Add support for override flag (#296)

* Fix FileUtilsTest

* Remove unused imports in FileUtils

* Add support for override flag

This commit adds support for overriding reachability
metadata when the override flag is set to true, designed
to be used with oracle/graalvm-reachability-metadata#51.
It is implemented by adding the required --exclude-config
build arguments.

Closes #268

* Fix NativeImagePlugin.addExcludeConfigArg and related documentation

* Remove unused import

* Fix functional tests

common/graalvm-reachability-metadata/src/main/java/org/graalvm/reachability/DirectoryConfiguration.java

@@ -0,0 +1,63 @@
+/*
+ * Copyright (c) 2020, 2022 Oracle and/or its affiliates. All rights reserved.
+ * DO NOT ALTER OR REMOVE COPYRIGHT NOTICES OR THIS FILE HEADER.
+ *
+ * The Universal Permissive License (UPL), Version 1.0
+ *
+ * Subject to the condition set forth below, permission is hereby granted to any
+ * person obtaining a copy of this software, associated documentation and/or
+ * data (collectively the "Software"), free of charge and under any and all
+ * copyright rights in the Software, and any and all patent rights owned or
+ * freely licensable by each licensor hereunder covering either (i) the
+ * unmodified Software as contributed to or provided by such licensor, or (ii)
+ * the Larger Works (as defined below), to deal in both
+ *
+ * (a) the Software, and
+ *
+ * (b) any piece of software and/or hardware listed in the lrgrwrks.txt file if
+ * one is included with the Software each a "Larger Work" to which the Software
+ * is contributed by such licensors),
+ *
+ * without restriction, including without limitation the rights to copy, create
+ * derivative works of, display, perform, and distribute the Software and make,
+ * use, sell, offer for sale, import, export, have made, and have sold the
+ * Software and the Larger Work(s), and to sublicense the foregoing rights on
+ * either these or other terms.
+ *
+ * This license is subject to the following condition:
+ *
+ * The above copyright notice and either this complete permission notice or at a
+ * minimum a reference to the UPL must be included in all copies or substantial
+ * portions of the Software.
+ *
+ * THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR
+ * IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY,
+ * FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE
+ * AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER
+ * LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM,
+ * OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE
+ * SOFTWARE.
+ */
+package org.graalvm.reachability;
+
+import java.nio.file.Path;
+
+public class DirectoryConfiguration {
+
+    private final Path directory;
+
+    private final boolean override;
+
+    public DirectoryConfiguration(Path directory, boolean override) {
+        this.directory = directory;
+        this.override = override;
+    }
+
+    public Path getDirectory() {
+        return directory;
+    }
+
+    public boolean isOverride() {
+        return override;
+    }
+}

common/graalvm-reachability-metadata/src/main/java/org/graalvm/reachability/GraalVMReachabilityMetadataRepository.java

@@ -40,7 +40,6 @@
  */
 package org.graalvm.reachability;
 
-import java.nio.file.Path;
 import java.util.Collection;
 import java.util.Set;
 import java.util.function.Consumer;
@@ -63,29 +62,29 @@ public interface GraalVMReachabilityMetadataRepository {
      * example if a configuration directory isn't available for a
      * particular artifact version.
      * @param queryBuilder the query builder
-     * @return the set of configuration directories matching the query
+     * @return the set of configuration matching the query
      */
-    Set<Path> findConfigurationDirectoriesFor(Consumer<? super Query> queryBuilder);
+    Set<DirectoryConfiguration> findConfigurationsFor(Consumer<? super Query> queryBuilder);
 
     /**
      * Returns a list of configuration directories for the specified artifact.
      * There may be more than one configuration directory for a given artifact,
      * but the list may also be empty if the repository doesn't contain any.
      * Never null.
      * @param gavCoordinates the artifact GAV coordinates (group:artifact:version)
-     * @return a list of configuration directories
+     * @return a list of configuration
      */
-    default Set<Path> findConfigurationDirectoriesFor(String gavCoordinates) {
-        return findConfigurationDirectoriesFor(q -> q.forArtifacts(gavCoordinates));
+    default Set<DirectoryConfiguration> findConfigurationsFor(String gavCoordinates) {
+        return findConfigurationsFor(q -> q.forArtifacts(gavCoordinates));
     }
 
