Init Android project

(it broke TIFF image encoding on OCR)

README.md

@@ -14,10 +14,11 @@ Features
 --------
 
 - Responsive user interface
-- Optical characted recognition
+- Optical character recognition
 - Support image and PDF files
 - Flexible search engine
 - Full text search in image and PDF
+- SHA-256 encryption
 - Tag system
 - Multi-users
 - Document sharing
@@ -26,13 +27,13 @@ Features
 License
 -------
 
-Reader is released under the terms of the GPL license. See `COPYING` for more
+Docs is released under the terms of the GPL license. See `COPYING` for more
 information or see <http://opensource.org/licenses/GPL-2.0>.
 
 How to build Docs from the sources
-------------------------------------
+----------------------------------
 
-Prerequisites: JDK 7, Maven 3
+Prerequisites: JDK 7, Maven 3, Tesseract 3.02
 
 Docs is organized in several Maven modules:
 
@@ -48,6 +49,7 @@ or download the sources from GitHub.
 
 From the `docs-parent` directory:
 
+    mvn -Pinit validate -N
     mvn clean -DskipTests install
 
 #### Run a stand-alone version

docs-android/.gitignore

@@ -0,0 +1,4 @@
+.gradle
+/local.properties
+/.idea
+.DS_Store

docs-android/app/.gitignore

@@ -0,0 +1 @@
+/build

docs-android/app/app.iml

@@ -0,0 +1,76 @@
+<?xml version="1.0" encoding="UTF-8"?>
+<module external.linked.project.path="$MODULE_DIR$" external.root.project.path="$MODULE_DIR$/.." external.system.id="GRADLE" type="JAVA_MODULE" version="4">
+  <component name="FacetManager">
+    <facet type="android" name="Android">
+      <configuration>
+        <option name="SELECTED_BUILD_VARIANT" value="debug" />
+        <option name="ASSEMBLE_TASK_NAME" value="assembleDebug" />
+        <option name="COMPILE_JAVA_TASK_NAME" value="compileDebugJava" />
+        <option name="ASSEMBLE_TEST_TASK_NAME" value="assembleDebugTest" />
+        <option name="SOURCE_GEN_TASK_NAME" value="generateDebugSources" />
+        <option name="ALLOW_USER_CONFIGURATION" value="false" />
+        <option name="MANIFEST_FILE_RELATIVE_PATH" value="/src/main/AndroidManifest.xml" />
+        <option name="RES_FOLDER_RELATIVE_PATH" value="/src/main/res" />
+        <option name="RES_FOLDERS_RELATIVE_PATH" value="file://$MODULE_DIR$/src/main/res" />
+        <option name="ASSETS_FOLDER_RELATIVE_PATH" value="/src/main/assets" />
+      </configuration>
+    </facet>
+    <facet type="android-gradle" name="Android-Gradle">
+      <configuration>
+        <option name="GRADLE_PROJECT_PATH" value=":app" />
+      </configuration>
+    </facet>
+  </component>
+  <component name="NewModuleRootManager" inherit-compiler-output="false">
+    <output url="file://$MODULE_DIR$/build/classes/debug" />
+    <exclude-output />
+    <content url="file://$MODULE_DIR$">
+      <sourceFolder url="file://$MODULE_DIR$/build/source/r/debug" isTestSource="false" generated="true" />
+      <sourceFolder url="file://$MODULE_DIR$/build/source/aidl/debug" isTestSource="false" generated="true" />
+      <sourceFolder url="file://$MODULE_DIR$/build/source/buildConfig/debug" isTestSource="false" generated="true" />
+      <sourceFolder url="file://$MODULE_DIR$/build/source/rs/debug" isTestSource="false" generated="true" />
+      <sourceFolder url="file://$MODULE_DIR$/build/res/rs/debug" type="java-resource" />
+      <sourceFolder url="file://$MODULE_DIR$/build/source/r/test/debug" isTestSource="true" />
+      <sourceFolder url="file://$MODULE_DIR$/build/source/aidl/test/debug" isTestSource="true" />
+      <sourceFolder url="file://$MODULE_DIR$/build/source/buildConfig/test/debug" isTestSource="true" />
+      <sourceFolder url="file://$MODULE_DIR$/build/source/rs/test/debug" isTestSource="true" />
+      <sourceFolder url="file://$MODULE_DIR$/build/res/rs/test/debug" type="java-test-resource" />
+      <sourceFolder url="file://$MODULE_DIR$/src/debug/aidl" isTestSource="false" />
+      <sourceFolder url="file://$MODULE_DIR$/src/debug/assets" isTestSource="false" />
+      <sourceFolder url="file://$MODULE_DIR$/src/debug/java" isTestSource="false" />
+      <sourceFolder url="file://$MODULE_DIR$/src/debug/jni" isTestSource="false" />
+      <sourceFolder url="file://$MODULE_DIR$/src/debug/rs" isTestSource="false" />
+      <sourceFolder url="file://$MODULE_DIR$/src/debug/res" type="java-resource" />
+      <sourceFolder url="file://$MODULE_DIR$/src/debug/resources" type="java-resource" />
+      <sourceFolder url="file://$MODULE_DIR$/src/main/aidl" isTestSource="false" />
+      <sourceFolder url="file://$MODULE_DIR$/src/main/assets" isTestSource="false" />
+      <sourceFolder url="file://$MODULE_DIR$/src/main/java" isTestSource="false" />
+      <sourceFolder url="file://$MODULE_DIR$/src/main/jni" isTestSource="false" />
+      <sourceFolder url="file://$MODULE_DIR$/src/main/rs" isTestSource="false" />
+      <sourceFolder url="file://$MODULE_DIR$/src/main/res" type="java-resource" />
+      <sourceFolder url="file://$MODULE_DIR$/src/main/resources" type="java-resource" />
+      <sourceFolder url="file://$MODULE_DIR$/src/instrumentTest/aidl" isTestSource="true" />
+      <sourceFolder url="file://$MODULE_DIR$/src/instrumentTest/assets" isTestSource="true" />
+      <sourceFolder url="file://$MODULE_DIR$/src/instrumentTest/java" isTestSource="true" />
+      <sourceFolder url="file://$MODULE_DIR$/src/instrumentTest/jni" isTestSource="true" />
+      <sourceFolder url="file://$MODULE_DIR$/src/instrumentTest/rs" isTestSource="true" />
+      <sourceFolder url="file://$MODULE_DIR$/src/instrumentTest/res" type="java-test-resource" />
+      <sourceFolder url="file://$MODULE_DIR$/src/instrumentTest/resources" type="java-test-resource" />
+      <excludeFolder url="file://$MODULE_DIR$/build/apk" />
+      <excludeFolder url="file://$MODULE_DIR$/build/assets" />
+      <excludeFolder url="file://$MODULE_DIR$/build/bundles" />
+      <excludeFolder url="file://$MODULE_DIR$/build/classes" />
+      <excludeFolder url="file://$MODULE_DIR$/build/dependency-cache" />
+      <excludeFolder url="file://$MODULE_DIR$/build/incremental" />
+      <excludeFolder url="file://$MODULE_DIR$/build/libs" />
+      <excludeFolder url="file://$MODULE_DIR$/build/manifests" />
+      <excludeFolder url="file://$MODULE_DIR$/build/res" />
+      <excludeFolder url="file://$MODULE_DIR$/build/symbols" />
+      <excludeFolder url="file://$MODULE_DIR$/build/tmp" />
+    </content>
+    <orderEntry type="jdk" jdkName="Android API 19 Platform" jdkType="Android SDK" />
+    <orderEntry type="sourceFolder" forTests="false" />
+    <orderEntry type="library" exported="" name="support-v4-18.0.0" level="project" />
+  </component>
+</module>
+

