
+#
+# If you want to include the debug port into your docker image
+# you will have to expose the debug port (default 5005 being the default) like this :  EXPOSE 8080 5005.
+# Additionally you will have to set -e JAVA_DEBUG=true and -e JAVA_DEBUG_PORT=*:5005
+# when running the container
+#
+# Then run the container using :
+#
+# docker run -i --rm -p 8080:8080 quarkus/server-jvm
+#
+# This image uses the `run-java.sh` script to run the application.
+# This scripts computes the command line to execute your Java application, and
+# includes memory/GC tuning.
+# You can configure the behavior using the following environment properties:
+# - JAVA_OPTS: JVM options passed to the `java` command (example: "-verbose:class")
+# - JAVA_OPTS_APPEND: User specified Java options to be appended to generated options
+#   in JAVA_OPTS (example: "-Dsome.property=foo")
+# - JAVA_MAX_MEM_RATIO: Is used when no `-Xmx` option is given in JAVA_OPTS. This is
+#   used to calculate a default maximal heap memory based on a containers restriction.
+#   If used in a container without any memory constraints for the container then this
+#   option has no effect. If there is a memory constraint then `-Xmx` is set to a ratio
+#   of the container available memory as set here. The default is `50` which means 50%
+#   of the available memory is used as an upper boundary. You can skip this mechanism by
+#   setting this value to `0` in which case no `-Xmx` option is added.
+# - JAVA_INITIAL_MEM_RATIO: Is used when no `-Xms` option is given in JAVA_OPTS. This
+#   is used to calculate a default initial heap memory based on the maximum heap memory.
+#   If used in a container without any memory constraints for the container then this
+#   option has no effect. If there is a memory constraint then `-Xms` is set to a ratio
+#   of the `-Xmx` memory as set here. The default is `25` which means 25% of the `-Xmx`
+#   is used as the initial heap size. You can skip this mechanism by setting this value
+#   to `0` in which case no `-Xms` option is added (example: "25")
+# - JAVA_MAX_INITIAL_MEM: Is used when no `-Xms` option is given in JAVA_OPTS.
+#   This is used to calculate the maximum value of the initial heap memory. If used in
+#   a container without any memory constraints for the container then this option has
+#   no effect. If there is a memory constraint then `-Xms` is limited to the value set
+#   here. The default is 4096MB which means the calculated value of `-Xms` never will
+#   be greater than 4096MB. The value of this variable is expressed in MB (example: "4096")
+# - JAVA_DIAGNOSTICS: Set this to get some diagnostics information to standard output
+#   when things are happening. This option, if set to true, will set
+#  `-XX:+UnlockDiagnosticVMOptions`. Disabled by default (example: "true").
+# - JAVA_DEBUG: If set remote debugging will be switched on. Disabled by default (example:
+#    true").
+# - JAVA_DEBUG_PORT: Port used for remote debugging. Defaults to 5005 (example: "8787").
+# - CONTAINER_CORE_LIMIT: A calculated core limit as described in
+#   https://www.kernel.org/doc/Documentation/scheduler/sched-bwc.txt. (example: "2")
+# - CONTAINER_MAX_MEMORY: Memory limit given to the container (example: "1024").
+# - GC_MIN_HEAP_FREE_RATIO: Minimum percentage of heap free after GC to avoid expansion.
+#   (example: "20")
+# - GC_MAX_HEAP_FREE_RATIO: Maximum percentage of heap free after GC to avoid shrinking.
+#   (example: "40")
+# - GC_TIME_RATIO: Specifies the ratio of the time spent outside the garbage collection.
+#   (example: "4")
+# - GC_ADAPTIVE_SIZE_POLICY_WEIGHT: The weighting given to the current GC time versus
+#   previous GC times. (example: "90")
+# - GC_METASPACE_SIZE: The initial metaspace size. (example: "20")
+# - GC_MAX_METASPACE_SIZE: The maximum metaspace size. (example: "100")
+# - GC_CONTAINER_OPTIONS: Specify Java GC to use. The value of this variable should
+#   contain the necessary JRE command-line options to specify the required GC, which
+#   will override the default of `-XX:+UseParallelGC` (example: -XX:+UseG1GC).
+# - HTTPS_PROXY: The location of the https proxy. (example: "myuser@127.0.0.1:8080")
+# - HTTP_PROXY: The location of the http proxy. (example: "myuser@127.0.0.1:8080")
+# - NO_PROXY: A comma separated lists of hosts, IP addresses or domains that can be
+#   accessed directly. (example: "foo.example.com,bar.example.com")
+#
+###
+FROM registry.access.redhat.com/ubi8/openjdk-21:1.18
+
+ENV LANGUAGE='en_US:en'
+
+
+# We make four distinct layers so if there are application changes the library layers can be re-used
+COPY --chown=185 target/quarkus-app/lib/ /deployments/lib/
+COPY --chown=185 target/quarkus-app/*.jar /deployments/
+COPY --chown=185 target/quarkus-app/app/ /deployments/app/
+COPY --chown=185 target/quarkus-app/quarkus/ /deployments/quarkus/
+
+EXPOSE 8080
+USER 185
+ENV JAVA_OPTS_APPEND="-Dquarkus.http.host=0.0.0.0 -Djava.util.logging.manager=org.jboss.logmanager.LogManager"
+ENV JAVA_APP_JAR="/deployments/quarkus-run.jar"
+
+ENTRYPOINT [ "/opt/jboss/container/java/run/run-java.sh" ]
+

dhfs-parent/dhfs-fuse/src/main/docker/Dockerfile.legacy-jar

@@ -0,0 +1,93 @@
+####
+# This Dockerfile is used in order to build a container that runs the Quarkus application in JVM mode
+#
+# Before building the container image run:
+#
+# ./mvnw package -Dquarkus.package.jar.type=legacy-jar
+#
+# Then, build the image with:
+#
+# docker build -f src/main/docker/Dockerfile.legacy-jar -t quarkus/server-legacy-jar .
+#
+# Then run the container using:
+#
+# docker run -i --rm -p 8080:8080 quarkus/server-legacy-jar
+#
+# If you want to include the debug port into your docker image
+# you will have to expose the debug port (default 5005 being the default) like this :  EXPOSE 8080 5005.
+# Additionally you will have to set -e JAVA_DEBUG=true and -e JAVA_DEBUG_PORT=*:5005
+# when running the container
+#
+# Then run the container using :
+#
+# docker run -i --rm -p 8080:8080 quarkus/server-legacy-jar
+#
+# This image uses the `run-java.sh` script to run the application.
+# This scripts computes the command line to execute your Java application, and
+# includes memory/GC tuning.
+# You can configure the behavior using the following environment properties:
+# - JAVA_OPTS: JVM options passed to the `java` command (example: "-verbose:class")
+# - JAVA_OPTS_APPEND: User specified Java options to be appended to generated options
+#   in JAVA_OPTS (example: "-Dsome.property=foo")
+# - JAVA_MAX_MEM_RATIO: Is used when no `-Xmx` option is given in JAVA_OPTS. This is
+#   used to calculate a default maximal heap memory based on a containers restriction.
+#   If used in a container without any memory constraints for the container then this
+#   option has no effect. If there is a memory constraint then `-Xmx` is set to a ratio
+#   of the container available memory as set here. The default is `50` which means 50%
+#   of the available memory is used as an upper boundary. You can skip this mechanism by
+#   setting this value to `0` in which case no `-Xmx` option is added.
+# - JAVA_INITIAL_MEM_RATIO: Is used when no `-Xms` option is given in JAVA_OPTS. This
+#   is used to calculate a default initial heap memory based on the maximum heap memory.
+#   If used in a container without any memory constraints for the container then this
+#   option has no effect. If there is a memory constraint then `-Xms` is set to a ratio
+#   of the `-Xmx` memory as set here. The default is `25` which means 25% of the `-Xmx`
+#   is used as the initial heap size. You can skip this mechanism by setting this value
+#   to `0` in which case no `-Xms` option is added (example: "25")
+# - JAVA_MAX_INITIAL_MEM: Is used when no `-Xms` option is given in JAVA_OPTS.
+#   This is used to calculate the maximum value of the initial heap memory. If used in
+#   a container without any memory constraints for the container then this option has
+#   no effect. If there is a memory constraint then `-Xms` is limited to the value set
+#   here. The default is 4096MB which means the calculated value of `-Xms` never will
+#   be greater than 4096MB. The value of this variable is expressed in MB (example: "4096")
+# - JAVA_DIAGNOSTICS: Set this to get some diagnostics information to standard output
+#   when things are happening. This option, if set to true, will set
+#  `-XX:+UnlockDiagnosticVMOptions`. Disabled by default (example: "true").
+# - JAVA_DEBUG: If set remote debugging will be switched on. Disabled by default (example:
+#    true").
+# - JAVA_DEBUG_PORT: Port used for remote debugging. Defaults to 5005 (example: "8787").
+# - CONTAINER_CORE_LIMIT: A calculated core limit as described in
+#   https://www.kernel.org/doc/Documentation/scheduler/sched-bwc.txt. (example: "2")
+# - CONTAINER_MAX_MEMORY: Memory limit given to the container (example: "1024").
+# - GC_MIN_HEAP_FREE_RATIO: Minimum percentage of heap free after GC to avoid expansion.
+#   (example: "20")
+# - GC_MAX_HEAP_FREE_RATIO: Maximum percentage of heap free after GC to avoid shrinking.
+#   (example: "40")
+# - GC_TIME_RATIO: Specifies the ratio of the time spent outside the garbage collection.
+#   (example: "4")
+# - GC_ADAPTIVE_SIZE_POLICY_WEIGHT: The weighting given to the current GC time versus
+#   previous GC times. (example: "90")
+# - GC_METASPACE_SIZE: The initial metaspace size. (example: "20")
+# - GC_MAX_METASPACE_SIZE: The maximum metaspace size. (example: "100")
+# - GC_CONTAINER_OPTIONS: Specify Java GC to use. The value of this variable should
+#   contain the necessary JRE command-line options to specify the required GC, which
+#   will override the default of `-XX:+UseParallelGC` (example: -XX:+UseG1GC).
+# - HTTPS_PROXY: The location of the https proxy. (example: "myuser@127.0.0.1:8080")
+# - HTTP_PROXY: The location of the http proxy. (example: "myuser@127.0.0.1:8080")
+# - NO_PROXY: A comma separated lists of hosts, IP addresses or domains that can be
+#   accessed directly. (example: "foo.example.com,bar.example.com")
+#
+###
+FROM registry.access.redhat.com/ubi8/openjdk-21:1.18
+
+ENV LANGUAGE='en_US:en'
+
+
+COPY target/lib/* /deployments/lib/
+COPY target/*-runner.jar /deployments/quarkus-run.jar
+
+EXPOSE 8080
+USER 185
+ENV JAVA_OPTS_APPEND="-Dquarkus.http.host=0.0.0.0 -Djava.util.logging.manager=org.jboss.logmanager.LogManager"
+ENV JAVA_APP_JAR="/deployments/quarkus-run.jar"
+
+ENTRYPOINT [ "/opt/jboss/container/java/run/run-java.sh" ]

dhfs-parent/dhfs-fuse/src/main/docker/Dockerfile.native

@@ -0,0 +1,27 @@
+####
+# This Dockerfile is used in order to build a container that runs the Quarkus application in native (no JVM) mode.
+#
+# Before building the container image run:
+#
+# ./mvnw package -Dnative
+#
+# Then, build the image with:
+#
+# docker build -f src/main/docker/Dockerfile.native -t quarkus/server .
+#
+# Then run the container using:
+#
+# docker run -i --rm -p 8080:8080 quarkus/server
+#
+###
+FROM registry.access.redhat.com/ubi8/ubi-minimal:8.9
+WORKDIR /work/
+RUN chown 1001 /work \
+    && chmod "g+rwX" /work \
+    && chown 1001:root /work
+COPY --chown=1001:root target/*-runner /work/application
+
+EXPOSE 8080
+USER 1001
+
+ENTRYPOINT ["./application", "-Dquarkus.http.host=0.0.0.0"]

dhfs-parent/dhfs-fuse/src/main/docker/Dockerfile.native-micro

@@ -0,0 +1,30 @@
+####
+# This Dockerfile is used in order to build a container that runs the Quarkus application in native (no JVM) mode.
+# It uses a micro base image, tuned for Quarkus native executables.
+# It reduces the size of the resulting container image.
+# Check https://quarkus.io/guides/quarkus-runtime-base-image for further information about this image.
+#
+# Before building the container image run:
+#
+# ./mvnw package -Dnative
+#
+# Then, build the image with:
+#
+# docker build -f src/main/docker/Dockerfile.native-micro -t quarkus/server .
+#
+# Then run the container using:
+#
+# docker run -i --rm -p 8080:8080 quarkus/server
+#
+###
+FROM quay.io/quarkus/quarkus-micro-image:2.0
+WORKDIR /work/
+RUN chown 1001 /work \
+    && chmod "g+rwX" /work \
+    && chown 1001:root /work
+COPY --chown=1001:root target/*-runner /work/application
+
+EXPOSE 8080
+USER 1001
+
+ENTRYPOINT ["./application", "-Dquarkus.http.host=0.0.0.0"]

dhfs-parent/dhfs-fuse/src/main/java/com/usatiuk/dhfsfuse/DhfsFuse.java

@@ -1,12 +1,15 @@
-package com.usatiuk.dhfs.fuse;
+package com.usatiuk.dhfsfuse;
 
 import com.google.protobuf.UnsafeByteOperations;
+import com.kenai.jffi.MemoryIO;
 import com.sun.security.auth.module.UnixSystem;
-import com.usatiuk.dhfs.files.service.DhfsFileService;
-import com.usatiuk.dhfs.files.service.DirectoryNotEmptyException;
-import com.usatiuk.dhfs.files.service.GetattrRes;
-import com.usatiuk.dhfs.supportlib.UninitializedByteBuffer;
+import com.usatiuk.dhfsfs.service.DhfsFileService;
+import com.usatiuk.dhfsfs.service.DirectoryNotEmptyException;
+import com.usatiuk.dhfsfs.service.GetattrRes;
 import com.usatiuk.kleppmanntree.AlreadyExistsException;
+import com.usatiuk.objects.JObjectKey;
+import com.usatiuk.utils.UninitializedByteBuffer;
+import com.usatiuk.utils.UnsafeAccessor;
 import io.grpc.Status;
 import io.grpc.StatusRuntimeException;
 import io.quarkus.logging.Log;
@@ -17,26 +20,34 @@ import jakarta.enterprise.context.ApplicationScoped;
 import jakarta.enterprise.event.Observes;
 import jakarta.inject.Inject;
 import jnr.ffi.Pointer;
+import jnr.ffi.Runtime;
+import jnr.ffi.Struct;
+import jnr.ffi.types.off_t;
 import org.apache.commons.lang3.SystemUtils;
 import org.eclipse.microprofile.config.inject.ConfigProperty;
 import ru.serce.jnrfuse.ErrorCodes;
 import ru.serce.jnrfuse.FuseFillDir;
 import ru.serce.jnrfuse.FuseStubFS;
-import ru.serce.jnrfuse.struct.FileStat;
-import ru.serce.jnrfuse.struct.FuseFileInfo;
-import ru.serce.jnrfuse.struct.Statvfs;
-import ru.serce.jnrfuse.struct.Timespec;
+import ru.serce.jnrfuse.struct.*;
 
+import java.nio.ByteBuffer;
 import java.nio.file.Paths;
 import java.util.ArrayList;
 import java.util.Optional;
+import java.util.concurrent.ConcurrentHashMap;
+import java.util.concurrent.atomic.AtomicLong;
 
 import static jnr.posix.FileStat.*;
 
+/**
+ * FUSE file system implementation.
+ */
 @ApplicationScoped
 public class DhfsFuse extends FuseStubFS {
     private static final int blksize = 1048576;
     private static final int iosize = 1048576;
+    private final ConcurrentHashMap<Long, JObjectKey> _openHandles = new ConcurrentHashMap<>();
+    private final AtomicLong _fh = new AtomicLong(1);
     @ConfigProperty(name = "dhfs.fuse.root")
     String root;
     @ConfigProperty(name = "dhfs.fuse.enabled")
@@ -46,42 +57,78 @@ public class DhfsFuse extends FuseStubFS {
     @ConfigProperty(name = "dhfs.files.target_chunk_size")
     int targetChunkSize;
     @Inject
-    JnrPtrByteOutputAccessors jnrPtrByteOutputAccessors;
-    @Inject
     DhfsFileService fileService;
 
+    /**
+     * Allocate a handle for the given key.
+     * @param key the key to allocate a handle for
+     * @return the allocated handle, not 0
+     */
+    private long allocateHandle(JObjectKey key) {
+        while (true) {
+            var newFh = _fh.getAndIncrement();
+            if (newFh == 0) continue;
+            if (_openHandles.putIfAbsent(newFh, key) == null) {
+                return newFh;
+            }
+        }
+    }
+
+    /**
+     * Get the key from the handle.
+     * @param handle the handle to get the key from
+     * @return the key, or null if not found
+     */
+    private JObjectKey getFromHandle(long handle) {
+        if(handle == 0)
+            throw new IllegalStateException("Handle is 0");
+        return _openHandles.get(handle);
+    }
+
     void init(@Observes @Priority(100000) StartupEvent event) {
         if (!enabled) return;
-        Paths.get(root).toFile().mkdirs();
+
         Log.info("Mounting with root " + root);
-
-        var uid = new UnixSystem().getUid();
-        var gid = new UnixSystem().getGid();
-
         var opts = new ArrayList<String>();
 
-        // Assuming macFuse
-        if (SystemUtils.IS_OS_MAC) {
+        if (SystemUtils.IS_OS_WINDOWS) {
             opts.add("-o");
-            opts.add("iosize=" + iosize);
-        } else if (SystemUtils.IS_OS_LINUX) {
-            // FIXME: There's something else missing: the writes still seem to be 32k max
+            opts.add("auto_cache");
+            opts.add("-o");
+            opts.add("uid=-1");
+            opts.add("-o");
+            opts.add("gid=-1");
+        } else {
+            Paths.get(root).toFile().mkdirs();
+
+            if (!Paths.get(root).toFile().isDirectory())
+                throw new IllegalStateException("Could not create directory " + root);
+
+            var uid = new UnixSystem().getUid();
+            var gid = new UnixSystem().getGid();
+
+            // Assuming macFuse
+            if (SystemUtils.IS_OS_MAC) {
+                opts.add("-o");
+                opts.add("iosize=" + iosize);
+            } else if (SystemUtils.IS_OS_LINUX) {
+                // FIXME: There's something else missing: the writes still seem to be 32k max
 //            opts.add("-o");
 //            opts.add("large_read");
+                opts.add("-o");
+                opts.add("big_writes");
+                opts.add("-o");
+                opts.add("max_read=" + iosize);
+                opts.add("-o");
+                opts.add("max_write=" + iosize);
+            }
             opts.add("-o");
-            opts.add("big_writes");
+            opts.add("auto_cache");
             opts.add("-o");
-            opts.add("max_read=" + iosize);
+            opts.add("uid=" + uid);
             opts.add("-o");
-            opts.add("max_write=" + iosize);
+            opts.add("gid=" + gid);
         }
-        opts.add("-o");
-        opts.add("auto_cache");
-        opts.add("-o");
-        opts.add("uid=" + uid);
-        opts.add("-o");
-        opts.add("gid=" + gid);
-
         mount(Paths.get(root), false, debug, opts.toArray(String[]::new));
     }
 
@@ -174,7 +221,9 @@ public class DhfsFuse extends FuseStubFS {
     @Override
     public int open(String path, FuseFileInfo fi) {
         try {
-            if (fileService.open(path).isEmpty()) return -ErrorCodes.ENOENT();
+            var opened = fileService.open(path);
+            if (opened.isEmpty()) return -ErrorCodes.ENOENT();
+            fi.fh.set(allocateHandle(opened.get()));
             return 0;
         } catch (Throwable e) {
             Log.error("When open " + path, e);
@@ -182,18 +231,23 @@ public class DhfsFuse extends FuseStubFS {
         }
     }
 
+    @Override
+    public int release(String path, FuseFileInfo fi) {
+        assert fi.fh.get() != 0;
+        _openHandles.remove(fi.fh.get());
+        return 0;
+    }
+
     @Override
     public int read(String path, Pointer buf, long size, long offset, FuseFileInfo fi) {
         if (size < 0) return -ErrorCodes.EINVAL();
         if (offset < 0) return -ErrorCodes.EINVAL();
         try {
-            var fileOpt = fileService.open(path);
-            if (fileOpt.isEmpty()) return -ErrorCodes.ENOENT();
-            var file = fileOpt.get();
-            var read = fileService.read(fileOpt.get(), offset, (int) size);
+            var fileKey = getFromHandle(fi.fh.get());
+            var read = fileService.read(fileKey, offset, (int) size);
             if (read.isEmpty()) return 0;
-            UnsafeByteOperations.unsafeWriteTo(read.get(), new JnrPtrByteOutput(jnrPtrByteOutputAccessors, buf, size));
-            return read.get().size();
+            UnsafeByteOperations.unsafeWriteTo(read, new JnrPtrByteOutput(buf, size));
+            return read.size();
         } catch (Throwable e) {
             Log.error("When reading " + path, e);
             return -ErrorCodes.EIO();
@@ -202,25 +256,22 @@ public class DhfsFuse extends FuseStubFS {
 
     @Override
     public int write(String path, Pointer buf, long size, long offset, FuseFileInfo fi) {
+        var buffer = UninitializedByteBuffer.allocate((int) size);
+        UnsafeAccessor.UNSAFE.copyMemory(
+                buf.address(),
+                UnsafeAccessor.NIO.getBufferAddress(buffer),
+                size
+        );
+        return write(path, buffer, offset, fi);
+    }
+
+    public int write(String path, ByteBuffer buffer, long offset, FuseFileInfo fi) {
         if (offset < 0) return -ErrorCodes.EINVAL();
         try {
-            var fileOpt = fileService.open(path);
-            if (fileOpt.isEmpty()) return -ErrorCodes.ENOENT();
-            var buffer = UninitializedByteBuffer.allocateUninitialized((int) size);
-
-            if (buffer.isDirect()) {
-                jnrPtrByteOutputAccessors.getUnsafe().copyMemory(
-                        buf.address(),
-                        jnrPtrByteOutputAccessors.getNioAccess().getBufferAddress(buffer),
-                        size
-                );
-            } else {
-                buf.get(0, buffer.array(), 0, (int) size);
-            }
-
-            var written = fileService.write(fileOpt.get(), offset, UnsafeByteOperations.unsafeWrap(buffer));
+            var fileKey = getFromHandle(fi.fh.get());
+            var written = fileService.write(fileKey, offset, UnsafeByteOperations.unsafeWrap(buffer));
             return written.intValue();
-        } catch (Throwable e) {
+        } catch (Exception e) {
             Log.error("When writing " + path, e);
             return -ErrorCodes.EIO();
         }
@@ -231,7 +282,8 @@ public class DhfsFuse extends FuseStubFS {
         try {
             var ret = fileService.create(path, mode);
             if (ret.isEmpty()) return -ErrorCodes.ENOSPC();
-            else return 0;
+            fi.fh.set(allocateHandle(ret.get()));
+            return 0;
         } catch (Throwable e) {
             Log.error("When creating " + path, e);
             return -ErrorCodes.EIO();
@@ -355,7 +407,7 @@ public class DhfsFuse extends FuseStubFS {
             var file = fileOpt.get();
             var read = fileService.readlinkBS(fileOpt.get());
             if (read.isEmpty()) return 0;
-            UnsafeByteOperations.unsafeWriteTo(read, new JnrPtrByteOutput(jnrPtrByteOutputAccessors, buf, size));
+            UnsafeByteOperations.unsafeWriteTo(read, new JnrPtrByteOutput(buf, size));
             buf.putByte(Math.min(size - 1, read.size()), (byte) 0);
             return 0;
         } catch (Throwable e) {
@@ -387,4 +439,29 @@ public class DhfsFuse extends FuseStubFS {
             return -ErrorCodes.EIO();
         }
     }
+
+    @Override
+    public int write_buf(String path, FuseBufvec buf, @off_t long off, FuseFileInfo fi) {
+        int size = (int) libFuse.fuse_buf_size(buf);
+        FuseBufvec tmpVec = new FuseBufvec(Runtime.getSystemRuntime());
+        long tmpVecAddr = MemoryIO.getInstance().allocateMemory(Struct.size(tmpVec), false);
+        try {
+            tmpVec.useMemory(Pointer.wrap(Runtime.getSystemRuntime(), tmpVecAddr));
+            FuseBufvec.init(tmpVec, size);
+            var bb = UninitializedByteBuffer.allocate(size);
+            var mem = UninitializedByteBuffer.getAddress(bb);
+            tmpVec.buf.mem.set(mem);
+            tmpVec.buf.size.set(size);
+            int res = (int) libFuse.fuse_buf_copy(tmpVec, buf, 0);
+            if (res != size) {
+                Log.errorv("fuse_buf_copy failed: {0} != {1}", res, size);
+                return -ErrorCodes.ENOMEM();
+            }
+            return write(path, bb, off, fi);
+        } finally {
+            if (tmpVecAddr != 0) {
+                MemoryIO.getInstance().freeMemory(tmpVecAddr);
+            }
+        }
+    }
 }

dhfs-parent/dhfs-fuse/src/main/java/com/usatiuk/dhfsfuse/JnrPtrByteOutput.java

@@ -1,22 +1,24 @@
-package com.usatiuk.dhfs.fuse;
+package com.usatiuk.dhfsfuse;
 
 import com.google.protobuf.ByteOutput;
+import com.usatiuk.utils.UnsafeAccessor;
 import jnr.ffi.Pointer;
 
 import java.nio.ByteBuffer;
 import java.nio.MappedByteBuffer;
 