     /**
      * Returns the set of configuration directories for all the modules supplied
      * as an argument.
      * @param modules the list of modules
-     * @return the set of configuration directories
+     * @return the set of configuration
      */
-    default Set<Path> findConfigurationDirectoriesFor(Collection<String> modules) {
-        return findConfigurationDirectoriesFor(q -> q.forArtifacts(modules));
+    default Set<DirectoryConfiguration> findConfigurationsFor(Collection<String> modules) {
+        return findConfigurationsFor(q -> q.forArtifacts(modules));
     }
 }

common/graalvm-reachability-metadata/src/main/java/org/graalvm/reachability/internal/FileSystemRepository.java

@@ -40,6 +40,7 @@
  */
 package org.graalvm.reachability.internal;
 
+import org.graalvm.reachability.DirectoryConfiguration;
 import org.graalvm.reachability.GraalVMReachabilityMetadataRepository;
 import org.graalvm.reachability.Query;
 import org.graalvm.reachability.internal.index.artifacts.SingleModuleJsonVersionToConfigDirectoryIndex;
@@ -90,7 +91,7 @@ public static boolean isSupportedArchiveFormat(String path) {
     }
 
     @Override
-    public Set<Path> findConfigurationDirectoriesFor(Consumer<? super Query> queryBuilder) {
+    public Set<DirectoryConfiguration> findConfigurationsFor(Consumer<? super Query> queryBuilder) {
         DefaultQuery query = new DefaultQuery();
         queryBuilder.accept(query);
         return query.getArtifacts()
@@ -106,25 +107,25 @@ public Set<Path> findConfigurationDirectoriesFor(Consumer<? super Query> queryBu
                                 if (artifactQuery.getForcedConfig().isPresent()) {
                                     String configVersion = artifactQuery.getForcedConfig().get();
                                     logger.log(groupId, artifactId, version, "Configuration is forced to version " + configVersion);
-                                    return index.findForcedConfiguration(configVersion);
+                                    return index.findConfiguration(groupId, artifactId, configVersion);
                                 }
-                                Optional<Path> configurationDirectory = index.findConfigurationDirectory(groupId, artifactId, version);
-                                if (!configurationDirectory.isPresent() && artifactQuery.isUseLatestVersion()) {
+                                Optional<DirectoryConfiguration> configuration = index.findConfiguration(groupId, artifactId, version);
+                                if (!configuration.isPresent() && artifactQuery.isUseLatestVersion()) {
                                     logger.log(groupId, artifactId, version, "Configuration directory not found. Trying latest version.");
-                                    configurationDirectory = index.findLatestConfigurationFor(groupId, artifactId);
-                                    if (!configurationDirectory.isPresent()) {
+                                    configuration = index.findLatestConfigurationFor(groupId, artifactId);
+                                    if (!configuration.isPresent()) {
                                         logger.log(groupId, artifactId, version, "Latest version not found!");
                                     }
                                 }
-                                Optional<Path> finalConfigurationDirectory = configurationDirectory;
+                                Optional<DirectoryConfiguration> finalConfigurationDirectory = configuration;
                                 logger.log(groupId, artifactId, version, () -> {
                                     if (finalConfigurationDirectory.isPresent()) {
-                                        Path path = finalConfigurationDirectory.get();
+                                        Path path = finalConfigurationDirectory.get().getDirectory();
                                         return "Configuration directory is " + rootDirectory.relativize(path);
                                     }
                                     return "missing.";
                                 });
-                                return configurationDirectory;
+                                return configuration;
                             })
                             .filter(Optional::isPresent)
                             .map(Optional::get);

common/graalvm-reachability-metadata/src/main/java/org/graalvm/reachability/internal/index/artifacts/Artifact.java

@@ -52,16 +52,19 @@ public class Artifact {
     private final Set<String> versions;
     private final String directory;
     private final boolean latest;
+    private final boolean override;
 
