Add clear command, fix CLI shell completion/history, add launch script

- New DELETE /api/projects endpoint and GraphRepository.clearAll() wipe
  the whole Neo4j database (schema preserved).
- New CLI 'clear' command with confirmation prompt (-y/--yes to skip).
- Fix interactive shell: compile the picocli SystemCompleter before use
  (was throwing IllegalStateException on Tab), and persist the actual
  LineReader history instead of an unattached DefaultHistory instance.
- Add ac-cli/agenticcode.sh to launch the interactive shell from the
  built jar.

Co-Authored-By: Claude Sonnet 4.6 <noreply@anthropic.com>

ac-cli/agenticcode.sh

@@ -0,0 +1,14 @@
+#!/usr/bin/env bash
+# Starts the AgenticCode interactive shell using the jar built in target/.
+set -euo pipefail
+
+SCRIPT_DIR="$(cd "$(dirname "${BASH_SOURCE[0]}")" && pwd)"
+JAR="$SCRIPT_DIR/target/ac-cli-1.0.0-SNAPSHOT.jar"
+
+if [[ ! -f "$JAR" ]]; then
+    echo "Jar not found: $JAR" >&2
+    echo "Build it first with: mvn -pl ac-cli -am package" >&2
+    exit 1
+fi
+
+exec java -jar "$JAR" "$@"

ac-cli/src/main/java/com/agenticcode/cli/AgenticCodeCli.java

@@ -25,7 +25,8 @@ import java.util.concurrent.Callable;
                 CallersCommand.class,
                 CalleesCommand.class,
                 DbAccessesCommand.class,
-                SearchIdentifierCommand.class
+                SearchIdentifierCommand.class,
+                ClearCommand.class
         }
 )
 public final class AgenticCodeCli implements Callable<Integer> {

ac-cli/src/main/java/com/agenticcode/cli/ClearCommand.java

@@ -0,0 +1,28 @@
+package com.agenticcode.cli;
+
+import picocli.CommandLine.Command;
+import picocli.CommandLine.Option;
+
+/**
+ * Deletes all projects and data, leaving an empty Neo4j database.
+ */
+@Command(name = "clear", mixinStandardHelpOptions = true, description = "Delete ALL projects and data (empties the database)")
+final class ClearCommand extends AbstractApiCommand {
+
+    @Option(names = {"-y", "--yes"}, description = "Skip the confirmation prompt")
+    boolean yes;
+
+    @Override
+    public Integer call() throws Exception {
+        if (!yes) {
+            System.out.print("Delete ALL projects and data? This cannot be undone. (y/N) ");
+            System.out.flush();
+            String answer = new java.io.BufferedReader(new java.io.InputStreamReader(System.in)).readLine();
+            if (answer == null || !answer.trim().equalsIgnoreCase("y")) {
+                System.out.println("Aborted.");
+                return 0;
+            }
+        }
+        return printResponse(apiClient().delete("/api/projects"));
+    }
+}

ac-cli/src/main/java/com/agenticcode/cli/InteractiveShell.java

@@ -2,7 +2,7 @@ package com.agenticcode.cli;
 
 import org.jline.reader.*;
 import org.jline.reader.impl.DefaultParser;
-import org.jline.reader.impl.history.DefaultHistory;
+import org.jline.reader.impl.completer.SystemCompleter;
 import org.jline.terminal.Terminal;
 import org.jline.terminal.TerminalBuilder;
 import picocli.CommandLine;
@@ -27,14 +27,16 @@ final class InteractiveShell {
     int run() throws IOException {
         try (Terminal terminal = TerminalBuilder.builder().build()) {
             PicocliCommands picocliCommands = new PicocliCommands(commandLine);
+            SystemCompleter completer = picocliCommands.compileCompleters();
+            completer.compile();
             LineReader reader = LineReaderBuilder.builder()
                     .terminal(terminal)
                     .parser(new DefaultParser())
-                    .completer(picocliCommands.compileCompleters())
+                    .completer(completer)
                     .appName("agenticcode")
                     .variable(LineReader.HISTORY_FILE, HISTORY_FILE)
                     .build();
-            History history = new DefaultHistory(reader);
+            History history = reader.getHistory();
 
             terminal.writer().println("AgenticCode interactive shell. Type 'help' for commands, 'exit' to quit.");
             String serverUrl = CliConfig.resolveServerUrl(System.getProperty(AbstractApiCommand.SERVER_URL_PROPERTY));

ac-code-server/src/main/java/com/agenticcode/codeserver/api/ProjectResource.java

@@ -60,6 +60,11 @@ public class ProjectResource {
                 });
     }
 
+    @DELETE
+    public Uni<Response> clearAll() {
+        return graphRepository.clearAll().replaceWith(Response.noContent().build());
+    }
+
     @DELETE
     @Path("/{project}")
     public Uni<Response> delete(@PathParam("project") String project) {

ac-code-server/src/test/java/com/agenticcode/codeserver/api/ProjectResourceIT.java

@@ -74,6 +74,29 @@ class ProjectResourceIT {
                 .statusCode(204);
     }
 
+    @Test
+    void clearAllRemovesAllProjects() {
+        String project = "clear-project";
+
+        given()
+                .contentType("application/json")
+                .body(new ProjectResource.ProjectRequest(null))
+                .when().post("/api/projects/" + project)
+                .then()
+                .statusCode(201);
+
+        given()
+                .when().delete("/api/projects")
+                .then()
+                .statusCode(204);
+
+        given()
+                .when().get("/api/projects")
+                .then()
+                .statusCode(200)
+                .body("name", org.hamcrest.Matchers.not(org.hamcrest.Matchers.hasItem(project)));
+    }
+
     @Test
     void updateAndDeleteUnknownProjectReturnNotFound() {
         String project = "missing-project";

ac-neo4j-store/src/main/java/com/agenticcode/neo4jstore/graph/CypherQueries.java

@@ -65,6 +65,10 @@ public final class CypherQueries {
             RETURN p.name AS name, p.description AS description
             ORDER BY p.name
             """;
+    public static final String CLEAR_ALL = """
+            MATCH (n)
+            DETACH DELETE n
+            """;
 
     /**
      * Schema statements (indexes/constraints) applied once at startup. Each is run as

ac-neo4j-store/src/main/java/com/agenticcode/neo4jstore/graph/GraphRepository.java

@@ -192,6 +192,19 @@ public class GraphRepository {
         });
     }
 
+    /**
+     * Deletes all nodes and relationships, leaving an empty database. Schema
+     * (indexes/constraints) is unaffected.
+     */
+    public Uni<Void> clearAll() {
+        return Uni.createFrom().item(() -> {
+            try (Session session = driver.session()) {
+                session.executeWriteWithoutResult(tx -> tx.run(CypherQueries.CLEAR_ALL).consume());
+            }
+            return null;
+        }).replaceWithVoid();
+    }
+
     public Uni<List<ProjectInfo>> listProjects() {
         return Uni.createFrom().item(() -> {
             try (Session session = driver.session()) {