+/**
+ * JnrPtrByteOutput is a ByteOutput implementation that writes to a `jnr.ffi.Pointer`.
+ */
 public class JnrPtrByteOutput extends ByteOutput {
     private final Pointer _backing;
     private final long _size;
-    private final JnrPtrByteOutputAccessors _accessors;
     private long _pos;
 
-    public JnrPtrByteOutput(JnrPtrByteOutputAccessors accessors, Pointer backing, long size) {
+    public JnrPtrByteOutput(Pointer backing, long size) {
         _backing = backing;
         _size = size;
         _pos = 0;
-        _accessors = accessors;
     }
 
     @Override
@@ -47,9 +49,9 @@ public class JnrPtrByteOutput extends ByteOutput {
             if (value instanceof MappedByteBuffer mb) {
                 mb.load();
             }
-            long addr = _accessors.getNioAccess().getBufferAddress(value) + value.position();
+            long addr = UnsafeAccessor.NIO.getBufferAddress(value) + value.position();
             var out = _backing.address() + _pos;
-            _accessors.getUnsafe().copyMemory(addr, out, rem);
+            UnsafeAccessor.UNSAFE.copyMemory(addr, out, rem);
         } else {
             _backing.put(_pos, value.array(), value.arrayOffset() + value.position(), rem);
         }

dhfs-parent/dhfs-fuse/src/main/java/com/usatiuk/dhfsfuse/Main.java

@@ -1,4 +1,4 @@
-package com.usatiuk.dhfs;
+package com.usatiuk.dhfsfuse;
 
 import io.quarkus.runtime.Quarkus;
 import io.quarkus.runtime.QuarkusApplication;

dhfs-parent/dhfs-fuse/src/main/resources/application.properties

@@ -0,0 +1,35 @@
+quarkus.grpc.server.use-separate-server=false
+dhfs.objects.peerdiscovery.port=42069
+dhfs.objects.peerdiscovery.interval=4s
+dhfs.objects.peerdiscovery.broadcast=true
+dhfs.objects.sync.timeout=30
+dhfs.objects.sync.ping.timeout=5
+dhfs.objects.invalidation.threads=16
+dhfs.objects.invalidation.delay=1000
+dhfs.objects.reconnect_interval=5s
+dhfs.objects.write_log=false
+dhfs.objects.periodic-push-op-interval=5m
+dhfs.fuse.root=${HOME}/dhfs_default/fuse
+dhfs.objects.persistence.stuff.root=${HOME}/dhfs_default/data/stuff
+dhfs.fuse.debug=false
+dhfs.fuse.enabled=true
+dhfs.files.allow_recursive_delete=false
+dhfs.files.target_chunk_size=524288
+dhfs.files.max_chunk_size=524288
+dhfs.files.target_chunk_alignment=17
+dhfs.objects.deletion.delay=1000
+dhfs.objects.deletion.can-delete-retry-delay=10000
+dhfs.objects.ref_verification=true
+dhfs.files.use_hash_for_chunks=false
+dhfs.objects.autosync.threads=16
+dhfs.objects.autosync.download-all=false
+dhfs.objects.move-processor.threads=16
+dhfs.objects.ref-processor.threads=16
+dhfs.objects.opsender.batch-size=100
+dhfs.objects.lock_timeout_secs=2
+dhfs.local-discovery=true
+dhfs.peerdiscovery.timeout=10000
+quarkus.log.category."com.usatiuk".min-level=TRACE
+quarkus.log.category."com.usatiuk".level=TRACE
+quarkus.http.insecure-requests=enabled
+quarkus.http.ssl.client-auth=required

dhfs-parent/dhfs-fuse/src/test/java/com/usatiuk/dhfsfuse/DhfsFuseTest.java

@@ -1,6 +1,5 @@
-package com.usatiuk.dhfs.fuse;
+package com.usatiuk.dhfsfuse;
 
-import com.usatiuk.dhfs.TempDataProfile;
 import io.quarkus.test.junit.QuarkusTest;
 import io.quarkus.test.junit.TestProfile;
 import org.eclipse.microprofile.config.inject.ConfigProperty;

dhfs-parent/dhfs-fuse/src/test/java/com/usatiuk/dhfsfuse/TempDataProfile.java

@@ -0,0 +1,29 @@
+package com.usatiuk.dhfsfuse;
+
+import io.quarkus.test.junit.QuarkusTestProfile;
+
+import java.io.IOException;
+import java.nio.file.Files;
+import java.nio.file.Path;
+import java.util.HashMap;
+import java.util.Map;
+
+abstract public class TempDataProfile implements QuarkusTestProfile {
+    protected void getConfigOverrides(Map<String, String> toPut) {
+    }
+
+    @Override
+    final public Map<String, String> getConfigOverrides() {
+        Path tempDirWithPrefix;
+        try {
+            tempDirWithPrefix = Files.createTempDirectory("dhfs-test");
+        } catch (IOException e) {
+            throw new RuntimeException(e);
+        }
+        var ret = new HashMap<String, String>();
+        ret.put("dhfs.objects.persistence.files.root", tempDirWithPrefix.resolve("dhfs_root_test").toString());
+        ret.put("dhfs.fuse.root", tempDirWithPrefix.resolve("dhfs_fuse_root_test").toString());
+        getConfigOverrides(ret);
+        return ret;
+    }
+}

dhfs-parent/dhfs-fuse/src/test/java/com/usatiuk/dhfsfuse/TestDataCleaner.java

@@ -0,0 +1,40 @@
+package com.usatiuk.dhfsfuse;
+
+import io.quarkus.logging.Log;
+import io.quarkus.runtime.ShutdownEvent;
+import io.quarkus.runtime.StartupEvent;
+import jakarta.annotation.Priority;
+import jakarta.enterprise.context.ApplicationScoped;
+import jakarta.enterprise.event.Observes;
+import org.eclipse.microprofile.config.inject.ConfigProperty;
+
+import java.io.File;
+import java.io.IOException;
+import java.nio.file.Path;
+import java.util.Objects;
+
+@ApplicationScoped
+public class TestDataCleaner {
+    @ConfigProperty(name = "dhfs.objects.persistence.files.root")
+    String tempDirectory;
+
+    void init(@Observes @Priority(1) StartupEvent event) throws IOException {
+        try {
+            purgeDirectory(Path.of(tempDirectory).toFile());
+        } catch (Exception ignored) {
+            Log.warn("Couldn't cleanup test data on init");
+        }
+    }
+
+    void shutdown(@Observes @Priority(1000000000) ShutdownEvent event) throws IOException {
+        purgeDirectory(Path.of(tempDirectory).toFile());
+    }
+
+    public static void purgeDirectory(File dir) {
+        for (File file : Objects.requireNonNull(dir.listFiles())) {
+            if (file.isDirectory())
+                purgeDirectory(file);
+            file.delete();
+        }
+    }
+}

dhfs-parent/dhfs-fuse/src/test/java/com/usatiuk/dhfsfuse/integration/DhfsFuseIT.java

@@ -1,4 +1,4 @@
-package com.usatiuk.dhfs.integration;
+package com.usatiuk.dhfsfuse.integration;
 
 import com.github.dockerjava.api.model.Device;
 import io.quarkus.logging.Log;
@@ -32,9 +32,11 @@ public class DhfsFuseIT {
     String c1uuid;
     String c2uuid;
 
+    Network network;
+
     @BeforeEach
     void setup(TestInfo testInfo) throws IOException, InterruptedException, TimeoutException {
-        Network network = Network.newNetwork();
+        network = Network.newNetwork();
         container1 = new GenericContainer<>(DhfsImage.getInstance())
                 .withPrivilegedMode(true)
                 .withCreateContainerCmdModifier(cmd -> Objects.requireNonNull(cmd.getHostConfig()).withDevices(Device.parse("/dev/fuse")))
@@ -53,8 +55,8 @@ public class DhfsFuseIT {
         var loggingConsumer2 = new Slf4jLogConsumer(LoggerFactory.getLogger(DhfsFuseIT.class)).withPrefix("2-" + testInfo.getDisplayName());
         container2.followOutput(loggingConsumer2.andThen(waitingConsumer2));
 
-        c1uuid = container1.execInContainer("/bin/sh", "-c", "cat /root/dhfs_default/data/stuff/self_uuid").getStdout();
-        c2uuid = container2.execInContainer("/bin/sh", "-c", "cat /root/dhfs_default/data/stuff/self_uuid").getStdout();
+        c1uuid = container1.execInContainer("/bin/sh", "-c", "cat /dhfs_test/data/stuff/self_uuid").getStdout();
+        c2uuid = container2.execInContainer("/bin/sh", "-c", "cat /dhfs_test/data/stuff/self_uuid").getStdout();
 
         Assertions.assertDoesNotThrow(() -> UUID.fromString(c1uuid));
         Assertions.assertDoesNotThrow(() -> UUID.fromString(c2uuid));
@@ -65,131 +67,119 @@ public class DhfsFuseIT {
         var c1curl = container1.execInContainer("/bin/sh", "-c",
                 "curl --header \"Content-Type: application/json\" " +
                         "  --request PUT " +
-                        "  --data '{\"uuid\":\"" + c2uuid + "\"}' " +
-                        "  http://localhost:8080/peers-manage/known-peers");
+                        "  --data '{}' " +
+                        "  http://localhost:8080/peers-manage/known-peers/" + c2uuid);
 
         var c2curl = container2.execInContainer("/bin/sh", "-c",
                 "curl --header \"Content-Type: application/json\" " +
                         "  --request PUT " +
-                        "  --data '{\"uuid\":\"" + c1uuid + "\"}' " +
-                        "  http://localhost:8080/peers-manage/known-peers");
+                        "  --data '{}' " +
+                        "  http://localhost:8080/peers-manage/known-peers/" + c1uuid);
 
         waitingConsumer2.waitUntil(frame -> frame.getUtf8String().contains("Connected"), 60, TimeUnit.SECONDS);
         waitingConsumer1.waitUntil(frame -> frame.getUtf8String().contains("Connected"), 60, TimeUnit.SECONDS);
     }
 
+    private void checkConsistency() {
+        await().atMost(45, TimeUnit.SECONDS).until(() -> {
+            Log.info("Listing consistency");
+            var cat1 = container1.execInContainer("/bin/sh", "-c", "cat /dhfs_test/fuse/*/*");
+            var cat2 = container2.execInContainer("/bin/sh", "-c", "cat /dhfs_test/fuse/*/*");
+            var ls1 = container1.execInContainer("/bin/sh", "-c", "ls /dhfs_test/fuse/*/*");
+            var ls2 = container2.execInContainer("/bin/sh", "-c", "ls /dhfs_test/fuse/*/*");
+            Log.info(ls1);
+            Log.info(cat1);
+            Log.info(ls2);
+            Log.info(cat2);
+
+            return ls1.equals(ls2) && cat1.equals(cat2);
+        });
+    }
+
     @AfterEach
     void stop() {
         Stream.of(container1, container2).parallel().forEach(GenericContainer::stop);
+        network.close();
     }
 
     @Test
     void readWriteFileTest() throws IOException, InterruptedException, TimeoutException {
-        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container1.execInContainer("/bin/sh", "-c", "echo tesempty > /root/dhfs_default/fuse/testf1").getExitCode());
+        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container1.execInContainer("/bin/sh", "-c", "echo tesempty > /dhfs_test/fuse/testf1").getExitCode());
         await().atMost(45, TimeUnit.SECONDS).until(() ->
-                "tesempty\n".equals(container2.execInContainer("/bin/sh", "-c", "cat /root/dhfs_default/fuse/testf1").getStdout()));
+                "tesempty\n".equals(container2.execInContainer("/bin/sh", "-c", "cat /dhfs_test/fuse/testf1").getStdout()));
     }
 
     @Test
     void readWriteRewriteFileTest() throws IOException, InterruptedException, TimeoutException {
-        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container1.execInContainer("/bin/sh", "-c", "echo tesempty > /root/dhfs_default/fuse/testf1").getExitCode());
+        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container1.execInContainer("/bin/sh", "-c", "echo tesempty > /dhfs_test/fuse/testf1").getExitCode());
         await().atMost(45, TimeUnit.SECONDS).until(() ->
-                "tesempty\n".equals(container2.execInContainer("/bin/sh", "-c", "cat /root/dhfs_default/fuse/testf1").getStdout()));
-        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container1.execInContainer("/bin/sh", "-c", "echo rewritten > /root/dhfs_default/fuse/testf1").getExitCode());
+                "tesempty\n".equals(container2.execInContainer("/bin/sh", "-c", "cat /dhfs_test/fuse/testf1").getStdout()));
+        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container1.execInContainer("/bin/sh", "-c", "echo rewritten > /dhfs_test/fuse/testf1").getExitCode());
         await().atMost(45, TimeUnit.SECONDS).until(() ->
-                "rewritten\n".equals(container2.execInContainer("/bin/sh", "-c", "cat /root/dhfs_default/fuse/testf1").getStdout()));
+                "rewritten\n".equals(container2.execInContainer("/bin/sh", "-c", "cat /dhfs_test/fuse/testf1").getStdout()));
     }
 
     @Test
     void createDelayedTest() throws IOException, InterruptedException, TimeoutException {
-        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container1.execInContainer("/bin/sh", "-c", "echo tesempty > /root/dhfs_default/fuse/testf1").getExitCode());
+        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container1.execInContainer("/bin/sh", "-c", "echo tesempty > /dhfs_test/fuse/testf1").getExitCode());
         await().atMost(45, TimeUnit.SECONDS).until(() ->
-                "tesempty\n".equals(container1.execInContainer("/bin/sh", "-c", "cat /root/dhfs_default/fuse/testf1").getStdout()));
+                "tesempty\n".equals(container1.execInContainer("/bin/sh", "-c", "cat /dhfs_test/fuse/testf1").getStdout()));
         await().atMost(45, TimeUnit.SECONDS).until(() ->
-                "tesempty\n".equals(container2.execInContainer("/bin/sh", "-c", "cat /root/dhfs_default/fuse/testf1").getStdout()));
+                "tesempty\n".equals(container2.execInContainer("/bin/sh", "-c", "cat /dhfs_test/fuse/testf1").getStdout()));
 
         var client = DockerClientFactory.instance().client();
         client.pauseContainerCmd(container2.getContainerId()).exec();
 
         waitingConsumer1.waitUntil(frame -> frame.getUtf8String().contains("Lost connection to"), 60, TimeUnit.SECONDS);
 
-        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container1.execInContainer("/bin/sh", "-c", "echo newfile > /root/dhfs_default/fuse/testf2").getExitCode());
+        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container1.execInContainer("/bin/sh", "-c", "echo newfile > /dhfs_test/fuse/testf2").getExitCode());
 
         client.unpauseContainerCmd(container2.getContainerId()).exec();
 
         waitingConsumer1.waitUntil(frame -> frame.getUtf8String().contains("Connected"), 60, TimeUnit.SECONDS);
         await().atMost(45, TimeUnit.SECONDS).until(() ->
-                "newfile\n".equals(container1.execInContainer("/bin/sh", "-c", "cat /root/dhfs_default/fuse/testf2").getStdout()));
+                "newfile\n".equals(container1.execInContainer("/bin/sh", "-c", "cat /dhfs_test/fuse/testf2").getStdout()));
         await().atMost(45, TimeUnit.SECONDS).until(() ->
-                "newfile\n".equals(container2.execInContainer("/bin/sh", "-c", "cat /root/dhfs_default/fuse/testf2").getStdout()));
+                "newfile\n".equals(container2.execInContainer("/bin/sh", "-c", "cat /dhfs_test/fuse/testf2").getStdout()));
     }
 
     @Test
     void writeRewriteDelayedTest() throws IOException, InterruptedException, TimeoutException {
-        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container1.execInContainer("/bin/sh", "-c", "echo tesempty > /root/dhfs_default/fuse/testf1").getExitCode());
+        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container1.execInContainer("/bin/sh", "-c", "echo tesempty > /dhfs_test/fuse/testf1").getExitCode());
         await().atMost(45, TimeUnit.SECONDS).until(() ->
-                "tesempty\n".equals(container1.execInContainer("/bin/sh", "-c", "cat /root/dhfs_default/fuse/testf1").getStdout()));
+                "tesempty\n".equals(container1.execInContainer("/bin/sh", "-c", "cat /dhfs_test/fuse/testf1").getStdout()));
         await().atMost(45, TimeUnit.SECONDS).until(() ->
-                "tesempty\n".equals(container2.execInContainer("/bin/sh", "-c", "cat /root/dhfs_default/fuse/testf1").getStdout()));
+                "tesempty\n".equals(container2.execInContainer("/bin/sh", "-c", "cat /dhfs_test/fuse/testf1").getStdout()));
 
         var client = DockerClientFactory.instance().client();
         client.pauseContainerCmd(container2.getContainerId()).exec();
 
         waitingConsumer1.waitUntil(frame -> frame.getUtf8String().contains("Lost connection to"), 60, TimeUnit.SECONDS);
 
-        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container1.execInContainer("/bin/sh", "-c", "echo rewritten > /root/dhfs_default/fuse/testf1").getExitCode());
+        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container1.execInContainer("/bin/sh", "-c", "echo rewritten > /dhfs_test/fuse/testf1").getExitCode());
 
         client.unpauseContainerCmd(container2.getContainerId()).exec();
 
         waitingConsumer1.waitUntil(frame -> frame.getUtf8String().contains("Connected"), 60, TimeUnit.SECONDS);
 
         await().atMost(45, TimeUnit.SECONDS).until(() ->
-                "rewritten\n".equals(container1.execInContainer("/bin/sh", "-c", "cat /root/dhfs_default/fuse/testf1").getStdout()));
+                "rewritten\n".equals(container1.execInContainer("/bin/sh", "-c", "cat /dhfs_test/fuse/testf1").getStdout()));
         await().atMost(45, TimeUnit.SECONDS).until(() ->
-                "rewritten\n".equals(container2.execInContainer("/bin/sh", "-c", "cat /root/dhfs_default/fuse/testf1").getStdout()));
-    }
-
-    // TODO: How this fits with the tree?
-    @Test
-    @Disabled
-    void deleteDelayedTest() throws IOException, InterruptedException, TimeoutException {
-        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container1.execInContainer("/bin/sh", "-c", "echo tesempty > /root/dhfs_default/fuse/testf1").getExitCode());
-        await().atMost(45, TimeUnit.SECONDS).until(() -> "tesempty\n".equals(container2.execInContainer("/bin/sh", "-c", "cat /root/dhfs_default/fuse/testf1").getStdout()));
-        await().atMost(45, TimeUnit.SECONDS).until(() -> "tesempty\n".equals(container1.execInContainer("/bin/sh", "-c", "cat /root/dhfs_default/fuse/testf1").getStdout()));
-
-        var client = DockerClientFactory.instance().client();
-        client.pauseContainerCmd(container2.getContainerId()).exec();
-
-        waitingConsumer1.waitUntil(frame -> frame.getUtf8String().contains("Lost connection to"), 60, TimeUnit.SECONDS);
-
-        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container1.execInContainer("/bin/sh", "-c", "rm /root/dhfs_default/fuse/testf1").getExitCode());
-        waitingConsumer1.waitUntil(frame -> frame.getUtf8String().contains("Delaying deletion check"), 60, TimeUnit.SECONDS, 1);
-
-        client.unpauseContainerCmd(container2.getContainerId()).exec();
-
-        waitingConsumer1.waitUntil(frame -> frame.getUtf8String().contains("Connected"), 60, TimeUnit.SECONDS);
-
-        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container2.execInContainer("/bin/sh", "-c", "ls /root/dhfs_default/fuse").getExitCode());
-
-        waitingConsumer1.waitUntil(frame -> frame.getUtf8String().contains("Deleting from persistent"), 60, TimeUnit.SECONDS, 1);
-        waitingConsumer2.waitUntil(frame -> frame.getUtf8String().contains("Deleting from persistent"), 60, TimeUnit.SECONDS, 3);
-
-        await().atMost(45, TimeUnit.SECONDS).until(() -> 1 == container2.execInContainer("/bin/sh", "-c", "test -f /root/dhfs_default/fuse/testf1").getExitCode());
-        await().atMost(45, TimeUnit.SECONDS).until(() -> 1 == container1.execInContainer("/bin/sh", "-c", "test -f /root/dhfs_default/fuse/testf1").getExitCode());
+                "rewritten\n".equals(container2.execInContainer("/bin/sh", "-c", "cat /dhfs_test/fuse/testf1").getStdout()));
     }
 
     @Test
     void deleteTest() throws IOException, InterruptedException, TimeoutException {
-        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container1.execInContainer("/bin/sh", "-c", "echo tesempty > /root/dhfs_default/fuse/testf1").getExitCode());
+        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container1.execInContainer("/bin/sh", "-c", "echo tesempty > /dhfs_test/fuse/testf1").getExitCode());
         await().atMost(45, TimeUnit.SECONDS).until(() ->
-                "tesempty\n".equals(container2.execInContainer("/bin/sh", "-c", "cat /root/dhfs_default/fuse/testf1").getStdout()));
+                "tesempty\n".equals(container2.execInContainer("/bin/sh", "-c", "cat /dhfs_test/fuse/testf1").getStdout()));
         await().atMost(45, TimeUnit.SECONDS).until(() ->
-                "tesempty\n".equals(container1.execInContainer("/bin/sh", "-c", "cat /root/dhfs_default/fuse/testf1").getStdout()));
+                "tesempty\n".equals(container1.execInContainer("/bin/sh", "-c", "cat /dhfs_test/fuse/testf1").getStdout()));
 
         Log.info("Deleting");
-        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container1.execInContainer("/bin/sh", "-c", "rm /root/dhfs_default/fuse/testf1").getExitCode());
+        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container1.execInContainer("/bin/sh", "-c", "rm /dhfs_test/fuse/testf1").getExitCode());
         await().atMost(45, TimeUnit.SECONDS).until(() ->
-                0 == container2.execInContainer("/bin/sh", "-c", "ls /root/dhfs_default/fuse").getExitCode());
+                0 == container2.execInContainer("/bin/sh", "-c", "ls /dhfs_test/fuse").getExitCode());
         Log.info("Deleted");
 