     @JsonCreator
     public Artifact(@JsonProperty("module") String module,
                     @JsonProperty("tested-versions") Set<String> versions,
                     @JsonProperty("metadata-version") String directory,
-                    @JsonProperty(value = "latest", defaultValue = "false") boolean latest) {
+                    @JsonProperty(value = "latest", defaultValue = "false") boolean latest,
+                    @JsonProperty(value = "override", defaultValue = "false") boolean override) {
         this.module = module;
         this.versions = versions;
         this.directory = directory;
         this.latest = latest;
+        this.override = override;
     }
 
     public String getModule() {
@@ -79,4 +82,8 @@ public String getDirectory() {
     public boolean isLatest() {
         return latest;
     }
+
+    public boolean isOverride() {
+        return override;
+    }
 }

common/graalvm-reachability-metadata/src/main/java/org/graalvm/reachability/internal/index/artifacts/SingleModuleJsonVersionToConfigDirectoryIndex.java

@@ -42,6 +42,7 @@
 
 import com.fasterxml.jackson.databind.ObjectMapper;
 import com.fasterxml.jackson.databind.type.TypeFactory;
+import org.graalvm.reachability.DirectoryConfiguration;
 import org.graalvm.reachability.internal.UncheckedIOException;
 
 import java.io.BufferedReader;
@@ -80,12 +81,6 @@ private Map<String, List<Artifact>> parseIndexFile(Path rootPath) {
 
     }
 
-    @Override
-    public Optional<Path> findForcedConfiguration(String version) {
-        Path configDir = moduleRoot.resolve(version);
-        return Files.isDirectory(configDir) ? Optional.of(configDir) : Optional.empty();
-    }
-
     /**
      * Returns the configuration directory for the requested artifact.
      *
@@ -95,7 +90,7 @@ public Optional<Path> findForcedConfiguration(String version) {
      * @return a configuration directory, or empty if no configuration directory is available
      */
     @Override
-    public Optional<Path> findConfigurationDirectory(String groupId, String artifactId, String version) {
+    public Optional<DirectoryConfiguration> findConfiguration(String groupId, String artifactId, String version) {
         return findConfigurationFor(groupId, artifactId, artifact -> artifact.getVersions().contains(version));
     }
 
@@ -107,11 +102,11 @@ public Optional<Path> findConfigurationDirectory(String groupId, String artifact
      * @return a configuration directory, or empty if no configuration directory is available
      */
     @Override
-    public Optional<Path> findLatestConfigurationFor(String groupId, String artifactId) {
+    public Optional<DirectoryConfiguration> findLatestConfigurationFor(String groupId, String artifactId) {
         return findConfigurationFor(groupId, artifactId, Artifact::isLatest);
     }
 
-    private Optional<Path> findConfigurationFor(String groupId, String artifactId, Predicate<? super Artifact> predicate) {
+    private Optional<DirectoryConfiguration> findConfigurationFor(String groupId, String artifactId, Predicate<? super Artifact> predicate) {
         String module = groupId + ":" + artifactId;
         List<Artifact> artifacts = index.get(module);
         if (artifacts == null) {
@@ -121,6 +116,7 @@ private Optional<Path> findConfigurationFor(String groupId, String artifactId, P
                 .filter(artifact -> artifact.getModule().equals(module))
                 .filter(predicate)
                 .findFirst()
-                .map(artifact -> moduleRoot.resolve(artifact.getDirectory()));
+                .map(artifact -> new DirectoryConfiguration(moduleRoot.resolve(artifact.getDirectory()), artifact.isOverride()));
     }
+
 }

common/graalvm-reachability-metadata/src/main/java/org/graalvm/reachability/internal/index/artifacts/VersionToConfigDirectoryIndex.java

@@ -40,33 +40,26 @@
  */
 package org.graalvm.reachability.internal.index.artifacts;
 
-import java.nio.file.Path;
 import java.util.Optional;
 
-public interface VersionToConfigDirectoryIndex {
+import org.graalvm.reachability.DirectoryConfiguration;
 
-    /**
-     * Returns the specified configuration directory version, ignoring
-     * any existing configuration.
-     * @param version the requested version
-     * @return the configuration directory
-     */
-    Optional<Path> findForcedConfiguration(String version);
+public interface VersionToConfigDirectoryIndex {
 