         // FIXME?
@@ -197,83 +187,105 @@ public class DhfsFuseIT {
         waitingConsumer2.waitUntil(frame -> frame.getUtf8String().contains("Deleting from persistent"), 60, TimeUnit.SECONDS, 3);
 
         await().atMost(45, TimeUnit.SECONDS).until(() ->
-                1 == container2.execInContainer("/bin/sh", "-c", "test -f /root/dhfs_default/fuse/testf1").getExitCode());
+                1 == container2.execInContainer("/bin/sh", "-c", "test -f /dhfs_test/fuse/testf1").getExitCode());
         await().atMost(45, TimeUnit.SECONDS).until(() ->
-                1 == container1.execInContainer("/bin/sh", "-c", "test -f /root/dhfs_default/fuse/testf1").getExitCode());
+                1 == container1.execInContainer("/bin/sh", "-c", "test -f /dhfs_test/fuse/testf1").getExitCode());
+    }
+
+    @Test
+    void deleteTestKickedOut() throws IOException, InterruptedException, TimeoutException {
+        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container1.execInContainer("/bin/sh", "-c", "echo tesempty > /dhfs_test/fuse/testf1").getExitCode());
+        await().atMost(45, TimeUnit.SECONDS).until(() ->
+                "tesempty\n".equals(container2.execInContainer("/bin/sh", "-c", "cat /dhfs_test/fuse/testf1").getStdout()));
+        await().atMost(45, TimeUnit.SECONDS).until(() ->
+                "tesempty\n".equals(container1.execInContainer("/bin/sh", "-c", "cat /dhfs_test/fuse/testf1").getStdout()));
+
+        container2.stop();
+        waitingConsumer1.waitUntil(frame -> frame.getUtf8String().contains("kicked"), 60, TimeUnit.SECONDS, 1);
+
+        Log.info("Deleting");
+        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container1.execInContainer("/bin/sh", "-c", "rm /dhfs_test/fuse/testf1").getExitCode());
+        Log.info("Deleted");
+
+        // FIXME?
+        waitingConsumer1.waitUntil(frame -> frame.getUtf8String().contains("Deleting from persistent"), 60, TimeUnit.SECONDS, 3);
+
+        await().atMost(45, TimeUnit.SECONDS).until(() ->
+                1 == container1.execInContainer("/bin/sh", "-c", "test -f /dhfs_test/fuse/testf1").getExitCode());
     }
 
     @Test
     void moveFileTest() throws IOException, InterruptedException, TimeoutException {
         Log.info("Creating");
-        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container1.execInContainer("/bin/sh", "-c", "echo tesempty > /root/dhfs_default/fuse/testf1").getExitCode());
-        await().atMost(45, TimeUnit.SECONDS).until(() -> "tesempty\n".equals(container1.execInContainer("/bin/sh", "-c", "cat /root/dhfs_default/fuse/testf1").getStdout()));
+        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container1.execInContainer("/bin/sh", "-c", "echo tesempty > /dhfs_test/fuse/testf1").getExitCode());
+        await().atMost(45, TimeUnit.SECONDS).until(() -> "tesempty\n".equals(container1.execInContainer("/bin/sh", "-c", "cat /dhfs_test/fuse/testf1").getStdout()));
         Log.info("Listing");
-        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container2.execInContainer("/bin/sh", "-c", "ls /root/dhfs_default/fuse/").getExitCode());
+        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container2.execInContainer("/bin/sh", "-c", "ls /dhfs_test/fuse/").getExitCode());
         Log.info("Moving");
-        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container2.execInContainer("/bin/sh", "-c", "mv /root/dhfs_default/fuse/testf1 /root/dhfs_default/fuse/testf2").getExitCode());
+        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container2.execInContainer("/bin/sh", "-c", "mv /dhfs_test/fuse/testf1 /dhfs_test/fuse/testf2").getExitCode());
         Log.info("Listing");
-        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container1.execInContainer("/bin/sh", "-c", "ls /root/dhfs_default/fuse/").getExitCode());
+        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container1.execInContainer("/bin/sh", "-c", "ls /dhfs_test/fuse/").getExitCode());
         Log.info("Reading");
-        await().atMost(45, TimeUnit.SECONDS).until(() -> "tesempty\n".equals(container1.execInContainer("/bin/sh", "-c", "cat /root/dhfs_default/fuse/testf2").getStdout()));
+        await().atMost(45, TimeUnit.SECONDS).until(() -> "tesempty\n".equals(container1.execInContainer("/bin/sh", "-c", "cat /dhfs_test/fuse/testf2").getStdout()));
     }
 
     @Test
     void moveDirTest() throws IOException, InterruptedException, TimeoutException {
         Log.info("Creating");
-        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container1.execInContainer("/bin/sh", "-c", "mkdir /root/dhfs_default/fuse/testdir").getExitCode());
-        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container1.execInContainer("/bin/sh", "-c", "echo tesempty > /root/dhfs_default/fuse/testdir/testf1").getExitCode());
-        await().atMost(45, TimeUnit.SECONDS).until(() -> "tesempty\n".equals(container1.execInContainer("/bin/sh", "-c", "cat /root/dhfs_default/fuse/testdir/testf1").getStdout()));
+        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container1.execInContainer("/bin/sh", "-c", "mkdir /dhfs_test/fuse/testdir").getExitCode());
+        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container1.execInContainer("/bin/sh", "-c", "echo tesempty > /dhfs_test/fuse/testdir/testf1").getExitCode());
+        await().atMost(45, TimeUnit.SECONDS).until(() -> "tesempty\n".equals(container1.execInContainer("/bin/sh", "-c", "cat /dhfs_test/fuse/testdir/testf1").getStdout()));
         Log.info("Listing");
-        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container2.execInContainer("/bin/sh", "-c", "ls /root/dhfs_default/fuse/").getExitCode());
+        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container2.execInContainer("/bin/sh", "-c", "ls /dhfs_test/fuse/").getExitCode());
         Log.info("Moving");
-        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container2.execInContainer("/bin/sh", "-c", "mkdir /root/dhfs_default/fuse/testdir2").getExitCode());
-        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container2.execInContainer("/bin/sh", "-c", "mv /root/dhfs_default/fuse/testdir /root/dhfs_default/fuse/testdir2/testdirm").getExitCode());
+        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container2.execInContainer("/bin/sh", "-c", "mkdir /dhfs_test/fuse/testdir2").getExitCode());
+        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container2.execInContainer("/bin/sh", "-c", "mv /dhfs_test/fuse/testdir /dhfs_test/fuse/testdir2/testdirm").getExitCode());
         Log.info("Listing");
-        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container1.execInContainer("/bin/sh", "-c", "ls /root/dhfs_default/fuse/").getExitCode());
+        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container1.execInContainer("/bin/sh", "-c", "ls /dhfs_test/fuse/").getExitCode());
         Log.info("Reading");
-        await().atMost(45, TimeUnit.SECONDS).until(() -> "tesempty\n".equals(container1.execInContainer("/bin/sh", "-c", "cat /root/dhfs_default/fuse/testdir2/testdirm/testf1").getStdout()));
+        await().atMost(45, TimeUnit.SECONDS).until(() -> "tesempty\n".equals(container1.execInContainer("/bin/sh", "-c", "cat /dhfs_test/fuse/testdir2/testdirm/testf1").getStdout()));
     }
 
 
     // TODO: This probably shouldn't be working right now
     @Test
     void removeAddHostTest() throws IOException, InterruptedException, TimeoutException {
-        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container1.execInContainer("/bin/sh", "-c", "echo tesempty > /root/dhfs_default/fuse/testf1").getExitCode());
-        await().atMost(45, TimeUnit.SECONDS).until(() -> "tesempty\n".equals(container2.execInContainer("/bin/sh", "-c", "cat /root/dhfs_default/fuse/testf1").getStdout()));
-        await().atMost(45, TimeUnit.SECONDS).until(() -> "tesempty\n".equals(container1.execInContainer("/bin/sh", "-c", "cat /root/dhfs_default/fuse/testf1").getStdout()));
+        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container1.execInContainer("/bin/sh", "-c", "echo tesempty > /dhfs_test/fuse/testf1").getExitCode());
+        await().atMost(45, TimeUnit.SECONDS).until(() -> "tesempty\n".equals(container2.execInContainer("/bin/sh", "-c", "cat /dhfs_test/fuse/testf1").getStdout()));
+        await().atMost(45, TimeUnit.SECONDS).until(() -> "tesempty\n".equals(container1.execInContainer("/bin/sh", "-c", "cat /dhfs_test/fuse/testf1").getStdout()));
 
         var c2curl = container2.execInContainer("/bin/sh", "-c",
                 "curl --header \"Content-Type: application/json\" " +
                         "  --request DELETE " +
-                        "  --data '{\"uuid\":\"" + c1uuid + "\"}' " +
-                        "  http://localhost:8080/peers-manage/known-peers");
+                        "  --data '{}' " +
+                        "  http://localhost:8080/peers-manage/known-peers/" + c1uuid);
 
-        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container2.execInContainer("/bin/sh", "-c", "echo rewritten > /root/dhfs_default/fuse/testf1").getExitCode());
-        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container2.execInContainer("/bin/sh", "-c", "echo jioadsd > /root/dhfs_default/fuse/newfile1").getExitCode());
-        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container1.execInContainer("/bin/sh", "-c", "echo asvdkljm > /root/dhfs_default/fuse/newfile1").getExitCode());
-        await().atMost(45, TimeUnit.SECONDS).until(() -> "tesempty\n".equals(container1.execInContainer("/bin/sh", "-c", "cat /root/dhfs_default/fuse/testf1").getStdout()));
+        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container2.execInContainer("/bin/sh", "-c", "echo rewritten > /dhfs_test/fuse/testf1").getExitCode());
+        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container2.execInContainer("/bin/sh", "-c", "echo jioadsd > /dhfs_test/fuse/newfile1").getExitCode());
+        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container1.execInContainer("/bin/sh", "-c", "echo asvdkljm > /dhfs_test/fuse/newfile1").getExitCode());
+        await().atMost(45, TimeUnit.SECONDS).until(() -> "tesempty\n".equals(container1.execInContainer("/bin/sh", "-c", "cat /dhfs_test/fuse/testf1").getStdout()));
 
         waitingConsumer1.waitUntil(frame -> frame.getUtf8String().contains("Lost connection to"), 60, TimeUnit.SECONDS);
-        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container2.execInContainer("/bin/sh", "-c", "echo dfgvh > /root/dhfs_default/fuse/newfile2").getExitCode());
-        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container1.execInContainer("/bin/sh", "-c", "echo dscfg > /root/dhfs_default/fuse/newfile2").getExitCode());
+        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container2.execInContainer("/bin/sh", "-c", "echo dfgvh > /dhfs_test/fuse/newfile2").getExitCode());
+        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container1.execInContainer("/bin/sh", "-c", "echo dscfg > /dhfs_test/fuse/newfile2").getExitCode());
 
         Log.info("Re-adding");
         container2.execInContainer("/bin/sh", "-c",
                 "curl --header \"Content-Type: application/json\" " +
                         "  --request PUT " +
-                        "  --data '{\"uuid\":\"" + c1uuid + "\"}' " +
-                        "  http://localhost:8080/peers-manage/known-peers");
+                        "  --data '{}' " +
+                        "  http://localhost:8080/peers-manage/known-peers/" + c1uuid);
         waitingConsumer2.waitUntil(frame -> frame.getUtf8String().contains("Connected"), 60, TimeUnit.SECONDS);
         waitingConsumer1.waitUntil(frame -> frame.getUtf8String().contains("Connected"), 60, TimeUnit.SECONDS);
 
-        await().atMost(45, TimeUnit.SECONDS).until(() -> "rewritten\n".equals(container1.execInContainer("/bin/sh", "-c", "cat /root/dhfs_default/fuse/testf1").getStdout()));
-        await().atMost(45, TimeUnit.SECONDS).until(() -> "rewritten\n".equals(container2.execInContainer("/bin/sh", "-c", "cat /root/dhfs_default/fuse/testf1").getStdout()));
+        await().atMost(45, TimeUnit.SECONDS).until(() -> "rewritten\n".equals(container1.execInContainer("/bin/sh", "-c", "cat /dhfs_test/fuse/testf1").getStdout()));
+        await().atMost(45, TimeUnit.SECONDS).until(() -> "rewritten\n".equals(container2.execInContainer("/bin/sh", "-c", "cat /dhfs_test/fuse/testf1").getStdout()));
         await().atMost(45, TimeUnit.SECONDS).until(() -> {
             Log.info("Listing removeAddHostTest");
-            var cat1 = container1.execInContainer("/bin/sh", "-c", "cat /root/dhfs_default/fuse/*");
-            var cat2 = container2.execInContainer("/bin/sh", "-c", "cat /root/dhfs_default/fuse/*");
-            var ls1 = container1.execInContainer("/bin/sh", "-c", "ls /root/dhfs_default/fuse/");
-            var ls2 = container2.execInContainer("/bin/sh", "-c", "ls /root/dhfs_default/fuse/");
+            var cat1 = container1.execInContainer("/bin/sh", "-c", "cat /dhfs_test/fuse/*");
+            var cat2 = container2.execInContainer("/bin/sh", "-c", "cat /dhfs_test/fuse/*");
+            var ls1 = container1.execInContainer("/bin/sh", "-c", "ls /dhfs_test/fuse/");
+            var ls2 = container2.execInContainer("/bin/sh", "-c", "ls /dhfs_test/fuse/");
             Log.info(cat1);
             Log.info(cat2);
             Log.info(ls1);
@@ -286,10 +298,10 @@ public class DhfsFuseIT {
 
     @Test
     void dirConflictTest() throws IOException, InterruptedException, TimeoutException {
-        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container1.execInContainer("/bin/sh", "-c", "ls /root/dhfs_default/fuse").getExitCode());
-        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container2.execInContainer("/bin/sh", "-c", "ls /root/dhfs_default/fuse").getExitCode());
-        boolean createFail = Stream.of(Pair.of(container1, "echo test1 >> /root/dhfs_default/fuse/testf"),
-                Pair.of(container2, "echo test2 >> /root/dhfs_default/fuse/testf")).parallel().map(p -> {
+        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container1.execInContainer("/bin/sh", "-c", "ls /dhfs_test/fuse").getExitCode());
+        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container2.execInContainer("/bin/sh", "-c", "ls /dhfs_test/fuse").getExitCode());
+        boolean createFail = Stream.of(Pair.of(container1, "echo test1 >> /dhfs_test/fuse/testf"),
+                Pair.of(container2, "echo test2 >> /dhfs_test/fuse/testf")).parallel().map(p -> {
             try {
                 return p.getLeft().execInContainer("/bin/sh", "-c", p.getRight()).getExitCode();
             } catch (Exception e) {
@@ -298,48 +310,75 @@ public class DhfsFuseIT {
         }).anyMatch(r -> r != 0);
         Assumptions.assumeTrue(!createFail, "Failed creating one or more files");
         await().atMost(45, TimeUnit.SECONDS).until(() -> {
-            var ls = container2.execInContainer("/bin/sh", "-c", "ls /root/dhfs_default/fuse");
-            var cat = container2.execInContainer("/bin/sh", "-c", "cat /root/dhfs_default/fuse/*");
+            var ls = container2.execInContainer("/bin/sh", "-c", "ls /dhfs_test/fuse");
+            var cat = container2.execInContainer("/bin/sh", "-c", "cat /dhfs_test/fuse/*");
             Log.info(ls);
             Log.info(cat);
             return cat.getStdout().contains("test1") && cat.getStdout().contains("test2");
         });
     }
 
+    @Test
+    void dirConflictTest2() throws IOException, InterruptedException, TimeoutException {
+        var client = DockerClientFactory.instance().client();
+        client.disconnectFromNetworkCmd().withContainerId(container1.getContainerId()).withNetworkId(network.getId()).exec();
+        client.disconnectFromNetworkCmd().withContainerId(container2.getContainerId()).withNetworkId(network.getId()).exec();
+
+        waitingConsumer2.waitUntil(frame -> frame.getUtf8String().contains("Lost connection to"), 60, TimeUnit.SECONDS, 1);
+        waitingConsumer1.waitUntil(frame -> frame.getUtf8String().contains("Lost connection to"), 60, TimeUnit.SECONDS, 1);
+
+        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container2.execInContainer("/bin/sh", "-c", "mkdir /dhfs_test/fuse/a && echo fdsaio >> /dhfs_test/fuse/a/testf").getExitCode());
+        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container1.execInContainer("/bin/sh", "-c", "mkdir /dhfs_test/fuse/a && echo exgrg >> /dhfs_test/fuse/a/testf").getExitCode());
+
+        client.connectToNetworkCmd().withContainerId(container1.getContainerId()).withNetworkId(network.getId()).exec();
+        client.connectToNetworkCmd().withContainerId(container2.getContainerId()).withNetworkId(network.getId()).exec();
+
+        Log.warn("Waiting for connections");
+        waitingConsumer1.waitUntil(frame -> frame.getUtf8String().contains("Connected"), 60, TimeUnit.SECONDS, 1);
+        waitingConsumer2.waitUntil(frame -> frame.getUtf8String().contains("Connected"), 60, TimeUnit.SECONDS, 1);
+        Log.warn("Connected");
+
+        checkConsistency();
+
+        var ls1 = container1.execInContainer("/bin/sh", "-c", "cat /dhfs_test/fuse/a*/*");
+        Assertions.assertTrue(ls1.getStdout().contains("fdsaio"));
+        Assertions.assertTrue(ls1.getStdout().contains("exgrg"));
+    }
+
     @Test
     void dirCycleTest() throws IOException, InterruptedException, TimeoutException {
-        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container1.execInContainer("/bin/sh", "-c", "ls /root/dhfs_default/fuse").getExitCode());
-        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container1.execInContainer("/bin/sh", "-c", "mkdir /root/dhfs_default/fuse/a").getExitCode());
-        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container1.execInContainer("/bin/sh", "-c", "mkdir /root/dhfs_default/fuse/b").getExitCode());
-        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container1.execInContainer("/bin/sh", "-c", "echo xqr489 >> /root/dhfs_default/fuse/a/testfa").getExitCode());
-        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container1.execInContainer("/bin/sh", "-c", "echo ahinou >> /root/dhfs_default/fuse/b/testfb").getExitCode());
-        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container2.execInContainer("/bin/sh", "-c", "ls -lavh /root/dhfs_default/fuse").getExitCode());
+        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container1.execInContainer("/bin/sh", "-c", "ls /dhfs_test/fuse").getExitCode());
+        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container1.execInContainer("/bin/sh", "-c", "mkdir /dhfs_test/fuse/a").getExitCode());
+        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container1.execInContainer("/bin/sh", "-c", "mkdir /dhfs_test/fuse/b").getExitCode());
+        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container1.execInContainer("/bin/sh", "-c", "echo xqr489 >> /dhfs_test/fuse/a/testfa").getExitCode());
+        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container1.execInContainer("/bin/sh", "-c", "echo ahinou >> /dhfs_test/fuse/b/testfb").getExitCode());
+        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container2.execInContainer("/bin/sh", "-c", "ls -lavh /dhfs_test/fuse").getExitCode());
         await().atMost(45, TimeUnit.SECONDS).until(() -> {
-            var c2ls = container2.execInContainer("/bin/sh", "-c", "find /root/dhfs_default/fuse -type f -exec cat {} \\;");
+            var c2ls = container2.execInContainer("/bin/sh", "-c", "find /dhfs_test/fuse -type f -exec cat {} \\;");
             return c2ls.getExitCode() == 0 && c2ls.getStdout().contains("xqr489") && c2ls.getStdout().contains("ahinou");
         });
 
         var client = DockerClientFactory.instance().client();
         client.pauseContainerCmd(container1.getContainerId()).exec();
-        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container2.execInContainer("/bin/sh", "-c", "mv /root/dhfs_default/fuse/a /root/dhfs_default/fuse/b").getExitCode());
+        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container2.execInContainer("/bin/sh", "-c", "mv /dhfs_test/fuse/a /dhfs_test/fuse/b").getExitCode());
         client.pauseContainerCmd(container2.getContainerId()).exec();
         client.unpauseContainerCmd(container1.getContainerId()).exec();
-        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container1.execInContainer("/bin/sh", "-c", "mv /root/dhfs_default/fuse/b /root/dhfs_default/fuse/a").getExitCode());
+        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container1.execInContainer("/bin/sh", "-c", "mv /dhfs_test/fuse/b /dhfs_test/fuse/a").getExitCode());
         client.unpauseContainerCmd(container2.getContainerId()).exec();
 
 
         await().atMost(45, TimeUnit.SECONDS).until(() -> {
             Log.info("Listing dirCycleTest");
-            Log.info(container1.execInContainer("/bin/sh", "-c", "ls /root/dhfs_default/fuse"));
-            Log.info(container1.execInContainer("/bin/sh", "-c", "ls /root/dhfs_default/fuse/a"));
-            Log.info(container1.execInContainer("/bin/sh", "-c", "ls /root/dhfs_default/fuse/b"));
-            Log.info(container2.execInContainer("/bin/sh", "-c", "ls /root/dhfs_default/fuse"));
-            Log.info(container2.execInContainer("/bin/sh", "-c", "ls /root/dhfs_default/fuse/a"));
-            Log.info(container2.execInContainer("/bin/sh", "-c", "ls /root/dhfs_default/fuse/b"));
+            Log.info(container1.execInContainer("/bin/sh", "-c", "ls /dhfs_test/fuse"));
+            Log.info(container1.execInContainer("/bin/sh", "-c", "ls /dhfs_test/fuse/a"));
+            Log.info(container1.execInContainer("/bin/sh", "-c", "ls /dhfs_test/fuse/b"));
+            Log.info(container2.execInContainer("/bin/sh", "-c", "ls /dhfs_test/fuse"));
+            Log.info(container2.execInContainer("/bin/sh", "-c", "ls /dhfs_test/fuse/a"));
+            Log.info(container2.execInContainer("/bin/sh", "-c", "ls /dhfs_test/fuse/b"));
 
-            var c1ls2 = container1.execInContainer("/bin/sh", "-c", "find /root/dhfs_default/fuse -maxdepth 3 -type f -exec cat {} \\;");
+            var c1ls2 = container1.execInContainer("/bin/sh", "-c", "find /dhfs_test/fuse -maxdepth 3 -type f -exec cat {} \\;");
             Log.info(c1ls2);
-            var c2ls2 = container1.execInContainer("/bin/sh", "-c", "find /root/dhfs_default/fuse -maxdepth 3 -type f -exec cat {} \\;");
+            var c2ls2 = container1.execInContainer("/bin/sh", "-c", "find /dhfs_test/fuse -maxdepth 3 -type f -exec cat {} \\;");
             Log.info(c2ls2);
 
             return c1ls2.getStdout().contains("xqr489") && c1ls2.getStdout().contains("ahinou")
@@ -353,27 +392,27 @@ public class DhfsFuseIT {
     void removeAndMove() throws IOException, InterruptedException, TimeoutException {
         var client = DockerClientFactory.instance().client();
         Log.info("Creating");
-        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container1.execInContainer("/bin/sh", "-c", "echo tesempty > /root/dhfs_default/fuse/testf1").getExitCode());
-        await().atMost(45, TimeUnit.SECONDS).until(() -> "tesempty\n".equals(container1.execInContainer("/bin/sh", "-c", "cat /root/dhfs_default/fuse/testf1").getStdout()));
+        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container1.execInContainer("/bin/sh", "-c", "echo tesempty > /dhfs_test/fuse/testf1").getExitCode());
+        await().atMost(45, TimeUnit.SECONDS).until(() -> "tesempty\n".equals(container1.execInContainer("/bin/sh", "-c", "cat /dhfs_test/fuse/testf1").getStdout()));
         Log.info("Listing");
-        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container2.execInContainer("/bin/sh", "-c", "ls /root/dhfs_default/fuse/").getExitCode());
-        await().atMost(45, TimeUnit.SECONDS).until(() -> "tesempty\n".equals(container2.execInContainer("/bin/sh", "-c", "cat /root/dhfs_default/fuse/testf1").getStdout()));
+        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container2.execInContainer("/bin/sh", "-c", "ls /dhfs_test/fuse/").getExitCode());
+        await().atMost(45, TimeUnit.SECONDS).until(() -> "tesempty\n".equals(container2.execInContainer("/bin/sh", "-c", "cat /dhfs_test/fuse/testf1").getStdout()));
 
         client.pauseContainerCmd(container1.getContainerId()).exec();
         waitingConsumer2.waitUntil(frame -> frame.getUtf8String().contains("Lost connection to"), 60, TimeUnit.SECONDS, 1);
 
         Log.info("Removing");
-        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container2.execInContainer("/bin/sh", "-c", "rm /root/dhfs_default/fuse/testf1").getExitCode());
+        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container2.execInContainer("/bin/sh", "-c", "rm /dhfs_test/fuse/testf1").getExitCode());
 
         client.pauseContainerCmd(container2.getContainerId()).exec();
         client.unpauseContainerCmd(container1.getContainerId()).exec();
         waitingConsumer1.waitUntil(frame -> frame.getUtf8String().contains("Lost connection to"), 60, TimeUnit.SECONDS, 1);
         Log.info("Moving");
-        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container1.execInContainer("/bin/sh", "-c", "mv /root/dhfs_default/fuse/testf1 /root/dhfs_default/fuse/testf2").getExitCode());
+        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container1.execInContainer("/bin/sh", "-c", "mv /dhfs_test/fuse/testf1 /dhfs_test/fuse/testf2").getExitCode());
         Log.info("Listing");
-        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container1.execInContainer("/bin/sh", "-c", "ls /root/dhfs_default/fuse/").getExitCode());
+        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container1.execInContainer("/bin/sh", "-c", "ls /dhfs_test/fuse/").getExitCode());
         Log.info("Reading");
-        await().atMost(45, TimeUnit.SECONDS).until(() -> "tesempty\n".equals(container1.execInContainer("/bin/sh", "-c", "cat /root/dhfs_default/fuse/testf2").getStdout()));
+        await().atMost(45, TimeUnit.SECONDS).until(() -> "tesempty\n".equals(container1.execInContainer("/bin/sh", "-c", "cat /dhfs_test/fuse/testf2").getStdout()));
         client.unpauseContainerCmd(container2.getContainerId()).exec();
 
         waitingConsumer1.waitUntil(frame -> frame.getUtf8String().contains("Connected"), 60, TimeUnit.SECONDS, 1);
@@ -382,10 +421,10 @@ public class DhfsFuseIT {
         // TODO: it always seems to be removed?
         Log.info("Reading both");
         await().atMost(45, TimeUnit.SECONDS).until(() -> {
-            var ls1 = container1.execInContainer("/bin/sh", "-c", "ls /root/dhfs_default/fuse/");
-            var ls2 = container2.execInContainer("/bin/sh", "-c", "ls /root/dhfs_default/fuse/");
-            var cat1 = container1.execInContainer("/bin/sh", "-c", "cat /root/dhfs_default/fuse/*");
-            var cat2 = container2.execInContainer("/bin/sh", "-c", "cat /root/dhfs_default/fuse/*");
+            var ls1 = container1.execInContainer("/bin/sh", "-c", "ls /dhfs_test/fuse/");
+            var ls2 = container2.execInContainer("/bin/sh", "-c", "ls /dhfs_test/fuse/");
+            var cat1 = container1.execInContainer("/bin/sh", "-c", "cat /dhfs_test/fuse/*");
+            var cat2 = container2.execInContainer("/bin/sh", "-c", "cat /dhfs_test/fuse/*");
             Log.info("cat1: " + cat1);
             Log.info("cat2: " + cat2);
             Log.info("ls1: " + ls1);

dhfs-parent/dhfs-fuse/src/test/java/com/usatiuk/dhfsfuse/integration/DhfsFusex3IT.java

@@ -1,4 +1,4 @@
-package com.usatiuk.dhfs.integration;
+package com.usatiuk.dhfsfuse.integration;
 
 import com.github.dockerjava.api.model.Device;
 import io.quarkus.logging.Log;
@@ -35,13 +35,15 @@ public class DhfsFusex3IT {
     String c2uuid;
     String c3uuid;
 
+    Network network;
+
     // This calculation is somewhat racy, so keep it hardcoded for now
     long emptyFileCount = 9;
 
     @BeforeEach
     void setup(TestInfo testInfo) throws IOException, InterruptedException, TimeoutException {
         // TODO: Dedup
-        Network network = Network.newNetwork();
+        network = Network.newNetwork();
 
         container1 = new GenericContainer<>(DhfsImage.getInstance())
                 .withPrivilegedMode(true)
@@ -59,9 +61,9 @@ public class DhfsFusex3IT {
 
         Stream.of(container1, container2, container3).parallel().forEach(GenericContainer::start);
 
-        c1uuid = container1.execInContainer("/bin/sh", "-c", "cat /root/dhfs_default/data/stuff/self_uuid").getStdout();
-        c2uuid = container2.execInContainer("/bin/sh", "-c", "cat /root/dhfs_default/data/stuff/self_uuid").getStdout();
-        c3uuid = container3.execInContainer("/bin/sh", "-c", "cat /root/dhfs_default/data/stuff/self_uuid").getStdout();
+        c1uuid = container1.execInContainer("/bin/sh", "-c", "cat /dhfs_test/data/stuff/self_uuid").getStdout();
+        c2uuid = container2.execInContainer("/bin/sh", "-c", "cat /dhfs_test/data/stuff/self_uuid").getStdout();
+        c3uuid = container3.execInContainer("/bin/sh", "-c", "cat /dhfs_test/data/stuff/self_uuid").getStdout();
 
         Log.info(container1.getContainerId() + "=" + c1uuid);
         Log.info(container2.getContainerId() + "=" + c2uuid);
@@ -91,26 +93,26 @@ public class DhfsFusex3IT {
         var c1curl = container1.execInContainer("/bin/sh", "-c",
                 "curl --header \"Content-Type: application/json\" " +
                         "  --request PUT " +
-                        "  --data '{\"uuid\":\"" + c2uuid + "\"}' " +
-                        "  http://localhost:8080/peers-manage/known-peers");
+                        "  --data '{}' " +
+                        "  http://localhost:8080/peers-manage/known-peers/" + c2uuid);
 
         var c2curl1 = container2.execInContainer("/bin/sh", "-c",
                 "curl --header \"Content-Type: application/json\" " +
                         "  --request PUT " +
-                        "  --data '{\"uuid\":\"" + c1uuid + "\"}' " +
-                        "  http://localhost:8080/peers-manage/known-peers");
+                        "  --data '{}' " +
+                        "  http://localhost:8080/peers-manage/known-peers/" + c1uuid);
 
         var c2curl3 = container2.execInContainer("/bin/sh", "-c",
                 "curl --header \"Content-Type: application/json\" " +
                         "  --request PUT " +
-                        "  --data '{\"uuid\":\"" + c3uuid + "\"}' " +
-                        "  http://localhost:8080/peers-manage/known-peers");
+                        "  --data '{}' " +
+                        "  http://localhost:8080/peers-manage/known-peers/" + c3uuid);
 
         var c3curl = container3.execInContainer("/bin/sh", "-c",
                 "curl --header \"Content-Type: application/json\" " +
                         "  --request PUT " +
-                        "  --data '{\"uuid\":\"" + c2uuid + "\"}' " +
-                        "  http://localhost:8080/peers-manage/known-peers");
+                        "  --data '{}' " +
+                        "  http://localhost:8080/peers-manage/known-peers/" + c2uuid);
 
         waitingConsumer3.waitUntil(frame -> frame.getUtf8String().contains("Connected"), 60, TimeUnit.SECONDS, 2);
         waitingConsumer2.waitUntil(frame -> frame.getUtf8String().contains("Connected"), 60, TimeUnit.SECONDS, 2);
@@ -119,8 +121,8 @@ public class DhfsFusex3IT {
 
     private boolean checkEmpty() throws IOException, InterruptedException {
         for (var container : List.of(container1, container2, container3)) {
-            var found = container.execInContainer("/bin/sh", "-c", "find /root/dhfs_default/data/objs -type f");
-            var foundWc = container.execInContainer("/bin/sh", "-c", "find /root/dhfs_default/data/objs -type f | wc -l");
+            var found = container.execInContainer("/bin/sh", "-c", "find /dhfs_test/data/objs -type f");
+            var foundWc = container.execInContainer("/bin/sh", "-c", "find /dhfs_test/data/objs -type f | wc -l");
             Log.info("Remaining objects in " + container.getContainerId() + ": " + found.toString() + " " + foundWc.toString());
             if (!(found.getExitCode() == 0 && foundWc.getExitCode() == 0 && Integer.parseInt(foundWc.getStdout().strip()) == emptyFileCount))
                 return false;
@@ -131,51 +133,52 @@ public class DhfsFusex3IT {
     @AfterEach
     void stop() {
         Stream.of(container1, container2, container3).parallel().forEach(GenericContainer::stop);
+        network.close();
     }
 
     @Test
     void readWriteFileTest() throws IOException, InterruptedException, TimeoutException {
-        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container1.execInContainer("/bin/sh", "-c", "echo tesempty > /root/dhfs_default/fuse/testf1").getExitCode());
-        await().atMost(45, TimeUnit.SECONDS).until(() -> "tesempty\n".equals(container2.execInContainer("/bin/sh", "-c", "cat /root/dhfs_default/fuse/testf1").getStdout()));
-        await().atMost(45, TimeUnit.SECONDS).until(() -> "tesempty\n".equals(container3.execInContainer("/bin/sh", "-c", "cat /root/dhfs_default/fuse/testf1").getStdout()));
+        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container1.execInContainer("/bin/sh", "-c", "echo tesempty > /dhfs_test/fuse/testf1").getExitCode());
+        await().atMost(45, TimeUnit.SECONDS).until(() -> "tesempty\n".equals(container2.execInContainer("/bin/sh", "-c", "cat /dhfs_test/fuse/testf1").getStdout()));
+        await().atMost(45, TimeUnit.SECONDS).until(() -> "tesempty\n".equals(container3.execInContainer("/bin/sh", "-c", "cat /dhfs_test/fuse/testf1").getStdout()));
     }
 
     // FIXME:
     @Test
     @Disabled
     void largerFileDeleteTest() throws IOException, InterruptedException, TimeoutException {
-        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container1.execInContainer("/bin/sh", "-c", "cd /root/dhfs_default/fuse && dd if=/dev/urandom of=10MB.bin bs=1M count=10").getExitCode());
-        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container2.execInContainer("/bin/sh", "-c", "head -c 10 /root/dhfs_default/fuse/10MB.bin").getExitCode());
-        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container3.execInContainer("/bin/sh", "-c", "rm /root/dhfs_default/fuse/10MB.bin").getExitCode());
+        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container1.execInContainer("/bin/sh", "-c", "cd /dhfs_test/fuse && dd if=/dev/urandom of=10MB.bin bs=1M count=10").getExitCode());
+        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container2.execInContainer("/bin/sh", "-c", "head -c 10 /dhfs_test/fuse/10MB.bin").getExitCode());
+        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container3.execInContainer("/bin/sh", "-c", "rm /dhfs_test/fuse/10MB.bin").getExitCode());
         await().atMost(45, TimeUnit.SECONDS).until(() -> checkEmpty());
     }
 
     @Test
     @Disabled
     void largerFileDeleteTestNoDelays() throws IOException, InterruptedException, TimeoutException {
-        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container1.execInContainer("/bin/sh", "-c", "cd /root/dhfs_default/fuse && dd if=/dev/urandom of=10MB.bin bs=1M count=10").getExitCode());
-        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container2.execInContainer("/bin/sh", "-c", "head -c 10 /root/dhfs_default/fuse/10MB.bin").getExitCode());
-        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container3.execInContainer("/bin/sh", "-c", "rm /root/dhfs_default/fuse/10MB.bin").getExitCode());
+        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container1.execInContainer("/bin/sh", "-c", "cd /dhfs_test/fuse && dd if=/dev/urandom of=10MB.bin bs=1M count=10").getExitCode());
+        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container2.execInContainer("/bin/sh", "-c", "head -c 10 /dhfs_test/fuse/10MB.bin").getExitCode());
+        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container3.execInContainer("/bin/sh", "-c", "rm /dhfs_test/fuse/10MB.bin").getExitCode());
         await().atMost(45, TimeUnit.SECONDS).until(() -> checkEmpty());
     }
 
     @Test
     void gccHelloWorldTest() throws IOException, InterruptedException, TimeoutException {
-        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container1.execInContainer("/bin/sh", "-c", "echo '#include<stdio.h>\nint main(){printf(\"hello world\"); return 0;}' > /root/dhfs_default/fuse/hello.c").getExitCode());
-        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container1.execInContainer("/bin/sh", "-c", "cd /root/dhfs_default/fuse && gcc hello.c").getExitCode());
+        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container1.execInContainer("/bin/sh", "-c", "echo '#include<stdio.h>\nint main(){printf(\"hello world\"); return 0;}' > /dhfs_test/fuse/hello.c").getExitCode());
+        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container1.execInContainer("/bin/sh", "-c", "cd /dhfs_test/fuse && gcc hello.c").getExitCode());
 
         await().atMost(45, TimeUnit.SECONDS).until(() -> {
-            var helloOut = container1.execInContainer("/bin/sh", "-c", "/root/dhfs_default/fuse/a.out");
+            var helloOut = container1.execInContainer("/bin/sh", "-c", "/dhfs_test/fuse/a.out");
             Log.info(helloOut);
             return helloOut.getExitCode() == 0 && helloOut.getStdout().equals("hello world");
         });
         await().atMost(45, TimeUnit.SECONDS).until(() -> {
-            var helloOut = container2.execInContainer("/bin/sh", "-c", "/root/dhfs_default/fuse/a.out");
+            var helloOut = container2.execInContainer("/bin/sh", "-c", "/dhfs_test/fuse/a.out");
             Log.info(helloOut);
             return helloOut.getExitCode() == 0 && helloOut.getStdout().equals("hello world");
         });
         await().atMost(45, TimeUnit.SECONDS).until(() -> {
-            var helloOut = container3.execInContainer("/bin/sh", "-c", "/root/dhfs_default/fuse/a.out");
+            var helloOut = container3.execInContainer("/bin/sh", "-c", "/dhfs_test/fuse/a.out");
             Log.info(helloOut);
             return helloOut.getExitCode() == 0 && helloOut.getStdout().equals("hello world");
         });
@@ -183,22 +186,22 @@ public class DhfsFusex3IT {
 
     @Test
     void removeHostTest() throws IOException, InterruptedException, TimeoutException {
-        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container1.execInContainer("/bin/sh", "-c", "echo tesempty > /root/dhfs_default/fuse/testf1").getExitCode());
-        await().atMost(45, TimeUnit.SECONDS).until(() -> "tesempty\n".equals(container2.execInContainer("/bin/sh", "-c", "cat /root/dhfs_default/fuse/testf1").getStdout()));
-        await().atMost(45, TimeUnit.SECONDS).until(() -> "tesempty\n".equals(container3.execInContainer("/bin/sh", "-c", "cat /root/dhfs_default/fuse/testf1").getStdout()));
+        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container1.execInContainer("/bin/sh", "-c", "echo tesempty > /dhfs_test/fuse/testf1").getExitCode());
+        await().atMost(45, TimeUnit.SECONDS).until(() -> "tesempty\n".equals(container2.execInContainer("/bin/sh", "-c", "cat /dhfs_test/fuse/testf1").getStdout()));
+        await().atMost(45, TimeUnit.SECONDS).until(() -> "tesempty\n".equals(container3.execInContainer("/bin/sh", "-c", "cat /dhfs_test/fuse/testf1").getStdout()));
 
         var c3curl = container3.execInContainer("/bin/sh", "-c",
                 "curl --header \"Content-Type: application/json\" " +
                         "  --request DELETE " +
-                        "  --data '{\"uuid\":\"" + c2uuid + "\"}' " +
-                        "  http://localhost:8080/peers-manage/known-peers");
+                        "  --data '{}' " +
+                        "  http://localhost:8080/peers-manage/known-peers/" + c2uuid);
 
         Thread.sleep(10000);
 
-        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container2.execInContainer("/bin/sh", "-c", "echo rewritten > /root/dhfs_default/fuse/testf1").getExitCode());
-        await().atMost(45, TimeUnit.SECONDS).until(() -> "rewritten\n".equals(container2.execInContainer("/bin/sh", "-c", "cat /root/dhfs_default/fuse/testf1").getStdout()));
-        await().atMost(45, TimeUnit.SECONDS).until(() -> "tesempty\n".equals(container1.execInContainer("/bin/sh", "-c", "cat /root/dhfs_default/fuse/testf1").getStdout()));
-        await().atMost(45, TimeUnit.SECONDS).until(() -> "tesempty\n".equals(container3.execInContainer("/bin/sh", "-c", "cat /root/dhfs_default/fuse/testf1").getStdout()));
+        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container2.execInContainer("/bin/sh", "-c", "echo rewritten > /dhfs_test/fuse/testf1").getExitCode());
+        await().atMost(45, TimeUnit.SECONDS).until(() -> "rewritten\n".equals(container2.execInContainer("/bin/sh", "-c", "cat /dhfs_test/fuse/testf1").getStdout()));
+        await().atMost(45, TimeUnit.SECONDS).until(() -> "tesempty\n".equals(container1.execInContainer("/bin/sh", "-c", "cat /dhfs_test/fuse/testf1").getStdout()));
+        await().atMost(45, TimeUnit.SECONDS).until(() -> "tesempty\n".equals(container3.execInContainer("/bin/sh", "-c", "cat /dhfs_test/fuse/testf1").getStdout()));
     }
 
     @Test
@@ -208,15 +211,15 @@ public class DhfsFusex3IT {
         client.pauseContainerCmd(container2.getContainerId()).exec();
         // Pauses needed as otherwise docker buffers some incoming packets
         waitingConsumer3.waitUntil(frame -> frame.getUtf8String().contains("Lost connection to"), 60, TimeUnit.SECONDS, 2);
-        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container3.execInContainer("/bin/sh", "-c", "echo test3 >> /root/dhfs_default/fuse/testf").getExitCode());
+        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container3.execInContainer("/bin/sh", "-c", "echo test3 >> /dhfs_test/fuse/testf").getExitCode());
         client.pauseContainerCmd(container3.getContainerId()).exec();
         client.unpauseContainerCmd(container2.getContainerId()).exec();
         waitingConsumer2.waitUntil(frame -> frame.getUtf8String().contains("Lost connection to"), 60, TimeUnit.SECONDS, 2);
-        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container2.execInContainer("/bin/sh", "-c", "echo test2 >> /root/dhfs_default/fuse/testf").getExitCode());
+        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container2.execInContainer("/bin/sh", "-c", "echo test2 >> /dhfs_test/fuse/testf").getExitCode());
         client.pauseContainerCmd(container2.getContainerId()).exec();
         client.unpauseContainerCmd(container1.getContainerId()).exec();
         waitingConsumer1.waitUntil(frame -> frame.getUtf8String().contains("Lost connection to"), 60, TimeUnit.SECONDS, 2);
-        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container1.execInContainer("/bin/sh", "-c", "echo test1 >> /root/dhfs_default/fuse/testf").getExitCode());
+        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container1.execInContainer("/bin/sh", "-c", "echo test1 >> /dhfs_test/fuse/testf").getExitCode());
         client.unpauseContainerCmd(container2.getContainerId()).exec();
         client.unpauseContainerCmd(container3.getContainerId()).exec();
         waitingConsumer1.waitUntil(frame -> frame.getUtf8String().contains("Connected"), 60, TimeUnit.SECONDS, 2);
@@ -225,8 +228,8 @@ public class DhfsFusex3IT {
 
         await().atMost(45, TimeUnit.SECONDS).until(() -> {
             for (var c : List.of(container1, container2, container3)) {
-                var ls = c.execInContainer("/bin/sh", "-c", "ls /root/dhfs_default/fuse");
-                var cat = c.execInContainer("/bin/sh", "-c", "cat /root/dhfs_default/fuse/*");
+                var ls = c.execInContainer("/bin/sh", "-c", "ls /dhfs_test/fuse");
+                var cat = c.execInContainer("/bin/sh", "-c", "cat /dhfs_test/fuse/*");
                 Log.info(ls);
                 Log.info(cat);
                 if (!(cat.getStdout().contains("test1") && cat.getStdout().contains("test2") && cat.getStdout().contains("test3")))
@@ -236,37 +239,38 @@ public class DhfsFusex3IT {
         });
 
         await().atMost(45, TimeUnit.SECONDS).until(() -> {
-            return container1.execInContainer("/bin/sh", "-c", "ls /root/dhfs_default/fuse").getStdout().equals(
-                    container2.execInContainer("/bin/sh", "-c", "ls /root/dhfs_default/fuse").getStdout()) &&
-                    container3.execInContainer("/bin/sh", "-c", "ls /root/dhfs_default/fuse").getStdout().equals(
-                            container2.execInContainer("/bin/sh", "-c", "ls /root/dhfs_default/fuse").getStdout()) &&
-                    container3.execInContainer("/bin/sh", "-c", "cat /root/dhfs_default/fuse/*").getStdout().equals(
-                            container2.execInContainer("/bin/sh", "-c", "cat /root/dhfs_default/fuse/*").getStdout());
+            return container1.execInContainer("/bin/sh", "-c", "ls /dhfs_test/fuse").getStdout().equals(
+                    container2.execInContainer("/bin/sh", "-c", "ls /dhfs_test/fuse").getStdout()) &&
+                    container3.execInContainer("/bin/sh", "-c", "ls /dhfs_test/fuse").getStdout().equals(
+                            container2.execInContainer("/bin/sh", "-c", "ls /dhfs_test/fuse").getStdout()) &&
+                    container3.execInContainer("/bin/sh", "-c", "cat /dhfs_test/fuse/*").getStdout().equals(
+                            container2.execInContainer("/bin/sh", "-c", "cat /dhfs_test/fuse/*").getStdout());
         });
     }
 