     /**
-     * Returns the configuration directory for the requested artifact.
+     * Returns the configuration for the requested artifact.
      * @param groupId the group ID of the artifact
      * @param artifactId the artifact ID of the artifact
      * @param version the version of the artifact
-     * @return a configuration directory, or empty if no configuration directory is available
+     * @return a configuration, or empty if no configuration directory is available
      */
-    Optional<Path> findConfigurationDirectory(String groupId, String artifactId, String version);
+    Optional<DirectoryConfiguration> findConfiguration(String groupId, String artifactId, String version);
 
     /**
-     * Returns the latest configuration directory for the requested artifact.
+     * Returns the latest configuration for the requested artifact.
      * @param groupId the group ID of the artifact
      * @param artifactId the artifact ID of the artifact
-     * @return a configuration directory, or empty if no configuration directory is available
+     * @return a configuration, or empty if no configuration directory is available
      */
-    Optional<Path> findLatestConfigurationFor(String groupId, String artifactId);
+    Optional<DirectoryConfiguration> findLatestConfigurationFor(String groupId, String artifactId);
 }

common/graalvm-reachability-metadata/src/test/java/org/graalvm/reachability/internal/FileSystemRepositoryTest.java

@@ -41,6 +41,7 @@
 
 package org.graalvm.reachability.internal;
 
+import org.graalvm.reachability.DirectoryConfiguration;
 import org.graalvm.reachability.Query;
 import org.junit.jupiter.api.Test;
 
@@ -51,6 +52,8 @@
 import java.util.function.Consumer;
 
 import static org.junit.jupiter.api.Assertions.assertEquals;
+import static org.junit.jupiter.api.Assertions.assertFalse;
+import static org.junit.jupiter.api.Assertions.assertTrue;
 
 class FileSystemRepositoryTest {
     private FileSystemRepository repository;
@@ -65,9 +68,11 @@ void testRepo1() {
 
         // then:
         result.hasSinglePath("org/foo/1.0");
+        result.hasNoOverride();
 
         // when:
         lookup("org:foo:1.1");
+        result.hasOverride();
 
         // then:
         result.hasSinglePath("org/foo/1.1");
@@ -87,6 +92,7 @@ void testRepo2() {
 
         // then:
         result.hasSinglePath("org/foo/1.1");
+        result.hasNoOverride();
     }
 
     @Test
@@ -166,11 +172,11 @@ void canUseLatestConfigDir() {
     }
 
     private void lookup(Consumer<? super Query> builder) {
-        result = new Result(repository.findConfigurationDirectoriesFor(builder), repoPath);
+        result = new Result(repository.findConfigurationsFor(builder), repoPath);
     }
 
     private void lookup(String gav) {
-        result = new Result(repository.findConfigurationDirectoriesFor(gav), repoPath);
+        result = new Result(repository.findConfigurationsFor(gav), repoPath);
     }
 
     private void withRepo(String id) {
@@ -184,20 +190,32 @@ private void withRepo(String id) {
 
     private static final class Result {
         private final Path repoPath;
-        private final Set<Path> configDirs;
+        private final Set<DirectoryConfiguration> configs;
 
-        private Result(Set<Path> configDirs, Path repoPath) {
-            this.configDirs = configDirs;
+        private Result(Set<DirectoryConfiguration> configs, Path repoPath) {
+            this.configs = configs;
             this.repoPath = repoPath;
         }
 
         public void isEmpty() {
-            assertEquals(0, configDirs.size());
+            assertEquals(0, configs.size());
         }
 
         public void hasSinglePath(String path) {
-            assertEquals(1, configDirs.size());
-            assertEquals(repoPath.resolve(path), configDirs.iterator().next());
+            assertEquals(1, configs.size());
+            assertEquals(repoPath.resolve(path), configs.iterator().next().getDirectory());
+        }
+
+        public void hasOverride() {
+            for (DirectoryConfiguration config : configs) {
+                assertTrue(config.isOverride());
+            }
+        }
+
+        public void hasNoOverride() {
+            for (DirectoryConfiguration config : configs) {
+                assertFalse(config.isOverride());
+            }
         }
     }
 }