     @Test
     void fileConflictTest() throws IOException, InterruptedException, TimeoutException {
-        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container1.execInContainer("/bin/sh", "-c", "echo tesempty > /root/dhfs_default/fuse/testf").getExitCode());
-        await().atMost(45, TimeUnit.SECONDS).until(() -> "tesempty\n".equals(container2.execInContainer("/bin/sh", "-c", "cat /root/dhfs_default/fuse/testf").getStdout()));
-        await().atMost(45, TimeUnit.SECONDS).until(() -> "tesempty\n".equals(container3.execInContainer("/bin/sh", "-c", "cat /root/dhfs_default/fuse/testf").getStdout()));
+        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container1.execInContainer("/bin/sh", "-c", "echo tesempty > /dhfs_test/fuse/testf").getExitCode());
+        await().atMost(45, TimeUnit.SECONDS).until(() -> "tesempty\n".equals(container2.execInContainer("/bin/sh", "-c", "cat /dhfs_test/fuse/testf").getStdout()));
+        await().atMost(45, TimeUnit.SECONDS).until(() -> "tesempty\n".equals(container3.execInContainer("/bin/sh", "-c", "cat /dhfs_test/fuse/testf").getStdout()));
 
         var client = DockerClientFactory.instance().client();
-        client.pauseContainerCmd(container1.getContainerId()).exec();
-        client.pauseContainerCmd(container2.getContainerId()).exec();
-        // Pauses needed as otherwise docker buffers some incoming packets
+        client.disconnectFromNetworkCmd().withContainerId(container1.getContainerId()).withNetworkId(network.getId()).exec();
+        client.disconnectFromNetworkCmd().withContainerId(container2.getContainerId()).withNetworkId(network.getId()).exec();
+        client.disconnectFromNetworkCmd().withContainerId(container3.getContainerId()).withNetworkId(network.getId()).exec();
+
         waitingConsumer3.waitUntil(frame -> frame.getUtf8String().contains("Lost connection to"), 60, TimeUnit.SECONDS, 2);
-        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container3.execInContainer("/bin/sh", "-c", "echo test3 >> /root/dhfs_default/fuse/testf").getExitCode());
-        client.pauseContainerCmd(container3.getContainerId()).exec();
-        client.unpauseContainerCmd(container2.getContainerId()).exec();
         waitingConsumer2.waitUntil(frame -> frame.getUtf8String().contains("Lost connection to"), 60, TimeUnit.SECONDS, 2);
-        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container2.execInContainer("/bin/sh", "-c", "echo test2 >> /root/dhfs_default/fuse/testf").getExitCode());
-        client.pauseContainerCmd(container2.getContainerId()).exec();
-        client.unpauseContainerCmd(container1.getContainerId()).exec();
         waitingConsumer1.waitUntil(frame -> frame.getUtf8String().contains("Lost connection to"), 60, TimeUnit.SECONDS, 2);
-        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container1.execInContainer("/bin/sh", "-c", "echo test1 >> /root/dhfs_default/fuse/testf").getExitCode());
-        client.unpauseContainerCmd(container2.getContainerId()).exec();
-        client.unpauseContainerCmd(container3.getContainerId()).exec();
+
+        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container3.execInContainer("/bin/sh", "-c", "echo test3 >> /dhfs_test/fuse/testf").getExitCode());
+        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container2.execInContainer("/bin/sh", "-c", "echo test2 >> /dhfs_test/fuse/testf").getExitCode());
+        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container1.execInContainer("/bin/sh", "-c", "echo test1 >> /dhfs_test/fuse/testf").getExitCode());
+
+        client.connectToNetworkCmd().withContainerId(container1.getContainerId()).withNetworkId(network.getId()).exec();
+        client.connectToNetworkCmd().withContainerId(container2.getContainerId()).withNetworkId(network.getId()).exec();
+        client.connectToNetworkCmd().withContainerId(container3.getContainerId()).withNetworkId(network.getId()).exec();
+
         Log.warn("Waiting for connections");
         waitingConsumer1.waitUntil(frame -> frame.getUtf8String().contains("Connected"), 60, TimeUnit.SECONDS, 2);
         waitingConsumer2.waitUntil(frame -> frame.getUtf8String().contains("Connected"), 60, TimeUnit.SECONDS, 2);
@@ -276,9 +280,9 @@ public class DhfsFusex3IT {
         // TODO: There's some issue with cache, so avoid file reads
         await().atMost(45, TimeUnit.SECONDS).until(() -> {
             Log.info("Listing consistency 1");
-            var ls1 = container1.execInContainer("/bin/sh", "-c", "ls /root/dhfs_default/fuse");
-            var ls2 = container2.execInContainer("/bin/sh", "-c", "ls /root/dhfs_default/fuse");
-            var ls3 = container3.execInContainer("/bin/sh", "-c", "ls /root/dhfs_default/fuse");
+            var ls1 = container1.execInContainer("/bin/sh", "-c", "ls /dhfs_test/fuse");
+            var ls2 = container2.execInContainer("/bin/sh", "-c", "ls /dhfs_test/fuse");
+            var ls3 = container3.execInContainer("/bin/sh", "-c", "ls /dhfs_test/fuse");
             Log.info(ls1);
             Log.info(ls2);
             Log.info(ls3);
@@ -290,8 +294,8 @@ public class DhfsFusex3IT {
         await().atMost(45, TimeUnit.SECONDS).until(() -> {
             Log.info("Listing");
             for (var c : List.of(container1, container2, container3)) {
-                var ls = c.execInContainer("/bin/sh", "-c", "ls /root/dhfs_default/fuse");
-                var cat = c.execInContainer("/bin/sh", "-c", "cat /root/dhfs_default/fuse/*");
+                var ls = c.execInContainer("/bin/sh", "-c", "ls /dhfs_test/fuse");
+                var cat = c.execInContainer("/bin/sh", "-c", "cat /dhfs_test/fuse/*");
                 Log.info(ls);
                 Log.info(cat);
                 if (!(cat.getExitCode() == 0 && ls.getExitCode() == 0))
@@ -304,12 +308,12 @@ public class DhfsFusex3IT {
 
         await().atMost(45, TimeUnit.SECONDS).until(() -> {
             Log.info("Listing consistency");
-            var ls1 = container1.execInContainer("/bin/sh", "-c", "ls /root/dhfs_default/fuse");
-            var cat1 = container1.execInContainer("/bin/sh", "-c", "cat /root/dhfs_default/fuse/*");
-            var ls2 = container2.execInContainer("/bin/sh", "-c", "ls /root/dhfs_default/fuse");
-            var cat2 = container2.execInContainer("/bin/sh", "-c", "cat /root/dhfs_default/fuse/*");
-            var ls3 = container3.execInContainer("/bin/sh", "-c", "ls /root/dhfs_default/fuse");
-            var cat3 = container3.execInContainer("/bin/sh", "-c", "cat /root/dhfs_default/fuse/*");
+            var ls1 = container1.execInContainer("/bin/sh", "-c", "ls /dhfs_test/fuse");
+            var cat1 = container1.execInContainer("/bin/sh", "-c", "cat /dhfs_test/fuse/*");
+            var ls2 = container2.execInContainer("/bin/sh", "-c", "ls /dhfs_test/fuse");
+            var cat2 = container2.execInContainer("/bin/sh", "-c", "cat /dhfs_test/fuse/*");
+            var ls3 = container3.execInContainer("/bin/sh", "-c", "ls /dhfs_test/fuse");
+            var cat3 = container3.execInContainer("/bin/sh", "-c", "cat /dhfs_test/fuse/*");
             Log.info(ls1);
             Log.info(cat1);
             Log.info(ls2);

dhfs-parent/dhfs-fuse/src/test/java/com/usatiuk/dhfsfuse/integration/DhfsImage.java

@@ -1,4 +1,4 @@
-package com.usatiuk.dhfs.integration;
+package com.usatiuk.dhfsfuse.integration;
 
 import io.quarkus.logging.Log;
 import org.jetbrains.annotations.NotNull;
@@ -66,24 +66,31 @@ public class DhfsImage implements Future<String> {
                                 .run("apt update && apt install -y libfuse2 curl gcc")
                                 .copy("/app", "/app")
                                 .copy("/libs", "/libs")
-                                .cmd("java", "-ea", "-Xmx128M",
+                                .cmd("java", "-ea", "-Xmx256M", "-XX:TieredStopAtLevel=1", "-XX:+UseParallelGC",
                                         "--add-exports", "java.base/sun.nio.ch=ALL-UNNAMED",
                                         "--add-exports", "java.base/jdk.internal.access=ALL-UNNAMED",
                                         "--add-opens=java.base/java.nio=ALL-UNNAMED",
+                                        "--enable-preview",
                                         "-Ddhfs.objects.peerdiscovery.interval=1s",
                                         "-Ddhfs.objects.invalidation.delay=100",
                                         "-Ddhfs.objects.deletion.delay=0",
                                         "-Ddhfs.objects.deletion.can-delete-retry-delay=1000",
                                         "-Ddhfs.objects.ref_verification=true",
-                                        "-Ddhfs.objects.write_log=true",
-                                        "-Ddhfs.objects.sync.timeout=10",
+                                        "-Ddhfs.objects.sync.timeout=30",
                                         "-Ddhfs.objects.sync.ping.timeout=5",
                                         "-Ddhfs.objects.reconnect_interval=1s",
-                                        "-Dcom.usatiuk.dhfs.supportlib.native-path=/libs",
+                                        "-Ddhfs.objects.last-seen.timeout=30",
+                                        "-Ddhfs.objects.last-seen.update=10",
+                                        "-Ddhfs.sync.cert-check=false",
                                         "-Dquarkus.log.category.\"com.usatiuk\".level=TRACE",
                                         "-Dquarkus.log.category.\"com.usatiuk.dhfs\".level=TRACE",
+                                        "-Dquarkus.log.category.\"com.usatiuk.objects.transaction\".level=INFO",
                                         "-Ddhfs.objects.periodic-push-op-interval=5s",
+                                        "-Ddhfs.fuse.root=/dhfs_test/fuse",
+                                        "-Ddhfs.objects.persistence.files.root=/dhfs_test/data",
+                                        "-Ddhfs.objects.persistence.stuff.root=/dhfs_test/data/stuff",
                                         "-jar", "/app/quarkus-run.jar")
+                                .run("mkdir /dhfs_test && chmod 777 /dhfs_test")
                                 .build())
                 .withFileFromPath("/app", Paths.get(buildPath, "quarkus-app"))
                 .withFileFromPath("/libs", Paths.get(nativeLibsDirectory));

dhfs-parent/dhfs-fuse/src/test/java/com/usatiuk/dhfsfuse/integration/KillIT.java

@@ -0,0 +1,235 @@
+package com.usatiuk.dhfsfuse.integration;
+
+import com.github.dockerjava.api.model.Device;
+import com.usatiuk.dhfsfuse.TestDataCleaner;
+import io.quarkus.logging.Log;
+import org.junit.jupiter.api.*;
+import org.slf4j.LoggerFactory;
+import org.testcontainers.DockerClientFactory;
+import org.testcontainers.containers.GenericContainer;
+import org.testcontainers.containers.Network;
+import org.testcontainers.containers.output.Slf4jLogConsumer;
+import org.testcontainers.containers.output.WaitingConsumer;
+import org.testcontainers.containers.wait.strategy.Wait;
+
+import java.io.File;
+import java.io.IOException;
+import java.nio.file.Files;
+import java.time.Duration;
+import java.util.Objects;
+import java.util.UUID;
+import java.util.concurrent.*;
+import java.util.stream.Stream;
+
+import static org.awaitility.Awaitility.await;
+
+public class KillIT {
+    GenericContainer<?> container1;
+    GenericContainer<?> container2;
+
+    WaitingConsumer waitingConsumer1;
+    WaitingConsumer waitingConsumer2;
+
+    String c1uuid;
+    String c2uuid;
+
+    File data1;
+    File data2;
+
+    Network network;
+
+    ExecutorService executor;
+
+    @BeforeEach
+    void setup(TestInfo testInfo) throws IOException, InterruptedException, TimeoutException {
+        executor = Executors.newCachedThreadPool();
+
+        data1 = Files.createTempDirectory("").toFile();
+        data2 = Files.createTempDirectory("").toFile();
+
+        network = Network.newNetwork();
+
+        container1 = new GenericContainer<>(DhfsImage.getInstance())
+                .withPrivilegedMode(true)
+                .withCreateContainerCmdModifier(cmd -> Objects.requireNonNull(cmd.getHostConfig()).withDevices(Device.parse("/dev/fuse")))
+                .waitingFor(Wait.forLogMessage(".*Listening.*", 1).withStartupTimeout(Duration.ofSeconds(60))).withNetwork(network)
+                .withFileSystemBind(data1.getAbsolutePath(), "/dhfs_test/data");
+        container2 = new GenericContainer<>(DhfsImage.getInstance())
+                .withPrivilegedMode(true)
+                .withCreateContainerCmdModifier(cmd -> Objects.requireNonNull(cmd.getHostConfig()).withDevices(Device.parse("/dev/fuse")))
+                .waitingFor(Wait.forLogMessage(".*Listening.*", 1).withStartupTimeout(Duration.ofSeconds(60))).withNetwork(network)
+                .withFileSystemBind(data2.getAbsolutePath(), "/dhfs_test/data");
+
+        Stream.of(container1, container2).parallel().forEach(GenericContainer::start);
+
+        waitingConsumer1 = new WaitingConsumer();
+        var loggingConsumer1 = new Slf4jLogConsumer(LoggerFactory.getLogger(KillIT.class)).withPrefix("1-" + testInfo.getDisplayName());
+        container1.followOutput(loggingConsumer1.andThen(waitingConsumer1));
+        waitingConsumer2 = new WaitingConsumer();
+        var loggingConsumer2 = new Slf4jLogConsumer(LoggerFactory.getLogger(KillIT.class)).withPrefix("2-" + testInfo.getDisplayName());
+        container2.followOutput(loggingConsumer2.andThen(waitingConsumer2));
+
+        c1uuid = container1.execInContainer("/bin/sh", "-c", "cat /dhfs_test/data/stuff/self_uuid").getStdout();
+        c2uuid = container2.execInContainer("/bin/sh", "-c", "cat /dhfs_test/data/stuff/self_uuid").getStdout();
+
+        Assertions.assertDoesNotThrow(() -> UUID.fromString(c1uuid));
+        Assertions.assertDoesNotThrow(() -> UUID.fromString(c2uuid));
+
+        waitingConsumer2.waitUntil(frame -> frame.getUtf8String().contains("New address"), 60, TimeUnit.SECONDS);
+        waitingConsumer1.waitUntil(frame -> frame.getUtf8String().contains("New address"), 60, TimeUnit.SECONDS);
+
+        var c1curl = container1.execInContainer("/bin/sh", "-c",
+                "curl --header \"Content-Type: application/json\" " +
+                        "  --request PUT " +
+                        "  --data '{}' " +
+                        "  http://localhost:8080/peers-manage/known-peers/" + c2uuid);
+
+        var c2curl = container2.execInContainer("/bin/sh", "-c",
+                "curl --header \"Content-Type: application/json\" " +
+                        "  --request PUT " +
+                        "  --data '{}' " +
+                        "  http://localhost:8080/peers-manage/known-peers/" + c1uuid);
+
+        waitingConsumer2.waitUntil(frame -> frame.getUtf8String().contains("Connected"), 60, TimeUnit.SECONDS);
+        waitingConsumer1.waitUntil(frame -> frame.getUtf8String().contains("Connected"), 60, TimeUnit.SECONDS);
+    }
+
+    @AfterEach
+    void stop() {
+        Stream.of(container1, container2).parallel().forEach(GenericContainer::stop);
+        TestDataCleaner.purgeDirectory(data1);
+        TestDataCleaner.purgeDirectory(data2);
+        executor.close();
+        network.close();
+    }
+
+    private void checkConsistency() {
+        await().atMost(45, TimeUnit.SECONDS).until(() -> {
+            Log.info("Listing consistency");
+            var ls1 = container1.execInContainer("/bin/sh", "-c", "ls /dhfs_test/fuse");
+            var cat1 = container1.execInContainer("/bin/sh", "-c", "cat /dhfs_test/fuse/*");
+            var ls2 = container2.execInContainer("/bin/sh", "-c", "ls /dhfs_test/fuse");
+            var cat2 = container2.execInContainer("/bin/sh", "-c", "cat /dhfs_test/fuse/*");
+            Log.info(ls1);
+            Log.info(cat1);
+            Log.info(ls2);
+            Log.info(cat2);
+
+            return ls1.equals(ls2) && cat1.equals(cat2) && ls1.getExitCode() == 0 && ls2.getExitCode() == 0 && cat1.getExitCode() == 0 && cat2.getExitCode() == 0;
+        });
+    }
+
+    @Test
+    void killTest(TestInfo testInfo) throws Exception {
+        var barrier = new CyclicBarrier(2);
+        var ret1 = executor.submit(() -> {
+            try {
+                Log.info("Writing to container 1");
+                barrier.await();
+                container1.execInContainer("/bin/sh", "-c", "counter=0; while true; do counter=`expr $counter + 1`; echo $counter >> /dhfs_test/fuse/test1; done");
+            } catch (Exception e) {
+                throw new RuntimeException(e);
+            }
+        });
+        barrier.await();
+        Thread.sleep(10000);
+        var client = DockerClientFactory.instance().client();
+        client.killContainerCmd(container1.getContainerId()).exec();
+        container1.stop();
+        waitingConsumer2.waitUntil(frame -> frame.getUtf8String().contains("Lost connection to"), 60, TimeUnit.SECONDS);
+        container1.start();
+        waitingConsumer1 = new WaitingConsumer();
+        var loggingConsumer1 = new Slf4jLogConsumer(LoggerFactory.getLogger(KillIT.class)).withPrefix("1-" + testInfo.getDisplayName());
+        container1.followOutput(loggingConsumer1.andThen(waitingConsumer1));
+        waitingConsumer2.waitUntil(frame -> frame.getUtf8String().contains("Connected"), 60, TimeUnit.SECONDS);
+        waitingConsumer1.waitUntil(frame -> frame.getUtf8String().contains("Connected"), 60, TimeUnit.SECONDS);
+
+        checkConsistency();
+    }
+
+    @Test
+    void killTestDirs(TestInfo testInfo) throws Exception {
+        var barrier = new CyclicBarrier(2);
+        var ret1 = executor.submit(() -> {
+            try {
+                Log.info("Writing to container 1");
+                barrier.await();
+                container1.execInContainer("/bin/sh", "-c", "counter=0; while true; do counter=`expr $counter + 1`; echo $counter >> /dhfs_test/fuse/test$counter; done");
+            } catch (Exception e) {
+                throw new RuntimeException(e);
+            }
+        });
+        barrier.await();
+        Thread.sleep(10000);
+        var client = DockerClientFactory.instance().client();
+        client.killContainerCmd(container1.getContainerId()).exec();
+        container1.stop();
+        waitingConsumer2.waitUntil(frame -> frame.getUtf8String().contains("Lost connection to"), 60, TimeUnit.SECONDS);
+        container1.start();
+        waitingConsumer1 = new WaitingConsumer();
+        var loggingConsumer1 = new Slf4jLogConsumer(LoggerFactory.getLogger(KillIT.class)).withPrefix("1-" + testInfo.getDisplayName());
+        container1.followOutput(loggingConsumer1.andThen(waitingConsumer1));
+        waitingConsumer2.waitUntil(frame -> frame.getUtf8String().contains("Connected"), 60, TimeUnit.SECONDS);
+        waitingConsumer1.waitUntil(frame -> frame.getUtf8String().contains("Connected"), 60, TimeUnit.SECONDS);
+
+        checkConsistency();
+    }
+
+    @Test
+    void killTest2(TestInfo testInfo) throws Exception {
+        var barrier = new CyclicBarrier(2);
+        var ret1 = executor.submit(() -> {
+            try {
+                Log.info("Writing to container 1");
+                barrier.await();
+                container1.execInContainer("/bin/sh", "-c", "counter=0; while  [ ! -f /tmp/stopprinting ]; do counter=`expr $counter + 1`; echo $counter >> /dhfs_test/fuse/test1; done");
+            } catch (Exception e) {
+                throw new RuntimeException(e);
+            }
+        });
+        barrier.await();
+        Thread.sleep(10000);
+        var client = DockerClientFactory.instance().client();
+        client.killContainerCmd(container2.getContainerId()).exec();
+        container2.stop();
+        waitingConsumer1.waitUntil(frame -> frame.getUtf8String().contains("Lost connection to"), 60, TimeUnit.SECONDS);
+        container1.execInContainer("/bin/sh", "-c", "touch /tmp/stopprinting");
+        container2.start();
+        waitingConsumer2 = new WaitingConsumer();
+        var loggingConsumer2 = new Slf4jLogConsumer(LoggerFactory.getLogger(KillIT.class)).withPrefix("2-" + testInfo.getDisplayName());
+        container2.followOutput(loggingConsumer2.andThen(waitingConsumer2));
+        waitingConsumer2.waitUntil(frame -> frame.getUtf8String().contains("Connected"), 60, TimeUnit.SECONDS);
+        waitingConsumer1.waitUntil(frame -> frame.getUtf8String().contains("Connected"), 60, TimeUnit.SECONDS);
+
+        checkConsistency();
+    }
+
+    @Test
+    void killTestDirs2(TestInfo testInfo) throws Exception {
+        var barrier = new CyclicBarrier(2);
+        var ret1 = executor.submit(() -> {
+            try {
+                Log.info("Writing to container 1");
+                barrier.await();
+                container1.execInContainer("/bin/sh", "-c", "counter=0; while [ ! -f /tmp/stopprinting ]; do counter=`expr $counter + 1`; echo $counter >> /dhfs_test/fuse/test$counter; done");
+            } catch (Exception e) {
+                throw new RuntimeException(e);
+            }
+        });
+        barrier.await();
+        Thread.sleep(10000);
+        var client = DockerClientFactory.instance().client();
+        client.killContainerCmd(container2.getContainerId()).exec();
+        container2.stop();
+        waitingConsumer1.waitUntil(frame -> frame.getUtf8String().contains("Lost connection to"), 60, TimeUnit.SECONDS);
+        container1.execInContainer("/bin/sh", "-c", "touch /tmp/stopprinting");
+        container2.start();
+        waitingConsumer2 = new WaitingConsumer();
+        var loggingConsumer2 = new Slf4jLogConsumer(LoggerFactory.getLogger(KillIT.class)).withPrefix("2-" + testInfo.getDisplayName());
+        container2.followOutput(loggingConsumer2.andThen(waitingConsumer2));
+        waitingConsumer2.waitUntil(frame -> frame.getUtf8String().contains("Connected"), 60, TimeUnit.SECONDS);
+        waitingConsumer1.waitUntil(frame -> frame.getUtf8String().contains("Connected"), 60, TimeUnit.SECONDS);
+
+        checkConsistency();
+    }
+}

dhfs-parent/dhfs-fuse/src/test/java/com/usatiuk/dhfsfuse/integration/LazyFs.java

@@ -0,0 +1,215 @@
+package com.usatiuk.dhfsfuse.integration;
+
+import io.quarkus.logging.Log;
+
+import java.io.*;
+import java.nio.file.Path;
+import java.util.ArrayList;
+import java.util.concurrent.CountDownLatch;
+import java.util.concurrent.ThreadLocalRandom;
+import java.util.concurrent.TimeUnit;
+
+public class LazyFs {
+    private static final String lazyFsPath;
+
+    static {
+        lazyFsPath = System.getProperty("lazyFsPath");
+        System.out.println("LazyFs Path: " + lazyFsPath);
+    }
+
+    private final String mountRoot;
+    private final String dataRoot;
+    private final String name;
+    private final File configFile;
+    private final File fifoFile;
+    private Thread errPiper;
+    private Thread outPiper;
+    private CountDownLatch startLatch;
+    private Process fs;
+    public LazyFs(String name, String mountRoot, String dataRoot) {
+        this.name = name;
+        this.mountRoot = mountRoot;
+        this.dataRoot = dataRoot;
+
+        try {
+            configFile = File.createTempFile("lazyfs", ".conf");
+            configFile.deleteOnExit();
+
+            fifoFile = new File("/tmp/" + ThreadLocalRandom.current().nextLong() + ".faultsfifo");
+            fifoFile.deleteOnExit();
+        } catch (IOException e) {
+            throw new RuntimeException(e);
+        }
+
+        Runtime.getRuntime().addShutdownHook(new Thread(this::stop));
+    }
+
+    private String fifoPath() {
+        return fifoFile.getAbsolutePath();
+    }
+
+    public void start(String extraOpts) {
+        var lfsPath = Path.of(lazyFsPath).resolve("build").resolve("lazyfs");
+        if (!lfsPath.toFile().isFile())
+            throw new IllegalStateException("LazyFs binary does not exist: " + lfsPath.toAbsolutePath());
+        if (!lfsPath.toFile().canExecute())
+            throw new IllegalStateException("LazyFs binary is not executable: " + lfsPath.toAbsolutePath());
+
+        try (var rwFile = new RandomAccessFile(configFile, "rw");
+             var channel = rwFile.getChannel()) {
+            channel.truncate(0);
+            var config = "[faults]\n" +
+                    "fifo_path=\"" + fifoPath() + "\"\n" +
+                    "[cache]\n" +
+                    "apply_eviction=false\n" +
+                    "[cache.simple]\n" +
+                    "custom_size=\"1gb\"\n" +
+                    "blocks_per_page=1\n" +
+                    "[filesystem]\n" +
+                    "log_all_operations=false\n" +
+                    "logfile=\"\"\n" + extraOpts;
+            rwFile.write(config.getBytes());
+            Log.info("LazyFs config: \n" + config);
+        } catch (Exception e) {
+            throw new RuntimeException(e);
+        }
+
+        var argList = new ArrayList<String>();
+
+        argList.add(lfsPath.toString());
+        argList.add(Path.of(mountRoot).toString());
+        argList.add("--config-path");
+        argList.add(configFile.getAbsolutePath());
+        argList.add("-o");
+        argList.add("allow_other");
+        argList.add("-o");
+        argList.add("modules=subdir");
+        argList.add("-o");
+        argList.add("subdir=" + Path.of(dataRoot).toAbsolutePath().toString());
+        try {
+            Log.info("Starting LazyFs " + argList);
+            fs = Runtime.getRuntime().exec(argList.toArray(String[]::new));
+        } catch (Exception e) {
+            throw new RuntimeException(e);
+        }
+
+        startLatch = new CountDownLatch(1);
+
+        outPiper = new Thread(() -> {
+            try {
+                try (BufferedReader input = new BufferedReader(new InputStreamReader(fs.getInputStream()))) {
+                    String line;
+
+                    while ((line = input.readLine()) != null) {
+                        if (line.contains("running LazyFS"))
+                            startLatch.countDown();
+                        System.out.println(line);
+                    }
+                }
+            } catch (Exception e) {
+                Log.info("Exception in LazyFs piper", e);
+            }
+            Log.info("LazyFs out piper finished");
+        });
+        outPiper.start();
+        errPiper = new Thread(() -> {
+            try {
+                try (BufferedReader input = new BufferedReader(new InputStreamReader(fs.getErrorStream()))) {
+                    String line;
+
+                    while ((line = input.readLine()) != null) {
+                        System.out.println(line);
+                    }
+                }
+            } catch (Exception e) {
+                Log.info("Exception in LazyFs piper", e);
+            }
+            Log.info("LazyFs err piper finished");
+        });
+        errPiper.start();
+
+        try {
+            if (!startLatch.await(30, TimeUnit.SECONDS))
+                throw new RuntimeException("StartLatch timed out");
+        } catch (InterruptedException e) {
+            throw new RuntimeException(e);
+        }
+        Log.info("LazyFs started");
+    }
+
+    public void start() {
+        start("");
+    }
+
+    private String mdbPath() {
+        return Path.of(dataRoot).resolve("objects").resolve("data.mdb").toAbsolutePath().toString();
+    }
+
+    public void startTornOp() {
+        start("\n" +
+                "[[injection]]\n" +
+                "type=\"torn-seq\"\n" +
+                "op=\"write\"\n" +
+                "file=\"" + mdbPath() + "\"\n" +
+                "persist=[1,4]\n" +
+                "occurrence=3");
+    }
+
+    public void startTornSeq() {
+        start("[[injection]]\n" +
+                "type=\"torn-op\"\n" +
+                "file=\"" + mdbPath() + "\"\n" +
+                "occurrence=3\n" +
+                "parts=3 #or parts_bytes=[4096,3600,1260]\n" +
+                "persist=[1,3]");
+    }
+
+    public void crash() {
+        try {
+            var cmd = "echo \"lazyfs::crash::timing=after::op=write::from_rgx=*\" > " + fifoPath();
+            Log.info("Running command: " + cmd);
+            Runtime.getRuntime().exec(new String[]{"/bin/sh", "-c", cmd}).waitFor();
+        } catch (Exception e) {
+            throw new RuntimeException(e);
+        }
+    }
+
+    public void stop() {
+        try {
+            synchronized (this) {
+                Runtime.getRuntime().exec(new String[]{"/bin/sh", "-c", "fusermount3 -u " + mountRoot}).waitFor();
+            }
+        } catch (Exception e) {
+            throw new RuntimeException(e);
+        }
+    }
+
+//    Doesn't actually work?
+//
+//    public void crashop() {
+//        try {
+//            var cmd = "echo \"lazyfs::torn-op::file=" + Path.of(lazyFsDataPath).toAbsolutePath().toString() + "/objects/data.mdb::persist=1,3::parts=3::occurrence=5\" > /tmp/faults.fifo";
+//            System.out.println("Running command: " + cmd);
+//            Runtime.getRuntime().exec(new String[]{"/bin/sh", "-c", cmd});
+//            Thread.sleep(1000);
+//            Runtime.getRuntime().exec(new String[]{"/bin/sh", "-c", "fusermount3 -u " + dataRoot});
+//            Thread.sleep(1000);
+//        } catch (Exception e) {
+//            throw new RuntimeException(e);
+//        }
+//    }
+//
+//    public void crashseq() {
+//        try {
+//            var cmd = "echo \"lazyfs::torn-seq::op=write::file=" + Path.of(lazyFsDataPath).toAbsolutePath().toString() + "/objects/data.mdb::persist=1,4::occurrence=2\" > /tmp/faults.fifo";
+//            System.out.println("Running command: " + cmd);
+//            Runtime.getRuntime().exec(new String[]{"/bin/sh", "-c", cmd});
+//            Thread.sleep(1000);
+//            Runtime.getRuntime().exec(new String[]{"/bin/sh", "-c", "fusermount3 -u " + dataRoot});
+//            Thread.sleep(1000);
+//        } catch (Exception e) {
+//            throw new RuntimeException(e);
+//        }
+//    }
+}
+

dhfs-parent/dhfs-fuse/src/test/java/com/usatiuk/dhfsfuse/integration/LazyFsIT.java

@@ -0,0 +1,489 @@
+package com.usatiuk.dhfsfuse.integration;
+
+import com.github.dockerjava.api.model.Device;
+import com.usatiuk.dhfsfuse.TestDataCleaner;
+import io.quarkus.logging.Log;
+import org.junit.jupiter.api.*;
+import org.junit.jupiter.params.ParameterizedTest;
+import org.junit.jupiter.params.provider.EnumSource;
+import org.slf4j.LoggerFactory;
+import org.testcontainers.DockerClientFactory;
+import org.testcontainers.containers.GenericContainer;
+import org.testcontainers.containers.Network;
+import org.testcontainers.containers.output.Slf4jLogConsumer;
+import org.testcontainers.containers.output.WaitingConsumer;
+import org.testcontainers.containers.wait.strategy.Wait;
+
+import java.io.File;
+import java.io.IOException;
+import java.nio.file.Files;
+import java.time.Duration;
+import java.util.Objects;
+import java.util.UUID;
+import java.util.concurrent.*;
+import java.util.stream.Stream;
+
+import static org.awaitility.Awaitility.await;
+
+public class LazyFsIT {
+    GenericContainer<?> container1;
+    GenericContainer<?> container2;
+
+    WaitingConsumer waitingConsumer1;
+    WaitingConsumer waitingConsumer2;
+
+    String c1uuid;
+    String c2uuid;
+
+    File data1;
+    File data2;
+    File data1Lazy;
+    File data2Lazy;
+
+    LazyFs lazyFs1;
+    LazyFs lazyFs2;
+
+    ExecutorService executor;
+    Network network;
+
+    @BeforeEach
+    void setup(TestInfo testInfo) throws IOException, InterruptedException, TimeoutException {
+        executor = Executors.newCachedThreadPool();
+        data1 = Files.createTempDirectory("dhfsdata").toFile();
+        data2 = Files.createTempDirectory("dhfsdata").toFile();
+        data1Lazy = Files.createTempDirectory("lazyfsroot").toFile();
+        data2Lazy = Files.createTempDirectory("lazyfsroot").toFile();
+
+        network = Network.newNetwork();
+
+        lazyFs1 = new LazyFs(testInfo.getDisplayName(), data1.toString(), data1Lazy.toString());
+        lazyFs1.start();
+        lazyFs2 = new LazyFs(testInfo.getDisplayName(), data2.toString(), data2Lazy.toString());
+        lazyFs2.start();
+
+        container1 = new GenericContainer<>(DhfsImage.getInstance())
+                .withPrivilegedMode(true)
+                .withCreateContainerCmdModifier(cmd -> Objects.requireNonNull(cmd.getHostConfig()).withDevices(Device.parse("/dev/fuse")))
+                .waitingFor(Wait.forLogMessage(".*Listening.*", 1).withStartupTimeout(Duration.ofSeconds(60))).withNetwork(network)
+                .withFileSystemBind(data1.getAbsolutePath(), "/dhfs_test/data");
+        container2 = new GenericContainer<>(DhfsImage.getInstance())
+                .withPrivilegedMode(true)
+                .withCreateContainerCmdModifier(cmd -> Objects.requireNonNull(cmd.getHostConfig()).withDevices(Device.parse("/dev/fuse")))
+                .waitingFor(Wait.forLogMessage(".*Listening.*", 1).withStartupTimeout(Duration.ofSeconds(60))).withNetwork(network)
+                .withFileSystemBind(data2.getAbsolutePath(), "/dhfs_test/data");
+
+        Stream.of(container1, container2).parallel().forEach(GenericContainer::start);
+
+        waitingConsumer1 = new WaitingConsumer();
+        var loggingConsumer1 = new Slf4jLogConsumer(LoggerFactory.getLogger(LazyFsIT.class)).withPrefix("1-" + testInfo.getDisplayName());
+        container1.followOutput(loggingConsumer1.andThen(waitingConsumer1));
+        waitingConsumer2 = new WaitingConsumer();
+        var loggingConsumer2 = new Slf4jLogConsumer(LoggerFactory.getLogger(LazyFsIT.class)).withPrefix("2-" + testInfo.getDisplayName());
+        container2.followOutput(loggingConsumer2.andThen(waitingConsumer2));
+
+        c1uuid = container1.execInContainer("/bin/sh", "-c", "cat /dhfs_test/data/stuff/self_uuid").getStdout();
+        c2uuid = container2.execInContainer("/bin/sh", "-c", "cat /dhfs_test/data/stuff/self_uuid").getStdout();
+
+        Assertions.assertDoesNotThrow(() -> UUID.fromString(c1uuid));
+        Assertions.assertDoesNotThrow(() -> UUID.fromString(c2uuid));
+
+        waitingConsumer2.waitUntil(frame -> frame.getUtf8String().contains("New address"), 60, TimeUnit.SECONDS);
+        waitingConsumer1.waitUntil(frame -> frame.getUtf8String().contains("New address"), 60, TimeUnit.SECONDS);
+
+        var c1curl = container1.execInContainer("/bin/sh", "-c",
+                "curl --header \"Content-Type: application/json\" " +
+                        "  --request PUT " +
+                        "  --data '{}' " +
+                        "  http://localhost:8080/peers-manage/known-peers/" + c2uuid);
+
+        var c2curl = container2.execInContainer("/bin/sh", "-c",
+                "curl --header \"Content-Type: application/json\" " +
+                        "  --request PUT " +
+                        "  --data '{}' " +
+                        "  http://localhost:8080/peers-manage/known-peers/" + c1uuid);
+
+        waitingConsumer2.waitUntil(frame -> frame.getUtf8String().contains("Connected"), 60, TimeUnit.SECONDS);
+        waitingConsumer1.waitUntil(frame -> frame.getUtf8String().contains("Connected"), 60, TimeUnit.SECONDS);
+    }
+
+    @AfterEach
+    void stop() {
+        lazyFs1.stop();
+        lazyFs2.stop();
+
+        Stream.of(container1, container2).parallel().forEach(GenericContainer::stop);
+        TestDataCleaner.purgeDirectory(data1);
+        TestDataCleaner.purgeDirectory(data1Lazy);
+        TestDataCleaner.purgeDirectory(data2);
+        TestDataCleaner.purgeDirectory(data2Lazy);
+
+        executor.close();
+        network.close();
+    }
+
+    private void checkConsistency(String testName) {
+        await().atMost(45, TimeUnit.SECONDS).until(() -> {
+            var ls1 = container1.execInContainer("/bin/sh", "-c", "ls /dhfs_test/fuse");
+            var cat1 = container1.execInContainer("/bin/sh", "-c", "cat /dhfs_test/fuse/*");
+            var ls2 = container2.execInContainer("/bin/sh", "-c", "ls /dhfs_test/fuse");
+            var cat2 = container2.execInContainer("/bin/sh", "-c", "cat /dhfs_test/fuse/*");
+            Log.info("Listing consistency " + testName + "\n"
+                    + ls1 + "\n"
+                    + cat1 + "\n"
+                    + ls2 + "\n"
+                    + cat2 + "\n");
+
+            return ls1.equals(ls2) && cat1.equals(cat2) && ls1.getExitCode() == 0 && ls2.getExitCode() == 0 && cat1.getExitCode() == 0 && cat2.getExitCode() == 0;
+        });
+    }
+
+    @ParameterizedTest
+    @EnumSource(CrashType.class)
+    void killTest(CrashType crashType, TestInfo testInfo) throws Exception {
+        var barrier = new CountDownLatch(1);
+        executor.submit(() -> {
+            try {
+                Log.info("Writing to container 1");
+                barrier.countDown();
+                container1.execInContainer("/bin/sh", "-c", "counter=0; while true; do counter=`expr $counter + 1`; echo $counter >> /dhfs_test/fuse/test1; done");
+            } catch (Exception e) {
+                throw new RuntimeException(e);
+            }
+        });
+        barrier.await();
+        Thread.sleep(3000);
+        Log.info("Killing");
+        lazyFs1.crash();
+        waitingConsumer1.waitUntil(frame -> frame.getUtf8String().contains("org.lmdbjava.LmdbNativeException"), 60, TimeUnit.SECONDS);
+        var client = DockerClientFactory.instance().client();
+        client.killContainerCmd(container1.getContainerId()).exec();
+        container1.stop();
+        lazyFs1.stop();
+        waitingConsumer2.waitUntil(frame -> frame.getUtf8String().contains("Lost connection to"), 60, TimeUnit.SECONDS);
+        Log.info("Restart");
+        switch (crashType) {
+            case CRASH -> lazyFs1.start();
+            case TORN_OP -> lazyFs1.startTornOp();
+            case TORN_SEQ -> lazyFs1.startTornSeq();
+        }
+        container1.start();
+
+        waitingConsumer1 = new WaitingConsumer();
+        var loggingConsumer1 = new Slf4jLogConsumer(LoggerFactory.getLogger(LazyFsIT.class)).withPrefix("1-" + testInfo.getDisplayName());
+        container1.followOutput(loggingConsumer1.andThen(waitingConsumer1));
+        try {
+            waitingConsumer2.waitUntil(frame -> frame.getUtf8String().contains("Connected"), 60, TimeUnit.SECONDS);
+            waitingConsumer1.waitUntil(frame -> frame.getUtf8String().contains("Connected"), 60, TimeUnit.SECONDS);
+        } catch (TimeoutException e) {
+            Log.info("Failed to connect: " + testInfo.getDisplayName());
+            // Sometimes it doesn't get mounted properly for some reason
+            Assumptions.assumeTrue(false);
+        }
+
+        executor.submit(() -> {
+            try {
+                Log.info("Writing to container 1");
+                barrier.countDown();
+                container1.execInContainer("/bin/sh", "-c", "counter=0; while true; do counter=`expr $counter + 1`; echo $counter >> /dhfs_test/fuse/test2; done");
+            } catch (Exception e) {
+                throw new RuntimeException(e);
+            }
+        });
+        Log.info("Killing");
+        if (crashType.equals(CrashType.CRASH)) {
+            Thread.sleep(3000);
+            lazyFs1.crash();
+        }
+        try {
+            waitingConsumer1.waitUntil(frame -> frame.getUtf8String().contains("org.lmdbjava.LmdbNativeException"), 60, TimeUnit.SECONDS);
+        } catch (TimeoutException e) {
+            // Sometimes crash doesn't work
+            Log.info("Failed to crash: " + testInfo.getDisplayName());
+            if (crashType.equals(CrashType.CRASH))
+                throw e;
+            Assumptions.assumeTrue(false);
+        }
+        client.killContainerCmd(container1.getContainerId()).exec();
+        container1.stop();
+        lazyFs1.stop();
+        waitingConsumer2.waitUntil(frame -> frame.getUtf8String().contains("Lost connection to"), 60, TimeUnit.SECONDS);
+        Log.info("Restart");
+        lazyFs1.start();
+        container1.start();
+
+        waitingConsumer1 = new WaitingConsumer();
+        loggingConsumer1 = new Slf4jLogConsumer(LoggerFactory.getLogger(LazyFsIT.class)).withPrefix("1-" + testInfo.getDisplayName());
+        container1.followOutput(loggingConsumer1.andThen(waitingConsumer1));
+        waitingConsumer2.waitUntil(frame -> frame.getUtf8String().contains("Connected"), 60, TimeUnit.SECONDS);
+        waitingConsumer1.waitUntil(frame -> frame.getUtf8String().contains("Connected"), 60, TimeUnit.SECONDS);
+
+        checkConsistency(testInfo.getDisplayName());
+    }
+
+    @ParameterizedTest
+    @EnumSource(CrashType.class)
+    void killTestDirs(CrashType crashType, TestInfo testInfo) throws Exception {
+        var barrier = new CountDownLatch(1);
+        executor.submit(() -> {
+            try {
+                Log.info("Writing to container 1");
+                barrier.countDown();
+                container1.execInContainer("/bin/sh", "-c", "counter=0; while true; do counter=`expr $counter + 1`; echo $counter >> /dhfs_test/fuse/test$counter; done");
+            } catch (Exception e) {
+                throw new RuntimeException(e);
+            }
+        });
+        barrier.await();
+        Thread.sleep(3000);
+        Log.info("Killing");
+        lazyFs1.crash();
+        waitingConsumer1.waitUntil(frame -> frame.getUtf8String().contains("org.lmdbjava.LmdbNativeException"), 60, TimeUnit.SECONDS);
+        var client = DockerClientFactory.instance().client();
+        client.killContainerCmd(container1.getContainerId()).exec();
+        container1.stop();
+        lazyFs1.stop();
+        waitingConsumer2.waitUntil(frame -> frame.getUtf8String().contains("Lost connection to"), 60, TimeUnit.SECONDS);
+        Log.info("Restart");
+        switch (crashType) {
+            case CRASH -> lazyFs1.start();
+            case TORN_OP -> lazyFs1.startTornOp();
+            case TORN_SEQ -> lazyFs1.startTornSeq();
+        }
+        container1.start();
+
+        waitingConsumer1 = new WaitingConsumer();
+        var loggingConsumer1 = new Slf4jLogConsumer(LoggerFactory.getLogger(LazyFsIT.class)).withPrefix("1-" + testInfo.getDisplayName());
+        container1.followOutput(loggingConsumer1.andThen(waitingConsumer1));
+        try {
+            waitingConsumer2.waitUntil(frame -> frame.getUtf8String().contains("Connected"), 60, TimeUnit.SECONDS);
+            waitingConsumer1.waitUntil(frame -> frame.getUtf8String().contains("Connected"), 60, TimeUnit.SECONDS);
+        } catch (TimeoutException e) {
+            Log.info("Failed to connect: " + testInfo.getDisplayName());
+            // Sometimes it doesn't get mounted properly for some reason
+
+            Assumptions.assumeTrue(false);
+        }
+
+        executor.submit(() -> {
+            try {
+                Log.info("Writing to container 1");
+                barrier.countDown();
+                container1.execInContainer("/bin/sh", "-c", "counter=0; while true; do counter=`expr $counter + 1`; echo $counter >> /dhfs_test/fuse/2test$counter; done");
+            } catch (Exception e) {
+                throw new RuntimeException(e);
+            }
+        });
+        Log.info("Killing");
+        if (crashType.equals(CrashType.CRASH)) {
+            Thread.sleep(3000);
+            lazyFs1.crash();
+        }
+        try {
+            waitingConsumer1.waitUntil(frame -> frame.getUtf8String().contains("org.lmdbjava.LmdbNativeException"), 60, TimeUnit.SECONDS);
+        } catch (TimeoutException e) {
+            // Sometimes crash doesn't work
+            Log.info("Failed to crash: " + testInfo.getDisplayName());
+            if (crashType.equals(CrashType.CRASH))
+                throw e;
+            Assumptions.assumeTrue(false);
+        }
+        client.killContainerCmd(container1.getContainerId()).exec();
+        container1.stop();
+        lazyFs1.stop();
+        waitingConsumer2.waitUntil(frame -> frame.getUtf8String().contains("Lost connection to"), 60, TimeUnit.SECONDS);
+        Log.info("Restart");
+        lazyFs1.start();
+        container1.start();
+
+        waitingConsumer1 = new WaitingConsumer();
+        loggingConsumer1 = new Slf4jLogConsumer(LoggerFactory.getLogger(LazyFsIT.class)).withPrefix("1-" + testInfo.getDisplayName());
+        container1.followOutput(loggingConsumer1.andThen(waitingConsumer1));
+        waitingConsumer2.waitUntil(frame -> frame.getUtf8String().contains("Connected"), 60, TimeUnit.SECONDS);
+        waitingConsumer1.waitUntil(frame -> frame.getUtf8String().contains("Connected"), 60, TimeUnit.SECONDS);
+
+        checkConsistency(testInfo.getDisplayName());
+    }
+
+    @ParameterizedTest
+    @EnumSource(CrashType.class)
+    void killTest2(CrashType crashType, TestInfo testInfo) throws Exception {
+        var barrier = new CountDownLatch(1);
+        executor.submit(() -> {
+            try {
+                Log.info("Writing to container 1");
+                barrier.countDown();
+                container1.execInContainer("/bin/sh", "-c", "counter=0; while  [ ! -f /tmp/stopprinting1 ]; do counter=`expr $counter + 1`; echo $counter >> /dhfs_test/fuse/test1; done");
+            } catch (Exception e) {
+                throw new RuntimeException(e);
+            }
+        });
+        barrier.await();
+        Thread.sleep(3000);
+        Log.info("Killing");
+        lazyFs2.crash();
+        container1.execInContainer("/bin/sh", "-c", "touch /tmp/stopprinting1");
+        waitingConsumer2.waitUntil(frame -> frame.getUtf8String().contains("org.lmdbjava.LmdbNativeException"), 60, TimeUnit.SECONDS);
+        var client = DockerClientFactory.instance().client();
+        client.killContainerCmd(container2.getContainerId()).exec();
+        container2.stop();
+        lazyFs2.stop();
+        waitingConsumer1.waitUntil(frame -> frame.getUtf8String().contains("Lost connection to"), 60, TimeUnit.SECONDS);
+        Log.info("Restart");
+        switch (crashType) {
+            case CRASH -> lazyFs2.start();
+            case TORN_OP -> lazyFs2.startTornOp();
+            case TORN_SEQ -> lazyFs2.startTornSeq();
+        }
+        container2.start();
+
+        waitingConsumer2 = new WaitingConsumer();
+        var loggingConsumer2 = new Slf4jLogConsumer(LoggerFactory.getLogger(LazyFsIT.class)).withPrefix("2-" + testInfo.getDisplayName());
+        container2.followOutput(loggingConsumer2.andThen(waitingConsumer2));
+        try {
+            waitingConsumer2.waitUntil(frame -> frame.getUtf8String().contains("Connected"), 60, TimeUnit.SECONDS);
+            waitingConsumer1.waitUntil(frame -> frame.getUtf8String().contains("Connected"), 60, TimeUnit.SECONDS);
+        } catch (TimeoutException e) {
+            Log.info("Failed to connect: " + testInfo.getDisplayName());
+            // Sometimes it doesn't get mounted properly for some reason
+
+            Assumptions.assumeTrue(false);
+        }
+        var barrier2 = new CountDownLatch(1);
+        executor.submit(() -> {
+            try {
+                Log.info("Writing to container 1");
+                barrier2.countDown();
+                container1.execInContainer("/bin/sh", "-c", "counter=0; while  [ ! -f /tmp/stopprinting2 ]; do counter=`expr $counter + 1`; echo $counter >> /dhfs_test/fuse/test2; done");
+            } catch (Exception e) {
+                throw new RuntimeException(e);
+            }
+        });
+        barrier2.await();
+        Log.info("Killing");
+        Thread.sleep(3000);
+        if (crashType.equals(CrashType.CRASH)) {
+            lazyFs2.crash();
+        }
+        container1.execInContainer("/bin/sh", "-c", "touch /tmp/stopprinting2");
+        try {
+            waitingConsumer2.waitUntil(frame -> frame.getUtf8String().contains("org.lmdbjava.LmdbNativeException"), 60, TimeUnit.SECONDS);
+        } catch (TimeoutException e) {
+            // Sometimes crash doesn't work
+            Log.info("Failed to crash: " + testInfo.getDisplayName());
+            if (crashType.equals(CrashType.CRASH))
+                throw e;
+            Assumptions.assumeTrue(false);
+        }
+        client.killContainerCmd(container2.getContainerId()).exec();
+        container2.stop();
+        lazyFs2.stop();
+        waitingConsumer1.waitUntil(frame -> frame.getUtf8String().contains("Lost connection to"), 60, TimeUnit.SECONDS);
+        Log.info("Restart");
+        lazyFs2.start();
+        container2.start();
+
+        waitingConsumer2 = new WaitingConsumer();
+        loggingConsumer2 = new Slf4jLogConsumer(LoggerFactory.getLogger(LazyFsIT.class)).withPrefix("2-" + testInfo.getDisplayName());
+        container2.followOutput(loggingConsumer2.andThen(waitingConsumer2));
+        waitingConsumer2.waitUntil(frame -> frame.getUtf8String().contains("Connected"), 60, TimeUnit.SECONDS);
+        waitingConsumer1.waitUntil(frame -> frame.getUtf8String().contains("Connected"), 60, TimeUnit.SECONDS);
+
+        checkConsistency(testInfo.getDisplayName());
+    }
+
+    @ParameterizedTest
+    @EnumSource(CrashType.class)
+    void killTestDirs2(CrashType crashType, TestInfo testInfo) throws Exception {
+        var barrier = new CountDownLatch(1);
+        executor.submit(() -> {
+            try {
+                Log.info("Writing to container 1");
+                barrier.countDown();
+                container1.execInContainer("/bin/sh", "-c", "counter=0; while  [ ! -f /tmp/stopprinting1 ]; do counter=`expr $counter + 1`; echo $counter >> /dhfs_test/fuse/test$counter; done");
+            } catch (Exception e) {
+                throw new RuntimeException(e);
+            }
+        });
+        barrier.await();
+        Thread.sleep(3000);
+        Log.info("Killing");
+        lazyFs2.crash();
+        container1.execInContainer("/bin/sh", "-c", "touch /tmp/stopprinting1");
+        waitingConsumer2.waitUntil(frame -> frame.getUtf8String().contains("org.lmdbjava.LmdbNativeException"), 60, TimeUnit.SECONDS);
+        var client = DockerClientFactory.instance().client();
+        client.killContainerCmd(container2.getContainerId()).exec();
+        container2.stop();
+        lazyFs2.stop();
+        waitingConsumer1.waitUntil(frame -> frame.getUtf8String().contains("Lost connection to"), 60, TimeUnit.SECONDS);
+        Log.info("Restart");
+        switch (crashType) {
+            case CRASH -> lazyFs2.start();
+            case TORN_OP -> lazyFs2.startTornOp();
+            case TORN_SEQ -> lazyFs2.startTornSeq();
+        }
+        container2.start();
+
+        waitingConsumer2 = new WaitingConsumer();
+        var loggingConsumer2 = new Slf4jLogConsumer(LoggerFactory.getLogger(LazyFsIT.class)).withPrefix("2-" + testInfo.getDisplayName());
+        container2.followOutput(loggingConsumer2.andThen(waitingConsumer2));
+        try {
+            waitingConsumer2.waitUntil(frame -> frame.getUtf8String().contains("Connected"), 60, TimeUnit.SECONDS);
+            waitingConsumer1.waitUntil(frame -> frame.getUtf8String().contains("Connected"), 60, TimeUnit.SECONDS);
+        } catch (TimeoutException e) {
+            Log.info("Failed to connect: " + testInfo.getDisplayName());
+            // Sometimes it doesn't get mounted properly for some reason
+            Assumptions.assumeTrue(false);
+        }
+
+        var barrier2 = new CountDownLatch(1);
+        executor.submit(() -> {
+            try {
+                Log.info("Writing to container 1");
+                barrier2.countDown();
+                container1.execInContainer("/bin/sh", "-c", "counter=0; while  [ ! -f /tmp/stopprinting2 ]; do counter=`expr $counter + 1`; echo $counter >> /dhfs_test/fuse/2test$counter; done");
+            } catch (Exception e) {
+                throw new RuntimeException(e);
+            }
+        });
+        barrier2.await();
+        Thread.sleep(3000);
+        Log.info("Killing");
+        if (crashType.equals(CrashType.CRASH)) {
+            lazyFs2.crash();
+        }
+        container1.execInContainer("/bin/sh", "-c", "touch /tmp/stopprinting2");
+        try {
+            waitingConsumer2.waitUntil(frame -> frame.getUtf8String().contains("org.lmdbjava.LmdbNativeException"), 60, TimeUnit.SECONDS);
+        } catch (TimeoutException e) {
+            // Sometimes crash doesn't work
+            Log.info("Failed to crash: " + testInfo.getDisplayName());
+            if (crashType.equals(CrashType.CRASH))
+                throw e;
+            Assumptions.assumeTrue(false);
+        }
+        client.killContainerCmd(container2.getContainerId()).exec();
+        container2.stop();
+        lazyFs2.stop();
+        waitingConsumer1.waitUntil(frame -> frame.getUtf8String().contains("Lost connection to"), 60, TimeUnit.SECONDS);
+        Log.info("Restart");
+        lazyFs2.start();
+        container2.start();
+
+        waitingConsumer2 = new WaitingConsumer();
+        loggingConsumer2 = new Slf4jLogConsumer(LoggerFactory.getLogger(LazyFsIT.class)).withPrefix("2-" + testInfo.getDisplayName());
+        container2.followOutput(loggingConsumer2.andThen(waitingConsumer2));
+        waitingConsumer2.waitUntil(frame -> frame.getUtf8String().contains("Connected"), 60, TimeUnit.SECONDS);
+        waitingConsumer1.waitUntil(frame -> frame.getUtf8String().contains("Connected"), 60, TimeUnit.SECONDS);
+
+        checkConsistency(testInfo.getDisplayName());
+    }
+
+
+    private static enum CrashType {
+        CRASH,
+        TORN_OP,
+        TORN_SEQ
+    }
+
+
+}

dhfs-parent/dhfs-fuse/src/test/java/com/usatiuk/dhfsfuse/integration/ResyncIT.java

@@ -1,4 +1,4 @@
-package com.usatiuk.dhfs.integration;
+package com.usatiuk.dhfsfuse.integration;
 
 import com.github.dockerjava.api.model.Device;
 import org.junit.jupiter.api.*;
@@ -29,9 +29,11 @@ public class ResyncIT {
     String c1uuid;
     String c2uuid;
 
+    Network network;
+
     @BeforeEach
     void setup(TestInfo testInfo) throws IOException, InterruptedException, TimeoutException {
-        Network network = Network.newNetwork();
+        network = Network.newNetwork();
 
         container1 = new GenericContainer<>(DhfsImage.getInstance())
                 .withPrivilegedMode(true)
@@ -55,13 +57,14 @@ public class ResyncIT {
     @AfterEach
     void stop() {
         Stream.of(container1, container2).parallel().forEach(GenericContainer::stop);
+        network.close();
     }
 
     @Test
     void readWriteFileTest() throws IOException, InterruptedException, TimeoutException {
-        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container1.execInContainer("/bin/sh", "-c", "echo tesempty > /root/dhfs_default/fuse/testf1").getExitCode());
-        c1uuid = container1.execInContainer("/bin/sh", "-c", "cat /root/dhfs_default/data/stuff/self_uuid").getStdout();
-        c2uuid = container2.execInContainer("/bin/sh", "-c", "cat /root/dhfs_default/data/stuff/self_uuid").getStdout();
+        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container1.execInContainer("/bin/sh", "-c", "echo tesempty > /dhfs_test/fuse/testf1").getExitCode());
+        c1uuid = container1.execInContainer("/bin/sh", "-c", "cat /dhfs_test/data/stuff/self_uuid").getStdout();
+        c2uuid = container2.execInContainer("/bin/sh", "-c", "cat /dhfs_test/data/stuff/self_uuid").getStdout();
 
         Assertions.assertDoesNotThrow(() -> UUID.fromString(c1uuid));
         Assertions.assertDoesNotThrow(() -> UUID.fromString(c2uuid));
@@ -72,36 +75,36 @@ public class ResyncIT {
         var c1curl = container1.execInContainer("/bin/sh", "-c",
                 "curl --header \"Content-Type: application/json\" " +
                         "  --request PUT " +
-                        "  --data '{\"uuid\":\"" + c2uuid + "\"}' " +
-                        "  http://localhost:8080/peers-manage/known-peers");
+                        "  --data '{}' " +
+                        "  http://localhost:8080/peers-manage/known-peers/" + c2uuid);
 
         var c2curl = container2.execInContainer("/bin/sh", "-c",
                 "curl --header \"Content-Type: application/json\" " +
                         "  --request PUT " +
-                        "  --data '{\"uuid\":\"" + c1uuid + "\"}' " +
-                        "  http://localhost:8080/peers-manage/known-peers");
+                        "  --data '{}' " +
+                        "  http://localhost:8080/peers-manage/known-peers/" + c1uuid);
 
         waitingConsumer2.waitUntil(frame -> frame.getUtf8String().contains("Connected"), 60, TimeUnit.SECONDS);
         waitingConsumer1.waitUntil(frame -> frame.getUtf8String().contains("Connected"), 60, TimeUnit.SECONDS);
 
-        await().atMost(45, TimeUnit.SECONDS).until(() -> "tesempty\n".equals(container2.execInContainer("/bin/sh", "-c", "cat /root/dhfs_default/fuse/testf1").getStdout()));
+        await().atMost(45, TimeUnit.SECONDS).until(() -> "tesempty\n".equals(container2.execInContainer("/bin/sh", "-c", "cat /dhfs_test/fuse/testf1").getStdout()));
     }
 
 
     @Test
     void manyFiles() throws IOException, InterruptedException, TimeoutException {
-        var ret = container1.execInContainer("/bin/sh", "-c", "for i in $(seq 1 200); do echo $i > /root/dhfs_default/fuse/test$i; done");
+        var ret = container1.execInContainer("/bin/sh", "-c", "for i in $(seq 1 200); do echo $i > /dhfs_test/fuse/test$i; done");
         Assertions.assertEquals(0, ret.getExitCode());
-        var foundWc = container1.execInContainer("/bin/sh", "-c", "find /root/dhfs_default/fuse -type f | wc -l");
+        var foundWc = container1.execInContainer("/bin/sh", "-c", "find /dhfs_test/fuse -type f | wc -l");
         Assertions.assertEquals(200, Integer.valueOf(foundWc.getStdout().strip()));
 
-        ret = container2.execInContainer("/bin/sh", "-c", "for i in $(seq 1 200); do echo $i > /root/dhfs_default/fuse/test-2-$i; done");
+        ret = container2.execInContainer("/bin/sh", "-c", "for i in $(seq 1 200); do echo $i > /dhfs_test/fuse/test-2-$i; done");
         Assertions.assertEquals(0, ret.getExitCode());
-        foundWc = container2.execInContainer("/bin/sh", "-c", "find /root/dhfs_default/fuse -type f | wc -l");
+        foundWc = container2.execInContainer("/bin/sh", "-c", "find /dhfs_test/fuse -type f | wc -l");
         Assertions.assertEquals(200, Integer.valueOf(foundWc.getStdout().strip()));
 
-        c1uuid = container1.execInContainer("/bin/sh", "-c", "cat /root/dhfs_default/data/stuff/self_uuid").getStdout();
-        c2uuid = container2.execInContainer("/bin/sh", "-c", "cat /root/dhfs_default/data/stuff/self_uuid").getStdout();
+        c1uuid = container1.execInContainer("/bin/sh", "-c", "cat /dhfs_test/data/stuff/self_uuid").getStdout();
+        c2uuid = container2.execInContainer("/bin/sh", "-c", "cat /dhfs_test/data/stuff/self_uuid").getStdout();
 
         Assertions.assertDoesNotThrow(() -> UUID.fromString(c1uuid));
         Assertions.assertDoesNotThrow(() -> UUID.fromString(c2uuid));
@@ -112,36 +115,36 @@ public class ResyncIT {
         var c1curl = container1.execInContainer("/bin/sh", "-c",
                 "curl --header \"Content-Type: application/json\" " +
                         "  --request PUT " +
-                        "  --data '{\"uuid\":\"" + c2uuid + "\"}' " +
-                        "  http://localhost:8080/peers-manage/known-peers");
+                        "  --data '{}' " +
+                        "  http://localhost:8080/peers-manage/known-peers/" + c2uuid);
 
         var c2curl = container2.execInContainer("/bin/sh", "-c",
                 "curl --header \"Content-Type: application/json\" " +
                         "  --request PUT " +
-                        "  --data '{\"uuid\":\"" + c1uuid + "\"}' " +
-                        "  http://localhost:8080/peers-manage/known-peers");
+                        "  --data '{}' " +
+                        "  http://localhost:8080/peers-manage/known-peers/" + c1uuid);
 
         waitingConsumer2.waitUntil(frame -> frame.getUtf8String().contains("Connected"), 60, TimeUnit.SECONDS);
         waitingConsumer1.waitUntil(frame -> frame.getUtf8String().contains("Connected"), 60, TimeUnit.SECONDS);
         await().atMost(120, TimeUnit.SECONDS).until(() -> {
-            var foundWc2 = container2.execInContainer("/bin/sh", "-c", "find /root/dhfs_default/fuse -type f | wc -l");
+            var foundWc2 = container2.execInContainer("/bin/sh", "-c", "find /dhfs_test/fuse -type f | wc -l");
             return 400 == Integer.valueOf(foundWc2.getStdout().strip());
         });
         await().atMost(120, TimeUnit.SECONDS).until(() -> {
-            var foundWc2 = container1.execInContainer("/bin/sh", "-c", "find /root/dhfs_default/fuse -type f | wc -l");
+            var foundWc2 = container1.execInContainer("/bin/sh", "-c", "find /dhfs_test/fuse -type f | wc -l");
             return 400 == Integer.valueOf(foundWc2.getStdout().strip());
         });
     }
 
     @Test
     void folderAfterMove() throws IOException, InterruptedException, TimeoutException {
-        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container1.execInContainer("/bin/sh", "-c", "mkdir /root/dhfs_default/fuse/testd1").getExitCode());
-        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container1.execInContainer("/bin/sh", "-c", "echo tesempty1 > /root/dhfs_default/fuse/testd1/testf1").getExitCode());
-        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container1.execInContainer("/bin/sh", "-c", "mv /root/dhfs_default/fuse/testd1 /root/dhfs_default/fuse/testd2").getExitCode());
-        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container1.execInContainer("/bin/sh", "-c", "echo tesempty2 > /root/dhfs_default/fuse/testd2/testf2").getExitCode());
+        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container1.execInContainer("/bin/sh", "-c", "mkdir /dhfs_test/fuse/testd1").getExitCode());
+        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container1.execInContainer("/bin/sh", "-c", "echo tesempty1 > /dhfs_test/fuse/testd1/testf1").getExitCode());
+        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container1.execInContainer("/bin/sh", "-c", "mv /dhfs_test/fuse/testd1 /dhfs_test/fuse/testd2").getExitCode());
+        await().atMost(45, TimeUnit.SECONDS).until(() -> 0 == container1.execInContainer("/bin/sh", "-c", "echo tesempty2 > /dhfs_test/fuse/testd2/testf2").getExitCode());
 
-        c1uuid = container1.execInContainer("/bin/sh", "-c", "cat /root/dhfs_default/data/stuff/self_uuid").getStdout();
-        c2uuid = container2.execInContainer("/bin/sh", "-c", "cat /root/dhfs_default/data/stuff/self_uuid").getStdout();
+        c1uuid = container1.execInContainer("/bin/sh", "-c", "cat /dhfs_test/data/stuff/self_uuid").getStdout();
+        c2uuid = container2.execInContainer("/bin/sh", "-c", "cat /dhfs_test/data/stuff/self_uuid").getStdout();
 
         Assertions.assertDoesNotThrow(() -> UUID.fromString(c1uuid));
         Assertions.assertDoesNotThrow(() -> UUID.fromString(c2uuid));
@@ -152,20 +155,20 @@ public class ResyncIT {
         var c1curl = container1.execInContainer("/bin/sh", "-c",
                 "curl --header \"Content-Type: application/json\" " +
                         "  --request PUT " +
-                        "  --data '{\"uuid\":\"" + c2uuid + "\"}' " +
-                        "  http://localhost:8080/peers-manage/known-peers");
+                        "  --data '{}' " +
+                        "  http://localhost:8080/peers-manage/known-peers/" + c2uuid);
 
         var c2curl = container2.execInContainer("/bin/sh", "-c",
                 "curl --header \"Content-Type: application/json\" " +
                         "  --request PUT " +
-                        "  --data '{\"uuid\":\"" + c1uuid + "\"}' " +
-                        "  http://localhost:8080/peers-manage/known-peers");
+                        "  --data '{}' " +
+                        "  http://localhost:8080/peers-manage/known-peers/" + c1uuid);
 
         waitingConsumer2.waitUntil(frame -> frame.getUtf8String().contains("Connected"), 60, TimeUnit.SECONDS);
         waitingConsumer1.waitUntil(frame -> frame.getUtf8String().contains("Connected"), 60, TimeUnit.SECONDS);
 
-        await().atMost(45, TimeUnit.SECONDS).until(() -> "tesempty1\n".equals(container2.execInContainer("/bin/sh", "-c", "cat /root/dhfs_default/fuse/testd2/testf1").getStdout()));
-        await().atMost(45, TimeUnit.SECONDS).until(() -> "tesempty2\n".equals(container2.execInContainer("/bin/sh", "-c", "cat /root/dhfs_default/fuse/testd2/testf2").getStdout()));
+        await().atMost(45, TimeUnit.SECONDS).until(() -> "tesempty1\n".equals(container2.execInContainer("/bin/sh", "-c", "cat /dhfs_test/fuse/testd2/testf1").getStdout()));
+        await().atMost(45, TimeUnit.SECONDS).until(() -> "tesempty2\n".equals(container2.execInContainer("/bin/sh", "-c", "cat /dhfs_test/fuse/testd2/testf2").getStdout()));
     }
 
 }

dhfs-parent/dhfs-fuse/src/test/resources/application.properties

@@ -0,0 +1,11 @@
+dhfs.objects.persistence.files.root=${HOME}/dhfs_data/dhfs_root_test
+dhfs.objects.root=${HOME}/dhfs_data/dhfs_root_d_test
+dhfs.fuse.root=${HOME}/dhfs_data/dhfs_fuse_root_test
+dhfs.objects.ref_verification=true
+dhfs.objects.deletion.delay=0
+quarkus.log.category."com.usatiuk.dhfs".level=TRACE
+quarkus.log.category."com.usatiuk.dhfs".min-level=TRACE
+quarkus.http.test-port=0
+quarkus.http.test-ssl-port=0
+dhfs.local-discovery=false
+dhfs.objects.persistence.snapshot-extra-checks=true

dhfs-parent/kleppmanntree/src/main/java/com/usatiuk/kleppmanntree/AlreadyExistsException.java

@@ -1,5 +1,8 @@
 package com.usatiuk.kleppmanntree;
 
+/**
+ * Exception thrown when an attempt is made to create a new tree node as a child with a name that already exists.
+ */
 public class AlreadyExistsException extends RuntimeException {
     public AlreadyExistsException(String message) {
         super(message);

dhfs-parent/kleppmanntree/src/main/java/com/usatiuk/kleppmanntree/AtomicClock.java

@@ -1,32 +0,0 @@
-package com.usatiuk.kleppmanntree;
-
-import java.io.Serializable;
-
-public class AtomicClock implements Clock<Long>, Serializable {
-    private long _max = 0;
-
-    public AtomicClock(long counter) {
-        _max = counter;
-    }
-
-    @Override
-    public Long getTimestamp() {
-        return ++_max;
-    }
-
-    public void setTimestamp(Long timestamp) {
-        _max = timestamp;
-    }
-
-    @Override
-    public Long peekTimestamp() {
-        return _max;
-    }
-
-    @Override
-    public Long updateTimestamp(Long receivedTimestamp) {
-        var old = _max;
-        _max = Math.max(_max, receivedTimestamp) + 1;
-        return old;
-    }
-}

dhfs-parent/kleppmanntree/src/main/java/com/usatiuk/kleppmanntree/Clock.java

@@ -1,9 +1,26 @@
 package com.usatiuk.kleppmanntree;
 
+/**
+ * Clock interface
+ */
 public interface Clock<TimestampT extends Comparable<TimestampT>> {
+    /**
+     * Increment and get the current timestamp.
+     * @return the incremented timestamp
+     */
     TimestampT getTimestamp();
 
+    /**
+     * Get the current timestamp without incrementing it.
+     * @return the current timestamp
+     */
     TimestampT peekTimestamp();
 
+    /**
+     * Update the timestamp with an externally received timestamp.
+     * Will set the currently stored timestamp to <code>max(receivedTimestamp, currentTimestamp) + 1</code>
+     * @param receivedTimestamp the received timestamp
+     * @return the previous timestamp
+     */
     TimestampT updateTimestamp(TimestampT receivedTimestamp);
 }

dhfs-parent/kleppmanntree/src/main/java/com/usatiuk/kleppmanntree/CombinedTimestamp.java

@@ -3,6 +3,13 @@ package com.usatiuk.kleppmanntree;
 import java.io.Serializable;
 import java.util.Comparator;
 
+/**
+ * CombinedTimestamp is a record that represents a timestamp and a node ID, ordered first by timestamp and then by node ID.
+ * @param timestamp the timestamp
+ * @param nodeId the node ID. If null, then only the timestamp is used for ordering.
+ * @param <TimestampT> the type of the timestamp
+ * @param <PeerIdT> the type of the node ID
+ */
 public record CombinedTimestamp<TimestampT extends Comparable<TimestampT>, PeerIdT extends Comparable<PeerIdT>>
         (TimestampT timestamp,
          PeerIdT nodeId) implements Comparable<CombinedTimestamp<TimestampT, PeerIdT>>, Serializable {

dhfs-parent/kleppmanntree/src/main/java/com/usatiuk/kleppmanntree/KleppmannTree.java

@@ -1,7 +1,5 @@
 package com.usatiuk.kleppmanntree;
 
-import jakarta.annotation.Nonnull;
-import jakarta.annotation.Nullable;
 import org.apache.commons.lang3.tuple.Pair;
 
 import java.util.*;
@@ -10,6 +8,14 @@ import java.util.function.Function;
 import java.util.logging.Level;
 import java.util.logging.Logger;
 
+/**
+ * An implementation of a tree as described in <a href="https://martin.kleppmann.com/papers/move-op.pdf">A highly-available move operation for replicated trees</a>
+ *
+ * @param <TimestampT> Type of the timestamp
+ * @param <PeerIdT>    Type of the peer ID
+ * @param <MetaT>      Type of the node metadata
+ * @param <NodeIdT>    Type of the node ID
+ */
 public class KleppmannTree<TimestampT extends Comparable<TimestampT>, PeerIdT extends Comparable<PeerIdT>, MetaT extends NodeMeta, NodeIdT> {
     private static final Logger LOGGER = Logger.getLogger(KleppmannTree.class.getName());
 
@@ -17,8 +23,15 @@ public class KleppmannTree<TimestampT extends Comparable<TimestampT>, PeerIdT ex
     private final PeerInterface<PeerIdT> _peers;
     private final Clock<TimestampT> _clock;
     private final OpRecorder<TimestampT, PeerIdT, MetaT, NodeIdT> _opRecorder;
-    private HashMap<NodeIdT, TreeNode<TimestampT, PeerIdT, MetaT, NodeIdT>> _undoCtx = null;
 
+    /**
+     * Constructor with all the dependencies
+     *
+     * @param storage    Storage interface
+     * @param peers      Peer interface
+     * @param clock      Clock interface
+     * @param opRecorder Operation recorder interface
+     */
     public KleppmannTree(StorageInterface<TimestampT, PeerIdT, MetaT, NodeIdT> storage,
                          PeerInterface<PeerIdT> peers,
                          Clock<TimestampT> clock,
@@ -29,6 +42,13 @@ public class KleppmannTree<TimestampT extends Comparable<TimestampT>, PeerIdT ex
         _opRecorder = opRecorder;
     }
 
+    /**
+     * Traverse the tree from the given node ID using the given list of names
+     *
+     * @param fromId The starting node ID
+     * @param names  The list of names to traverse
+     * @return The resulting node ID or null if not found
+     */
     private NodeIdT traverseImpl(NodeIdT fromId, List<String> names) {
         if (names.isEmpty()) return fromId;
 
@@ -42,14 +62,21 @@ public class KleppmannTree<TimestampT extends Comparable<TimestampT>, PeerIdT ex
         return traverseImpl(childId, names.subList(1, names.size()));
     }
 
-    public NodeIdT traverse(NodeIdT fromId, List<String> names) {
-        return traverseImpl(fromId, names.subList(1, names.size()));
-    }
-
+    /**
+     * Traverse the tree from its root node using the given list of names
+     *
+     * @param names The list of names to traverse
+     * @return The resulting node ID or null if not found
+     */
     public NodeIdT traverse(List<String> names) {
         return traverseImpl(_storage.getRootId(), names);
     }
 
+    /**
+     * Undo the effect of a log effect
+     *
+     * @param effect The log effect to undo
+     */
     private void undoEffect(LogEffect<TimestampT, PeerIdT, MetaT, NodeIdT> effect) {
         if (effect.oldInfo() != null) {
             var node = _storage.getById(effect.childId());
@@ -89,10 +116,14 @@ public class KleppmannTree<TimestampT extends Comparable<TimestampT>, PeerIdT ex
                     node.withParent(null)
                             .withLastEffectiveOp(null)
             );
-            _undoCtx.put(node.key(), node);
         }
     }
 
+    /**
+     * Undo the effects of a log record
+     *
+     * @param op The log record to undo
+     */
     private void undoOp(LogRecord<TimestampT, PeerIdT, MetaT, NodeIdT> op) {
         LOGGER.finer(() -> "Will undo op: " + op);
         if (op.effects() != null)
@@ -100,16 +131,32 @@ public class KleppmannTree<TimestampT extends Comparable<TimestampT>, PeerIdT ex
                 undoEffect(e);
     }
 
+    /**
+     * Redo the operation in a log record
+     *
+     * @param entry The log record to redo
+     */
     private void redoOp(Map.Entry<CombinedTimestamp<TimestampT, PeerIdT>, LogRecord<TimestampT, PeerIdT, MetaT, NodeIdT>> entry) {
         var newEffects = doOp(entry.getValue().op(), false);
         _storage.getLog().replace(entry.getKey(), newEffects);
     }
 
+    /**
+     * Perform the operation and put it in the log
+     *
+     * @param op                   The operation to perform
+     * @param failCreatingIfExists Whether to fail if there is a name conflict,
+     *                             otherwise replace the existing node
+     * @throws AlreadyExistsException If the node already exists and failCreatingIfExists is true
+     */
     private void doAndPut(OpMove<TimestampT, PeerIdT, MetaT, NodeIdT> op, boolean failCreatingIfExists) {
         var res = doOp(op, failCreatingIfExists);
         _storage.getLog().put(res.op().timestamp(), res);
     }
 
+    /**
+     * Try to trim the log to the causality threshold
+     */
     private void tryTrimLog() {
         var log = _storage.getLog();
         var timeLog = _storage.getPeerTimestampLog();
@@ -165,22 +212,52 @@ public class KleppmannTree<TimestampT extends Comparable<TimestampT>, PeerIdT ex
         }
     }
 
+    /**
+     * Move a node to a new parent with new metadata
+     *
+     * @param newParent The new parent node ID
+     * @param newMeta   The new metadata
+     * @param child     The child node ID
+     * @throws AlreadyExistsException If the node already exists and failCreatingIfExists is true
+     */
     public <LocalMetaT extends MetaT> void move(NodeIdT newParent, LocalMetaT newMeta, NodeIdT child) {
         move(newParent, newMeta, child, true);
     }
 
+    /**
+     * Move a node to a new parent with new metadata
+     *
+     * @param newParent            The new parent node ID
+     * @param newMeta              The new metadata
+     * @param child                The child node ID
+     * @param failCreatingIfExists Whether to fail if there is a name conflict,
+     *                             otherwise replace the existing node
+     * @throws AlreadyExistsException If the node already exists and failCreatingIfExists is true
+     */
     public void move(NodeIdT newParent, MetaT newMeta, NodeIdT child, boolean failCreatingIfExists) {
         var createdMove = createMove(newParent, newMeta, child);
         applyOp(_peers.getSelfId(), createdMove, failCreatingIfExists);
         _opRecorder.recordOp(createdMove);
     }
 
+    /**
+     * Apply an external operation from a remote peer
+     *
+     * @param from The peer ID
+     * @param op   The operation to apply
+     */
     public void applyExternalOp(PeerIdT from, OpMove<TimestampT, PeerIdT, MetaT, NodeIdT> op) {
         _clock.updateTimestamp(op.timestamp().timestamp());
         applyOp(from, op, false);
     }
 
-    // Returns true if the timestamp is newer than what's seen, false otherwise
+    /**
+     * Update the causality threshold timestamp for a peer
+     *
+     * @param from         The peer ID
+     * @param newTimestamp The timestamp received from it
+     * @return True if the timestamp was updated, false otherwise
+     */
     private boolean updateTimestampImpl(PeerIdT from, TimestampT newTimestamp) {
         TimestampT oldRef = _storage.getPeerTimestampLog().getForPeer(from);
         if (oldRef != null && oldRef.compareTo(newTimestamp) >= 0) { // FIXME?
@@ -191,6 +268,12 @@ public class KleppmannTree<TimestampT extends Comparable<TimestampT>, PeerIdT ex
         return true;
     }
 
+    /**
+     * Update the causality threshold timestamp for a peer
+     *
+     * @param from      The peer ID
+     * @param timestamp The timestamp received from it
+     */
     public void updateExternalTimestamp(PeerIdT from, TimestampT timestamp) {
         var gotExt = _storage.getPeerTimestampLog().getForPeer(from);
         var gotSelf = _storage.getPeerTimestampLog().getForPeer(_peers.getSelfId());
@@ -201,6 +284,15 @@ public class KleppmannTree<TimestampT extends Comparable<TimestampT>, PeerIdT ex
         tryTrimLog();
     }
 
+    /**
+     * Apply an operation from a peer
+     *
+     * @param from                 The peer ID
+     * @param op                   The operation to apply
+     * @param failCreatingIfExists Whether to fail if there is a name conflict,
+     *                             otherwise replace the existing node
+     * @throws AlreadyExistsException If the node already exists and failCreatingIfExists is true
+     */
     private void applyOp(PeerIdT from, OpMove<TimestampT, PeerIdT, MetaT, NodeIdT> op, boolean failCreatingIfExists) {
         if (!updateTimestampImpl(op.timestamp().nodeId(), op.timestamp().timestamp())) return;
 
@@ -217,45 +309,52 @@ public class KleppmannTree<TimestampT extends Comparable<TimestampT>, PeerIdT ex
         }
         assert cmp != 0;
         if (cmp < 0) {
-            try {
-                if (log.containsKey(op.timestamp())) return;
-                var toUndo = log.newestSlice(op.timestamp(), false);
-                _undoCtx = new HashMap<>();
-                for (var entry : toUndo.reversed()) {
-                    undoOp(entry.getValue());
-                }
-                try {
-                    doAndPut(op, failCreatingIfExists);
-                } finally {
-                    for (var entry : toUndo) {
-                        redoOp(entry);
-                    }
-
-                    if (!_undoCtx.isEmpty()) {
-                        for (var e : _undoCtx.entrySet()) {
-                            LOGGER.log(Level.FINE, "Dropping node " + e.getKey());
-                            _storage.removeNode(e.getKey());
-                        }
-                    }
-                    _undoCtx = null;
-                }
-            } finally {
-                tryTrimLog();
+            if (log.containsKey(op.timestamp())) return;
+            var toUndo = log.newestSlice(op.timestamp(), false);
+            for (var entry : toUndo.reversed()) {
+                undoOp(entry.getValue());
             }
+            doAndPut(op, failCreatingIfExists);
+            for (var entry : toUndo) {
+                redoOp(entry);
+            }
+            tryTrimLog();
         } else {
             doAndPut(op, failCreatingIfExists);
             tryTrimLog();
         }
     }
 
+    /**
+     * Get a new timestamp, incrementing the one in storage
+     *
+     * @return A new timestamp
+     */
     private CombinedTimestamp<TimestampT, PeerIdT> getTimestamp() {
         return new CombinedTimestamp<>(_clock.getTimestamp(), _peers.getSelfId());
     }
 
+    /**
+     * Create a new move operation
+     *
+     * @param newParent The new parent node ID
+     * @param newMeta   The new metadata
+     * @param node      The child node ID
+     * @return A new move operation
+     */
     private <LocalMetaT extends MetaT> OpMove<TimestampT, PeerIdT, LocalMetaT, NodeIdT> createMove(NodeIdT newParent, LocalMetaT newMeta, NodeIdT node) {
         return new OpMove<>(getTimestamp(), newParent, newMeta, node);
     }
 
+    /**
+     * Perform the operation and return the log record
+     *
+     * @param op                   The operation to perform
+     * @param failCreatingIfExists Whether to fail if there is a name conflict,
+     *                             otherwise replace the existing node
+     * @return The log record
+     * @throws AlreadyExistsException If the node already exists and failCreatingIfExists is true
+     */
     private LogRecord<TimestampT, PeerIdT, MetaT, NodeIdT> doOp(OpMove<TimestampT, PeerIdT, MetaT, NodeIdT> op, boolean failCreatingIfExists) {
         LOGGER.finer(() -> "Doing op: " + op);
         LogRecord<TimestampT, PeerIdT, MetaT, NodeIdT> computed;
@@ -264,8 +363,7 @@ public class KleppmannTree<TimestampT extends Comparable<TimestampT>, PeerIdT ex
         } catch (AlreadyExistsException aex) {
             throw aex;
         } catch (Exception e) {
-            LOGGER.log(Level.SEVERE, "Error computing effects for op" + op.toString(), e);
-            computed = new LogRecord<>(op, null);
+            throw new RuntimeException("Error computing effects for op " + op.toString(), e);
         }
 
         if (computed.effects() != null)
@@ -273,28 +371,24 @@ public class KleppmannTree<TimestampT extends Comparable<TimestampT>, PeerIdT ex
         return computed;
     }
 
+    /**
+     * Get a new node from storage
+     *
+     * @param key    The node ID
+     * @param parent The parent node ID
+     * @param meta   The metadata
+     * @return A new tree node
+     */
     private TreeNode<TimestampT, PeerIdT, MetaT, NodeIdT> getNewNode(NodeIdT key, NodeIdT parent, MetaT meta) {
-        if (_undoCtx != null) {
-            var node = _undoCtx.get(key);
-            if (node != null) {
-                try {
-                    if (!node.children().isEmpty()) {
-                        LOGGER.log(Level.WARNING, "Not empty children for undone node " + key);
-                    }
-                    node = node.withParent(parent).withMeta(meta);
-                } catch (Exception e) {
-                    LOGGER.log(Level.SEVERE, "Error while fixing up node " + key, e);
-                    node = null;
-                }
-            }
-            if (node != null) {
-                _undoCtx.remove(key);
-                return node;
-            }
-        }
         return _storage.createNewNode(key, parent, meta);
     }
 
+    /**
+     * Apply the effects of a log record
+     *
+     * @param sourceOp The source operation
+     * @param effects  The list of log effects
+     */
     private void applyEffects(OpMove<TimestampT, PeerIdT, MetaT, NodeIdT> sourceOp, List<LogEffect<TimestampT, PeerIdT, MetaT, NodeIdT>> effects) {
         for (var effect : effects) {
             LOGGER.finer(() -> "Applying effect: " + effect + " from op " + sourceOp);
@@ -335,6 +429,15 @@ public class KleppmannTree<TimestampT extends Comparable<TimestampT>, PeerIdT ex
         }
     }
 
+    /**
+     * Compute the effects of a move operation
+     *
+     * @param op                   The operation to process
+     * @param failCreatingIfExists Whether to fail if there is a name conflict,
+     *                             otherwise replace the existing node
+     * @return The log record with the computed effects
+     * @throws AlreadyExistsException If the node already exists and failCreatingIfExists is true
+     */
     private LogRecord<TimestampT, PeerIdT, MetaT, NodeIdT> computeEffects(OpMove<TimestampT, PeerIdT, MetaT, NodeIdT> op, boolean failCreatingIfExists) {
         var node = _storage.getById(op.childId());
 
@@ -372,10 +475,6 @@ public class KleppmannTree<TimestampT extends Comparable<TimestampT>, PeerIdT ex
                 var conflictNode = _storage.getById(conflictNodeId);
                 MetaT conflictNodeMeta = conflictNode.meta();
 
-                if (Objects.equals(conflictNodeMeta, op.newMeta())) {
-                    return new LogRecord<>(op, null);
-                }
-
                 LOGGER.finer(() -> "Node creation conflict: " + conflictNode);
 
                 String newConflictNodeName = op.newName() + ".conflict." + conflictNode.key();
@@ -400,18 +499,14 @@ public class KleppmannTree<TimestampT extends Comparable<TimestampT>, PeerIdT ex
         if (oldMeta != null
                 && op.newMeta() != null
                 && !oldMeta.getClass().equals(op.newMeta().getClass())) {
-            LOGGER.log(Level.SEVERE, "Class mismatch for meta for node " + node.key());
-            return new LogRecord<>(op, null);
+            throw new RuntimeException("Class mismatch for meta for node " + node.key());
         }
+
         var replaceNodeId = newParent.children().get(op.newName());
         if (replaceNodeId != null) {
             var replaceNode = _storage.getById(replaceNodeId);
             var replaceNodeMeta = replaceNode.meta();
 
-            if (Objects.equals(replaceNodeMeta, op.newMeta())) {
-                return new LogRecord<>(op, null);
-            }
-
             LOGGER.finer(() -> "Node replacement: " + replaceNode);
 
             return new LogRecord<>(op, List.of(
@@ -426,6 +521,13 @@ public class KleppmannTree<TimestampT extends Comparable<TimestampT>, PeerIdT ex
         ));
     }
 
+    /**
+     * Check if a node is an ancestor of another node
+     *
+     * @param child  The child node ID
+     * @param parent The parent node ID
+     * @return True if the child is an ancestor of the parent, false otherwise
+     */
     private boolean isAncestor(NodeIdT child, NodeIdT parent) {
         var node = _storage.getById(parent);
         NodeIdT curParent;
@@ -436,6 +538,11 @@ public class KleppmannTree<TimestampT extends Comparable<TimestampT>, PeerIdT ex
         return false;
     }
 
+    /**
+     * Walk the tree and apply the given consumer to each node
+     *
+     * @param consumer The consumer to apply to each node
+     */
     public void walkTree(Consumer<TreeNode<TimestampT, PeerIdT, MetaT, NodeIdT>> consumer) {
         ArrayDeque<NodeIdT> queue = new ArrayDeque<>();
         queue.push(_storage.getRootId());
@@ -449,6 +556,12 @@ public class KleppmannTree<TimestampT extends Comparable<TimestampT>, PeerIdT ex
         }
     }
 
+    /**
+     * Find the parent of a node that matches the given predicate
+     *
+     * @param kidPredicate The predicate to match the child node
+     * @return A pair containing the name of the child and the ID of the parent, or null if not found
+     */
     public Pair<String, NodeIdT> findParent(Function<TreeNode<TimestampT, PeerIdT, MetaT, NodeIdT>, Boolean> kidPredicate) {
         ArrayDeque<NodeIdT> queue = new ArrayDeque<>();
         queue.push(_storage.getRootId());
@@ -469,6 +582,13 @@ public class KleppmannTree<TimestampT extends Comparable<TimestampT>, PeerIdT ex
         return null;
     }
 
+    /**
+     * Record the bootstrap operations for a given peer
+     * Will visit all nodes of the tree and add their effective operations to both the queue to be sent to the peer,
+     * and to the global operation log.
+     *
+     * @param host The peer ID
+     */
     public void recordBoostrapFor(PeerIdT host) {
         TreeMap<CombinedTimestamp<TimestampT, PeerIdT>, OpMove<TimestampT, PeerIdT, MetaT, NodeIdT>> result = new TreeMap<>();
 

dhfs-parent/kleppmanntree/src/main/java/com/usatiuk/kleppmanntree/LogEffect.java

@@ -2,6 +2,18 @@ package com.usatiuk.kleppmanntree;
 
 import java.io.Serializable;
 
+/**
+ * LogEffect is a record that represents the effect of a log entry on a tree node.
+ * @param oldInfo the old information about the node, before it was moved. Null if the node did not exist before
+ * @param effectiveOp the operation that had caused this effect to be applied
+ * @param newParentId the ID of the new parent node
+ * @param newMeta the new metadata of the node
+ * @param childId the ID of the child node
+ * @param <TimestampT> the type of the timestamp
+ * @param <PeerIdT> the type of the peer ID
+ * @param <MetaT> the type of the node metadata
+ * @param <NodeIdT> the type of the node ID
+ */
 public record LogEffect<TimestampT extends Comparable<TimestampT>, PeerIdT extends Comparable<PeerIdT>, MetaT extends NodeMeta, NodeIdT>(
         LogEffectOld<TimestampT, PeerIdT, MetaT, NodeIdT> oldInfo,
         OpMove<TimestampT, PeerIdT, MetaT, NodeIdT> effectiveOp,
@@ -10,14 +22,14 @@ public record LogEffect<TimestampT extends Comparable<TimestampT>, PeerIdT exten
         NodeIdT childId) implements Serializable {
     public String oldName() {
         if (oldInfo.oldMeta() != null) {
-            return oldInfo.oldMeta().getName();
+            return oldInfo.oldMeta().name();
         }
         return childId.toString();
     }
 
     public String newName() {
         if (newMeta != null) {
-            return newMeta.getName();
+            return newMeta.name();
         }
         return childId.toString();
     }

dhfs-parent/kleppmanntree/src/main/java/com/usatiuk/kleppmanntree/LogEffectOld.java

@@ -2,6 +2,16 @@ package com.usatiuk.kleppmanntree;
 
 import java.io.Serializable;
 
+/**
+ * Represents the old information about a node before it was moved.
+ * @param oldEffectiveMove the old effective move that had caused this effect to be applied
+ * @param oldParent the ID of the old parent node
+ * @param oldMeta the old metadata of the node
+ * @param <TimestampT> the type of the timestamp
+ * @param <PeerIdT> the type of the peer ID
+ * @param <MetaT> the type of the node metadata
+ * @param <NodeIdT> the type of the node ID
+ */
 public record LogEffectOld<TimestampT extends Comparable<TimestampT>, PeerIdT extends Comparable<PeerIdT>, MetaT extends NodeMeta, NodeIdT>
         (OpMove<TimestampT, PeerIdT, MetaT, NodeIdT> oldEffectiveMove,
          NodeIdT oldParent,

dhfs-parent/kleppmanntree/src/main/java/com/usatiuk/kleppmanntree/LogInterface.java

@@ -4,29 +4,82 @@ import org.apache.commons.lang3.tuple.Pair;
 
 import java.util.List;
 
+/**
+ * LogInterface is an interface that allows accessing the log of operations
+ * @param <TimestampT> the type of the timestamp
+ * @param <PeerIdT> the type of the peer ID
+ * @param <MetaT> the type of the node metadata
+ * @param <NodeIdT> the type of the node ID
+ */
 public interface LogInterface<
         TimestampT extends Comparable<TimestampT>,
         PeerIdT extends Comparable<PeerIdT>,
         MetaT extends NodeMeta,
         NodeIdT> {
+    /**
+     * Peek the oldest log entry.
+     * @return the oldest log entry
+     */
     Pair<CombinedTimestamp<TimestampT, PeerIdT>, LogRecord<TimestampT, PeerIdT, MetaT, NodeIdT>> peekOldest();
 
+    /**
+     * Take the oldest log entry.
+     * @return the oldest log entry
+     */
     Pair<CombinedTimestamp<TimestampT, PeerIdT>, LogRecord<TimestampT, PeerIdT, MetaT, NodeIdT>> takeOldest();
 
+    /**
+     * Peek the newest log entry.
+     * @return the newest log entry
+     */
     Pair<CombinedTimestamp<TimestampT, PeerIdT>, LogRecord<TimestampT, PeerIdT, MetaT, NodeIdT>> peekNewest();
 
+    /**
+     * Return all log entries that are newer than the given timestamp.
+     * @param since the timestamp to compare with
+     * @param inclusive if true, include the log entry with the given timestamp
+     * @return a list of log entries that are newer than the given timestamp
+     */
     List<Pair<CombinedTimestamp<TimestampT, PeerIdT>, LogRecord<TimestampT, PeerIdT, MetaT, NodeIdT>>>
     newestSlice(CombinedTimestamp<TimestampT, PeerIdT> since, boolean inclusive);
 
+    /**
+     * Return all the log entries
+     * @return a list of all log entries
+     */
     List<Pair<CombinedTimestamp<TimestampT, PeerIdT>, LogRecord<TimestampT, PeerIdT, MetaT, NodeIdT>>> getAll();
 
+    /**
+     * Checks if the log is empty.
+     * @return true if the log is empty, false otherwise
+     */
     boolean isEmpty();
 
+    /**
+     * Checks if the log contains the given timestamp.
+     * @param timestamp the timestamp to check
+     * @return true if the log contains the given timestamp, false otherwise
+     */
     boolean containsKey(CombinedTimestamp<TimestampT, PeerIdT> timestamp);
 
+    /**
+     * Get the size of the log.
+     * @return the size of the log (number of entries)
+     */
     long size();
 
+    /**
+     * Add a log entry to the log.
+     * @param timestamp the timestamp of the log entry
+     * @param record the log entry
+     * @throws IllegalStateException if the log entry already exists
+     */
     void put(CombinedTimestamp<TimestampT, PeerIdT> timestamp, LogRecord<TimestampT, PeerIdT, MetaT, NodeIdT> record);
 
+    /**
+     * Replace a log entry in the log.
+     * @param timestamp the timestamp of the log entry
+     * @param record the log entry
+     */
     void replace(CombinedTimestamp<TimestampT, PeerIdT> timestamp, LogRecord<TimestampT, PeerIdT, MetaT, NodeIdT> record);
 }

dhfs-parent/kleppmanntree/src/main/java/com/usatiuk/kleppmanntree/LogRecord.java

@@ -3,6 +3,15 @@ package com.usatiuk.kleppmanntree;
 import java.io.Serializable;
 import java.util.List;
 
+/**
+ * Represents a log record in the Kleppmann tree.
+ * @param op the operation that is stored in this log record
+ * @param effects the effects of the operation (resulting moves)
+ * @param <TimestampT> the type of the timestamp
+ * @param <PeerIdT> the type of the peer ID
+ * @param <MetaT> the type of the node metadata
+ * @param <NodeIdT> the type of the node ID
+ */
 public record LogRecord<TimestampT extends Comparable<TimestampT>, PeerIdT extends Comparable<PeerIdT>, MetaT extends NodeMeta, NodeIdT>
         (OpMove<TimestampT, PeerIdT, MetaT, NodeIdT> op,
          List<LogEffect<TimestampT, PeerIdT, MetaT, NodeIdT>> effects) implements Serializable {

dhfs-parent/kleppmanntree/src/main/java/com/usatiuk/kleppmanntree/NodeMeta.java

@@ -2,8 +2,24 @@ package com.usatiuk.kleppmanntree;
 
 import java.io.Serializable;
 
+/**
+ * Represents metadata associated with a node in the Kleppmann tree.
+ * This interface is used to define the metadata that can be associated with nodes in the tree.
+ * Implementations of this interface should provide a name for the node and a method to create a copy of it with a new name.
+ */
 public interface NodeMeta extends Serializable {
-    String getName();
+    /**
+     * Returns the name of the node.
+     *
+     * @return the name of the node
+     */
+    String name();
 
+    /**
+     * Creates a copy of the metadata with a new name.
+     *
+     * @param name the new name for the metadata
+     * @return a new instance of NodeMeta with the specified name
+     */
     NodeMeta withName(String name);
 }

dhfs-parent/kleppmanntree/src/main/java/com/usatiuk/kleppmanntree/OpMove.java

@@ -2,12 +2,30 @@ package com.usatiuk.kleppmanntree;
 
 import java.io.Serializable;
 
+/**
+ * Operation that moves a child node to a new parent node.
+ *
+ * @param timestamp    the timestamp of the operation
+ * @param newParentId  the ID of the new parent node
+ * @param newMeta      the new metadata of the node, can be null
+ * @param childId      the ID of the child node (the node that is being moved)
+ * @param <TimestampT> the type of the timestamp
+ * @param <PeerIdT>    the type of the peer ID
+ * @param <MetaT>      the type of the node metadata
+ * @param <NodeIdT>    the type of the node ID
+ */
 public record OpMove<TimestampT extends Comparable<TimestampT>, PeerIdT extends Comparable<PeerIdT>, MetaT extends NodeMeta, NodeIdT>
         (CombinedTimestamp<TimestampT, PeerIdT> timestamp, NodeIdT newParentId, MetaT newMeta,
          NodeIdT childId) implements Serializable {
+    /**
+     * Returns the new name of the node: name extracted from the new metadata if available,
+     * otherwise the child ID converted to string.
+     *
+     * @return the new name of the node
+     */
     public String newName() {
         if (newMeta != null)
-            return newMeta.getName();
+            return newMeta.name();
         return childId.toString();
     }
 }

dhfs-parent/kleppmanntree/src/main/java/com/usatiuk/kleppmanntree/OpRecorder.java

@@ -1,7 +1,26 @@
 package com.usatiuk.kleppmanntree;
 
+/**
+ * Interface to provide recording operations to be sent to peers asynchronously.
+ * @param <TimestampT> the type of the timestamp
+ * @param <PeerIdT> the type of the peer ID
+ * @param <MetaT> the type of the node metadata
+ * @param <NodeIdT> the type of the node ID
+ */
 public interface OpRecorder<TimestampT extends Comparable<TimestampT>, PeerIdT extends Comparable<PeerIdT>, MetaT extends NodeMeta, NodeIdT> {
+    /**
+     * Records an operation to be sent to peers asynchronously.
+     * The operation will be sent to all known peers in the system.
+     *
+     * @param op the operation to be recorded
+     */
     void recordOp(OpMove<TimestampT, PeerIdT, MetaT, NodeIdT> op);
 
+    /**
+     * Records an operation to be sent to a specific peer asynchronously.
+     *
+     * @param peer the ID of the peer to send the operation to
+     * @param op   the operation to be recorded
+     */
     void recordOpForPeer(PeerIdT peer, OpMove<TimestampT, PeerIdT, MetaT, NodeIdT> op);
 }