docs-android/app/build.gradle

@@ -0,0 +1,40 @@
+buildscript {
+    repositories {
+        mavenCentral()
+    }
+    dependencies {
+        classpath 'com.android.tools.build:gradle:0.7.+'
+    }
+}
+apply plugin: 'android'
+
+repositories {
+    mavenCentral()
+}
+
+android {
+    compileSdkVersion 19
+    buildToolsVersion "19.0.0"
+
+    defaultConfig {
+        minSdkVersion 14
+        targetSdkVersion 19
+        versionCode 1
+        versionName "1.0"
+    }
+
+    compileOptions {
+        sourceCompatibility JavaVersion.VERSION_1_7
+        targetCompatibility JavaVersion.VERSION_1_7
+    }
+    buildTypes {
+        release {
+            runProguard false
+            proguardFiles getDefaultProguardFile('proguard-android.txt'), 'proguard-rules.txt'
+        }
+    }
+}
+
+dependencies {
+    compile 'com.android.support:support-v4:18.0.0'
+}

docs-android/app/proguard-rules.txt

@@ -0,0 +1,17 @@
+# Add project specific ProGuard rules here.
+# By default, the flags in this file are appended to flags specified
+# in /opt/android-studio/sdk/tools/proguard/proguard-android.txt
+# You can edit the include path and order by changing the ProGuard
+# include property in project.properties.
+#
+# For more details, see
+#   http://developer.android.com/guide/developing/tools/proguard.html
+
+# Add any project specific keep options here:
+
+# If your project uses WebView with JS, uncomment the following
+# and specify the fully qualified class name to the JavaScript interface
+# class:
+#-keepclassmembers class fqcn.of.javascript.interface.for.webview {
+#   public *;
+#}

docs-android/app/src/main/AndroidManifest.xml

@@ -0,0 +1,29 @@
+<?xml version="1.0" encoding="utf-8"?>
+<manifest xmlns:android="http://schemas.android.com/apk/res/android"
+    package="com.sismics.docs" >
+
+    <application
+        android:allowBackup="true"
+        android:icon="@drawable/ic_launcher"
+        android:label="@string/app_name"
+        android:theme="@style/AppTheme" >
+        <activity
+            android:name="com.sismics.docs.DocListActivity"
+            android:label="@string/app_name" >
+            <intent-filter>
+                <action android:name="android.intent.action.MAIN" />
+
+                <category android:name="android.intent.category.LAUNCHER" />
+            </intent-filter>
+        </activity>
+        <activity
+            android:name="com.sismics.docs.DocDetailActivity"
+            android:label="@string/title_doc_detail"
+            android:parentActivityName="com.sismics.docs.DocListActivity" >
+            <meta-data
+                android:name="android.support.PARENT_ACTIVITY"
+                android:value="com.sismics.docs.DocListActivity" />
+        </activity>
+    </application>
+
+</manifest>

docs-android/app/src/main/java/com/sismics/docs/DocDetailActivity.java

@@ -0,0 +1,67 @@
+package com.sismics.docs;
+
+import android.content.Intent;
+import android.os.Bundle;
+import android.support.v4.app.FragmentActivity;
+import android.support.v4.app.NavUtils;
+import android.view.MenuItem;
+
+/**
+ * An activity representing a single Doc detail screen. This
+ * activity is only used on handset devices. On tablet-size devices,
+ * item details are presented side-by-side with a list of items
+ * in a {@link DocListActivity}.
+ * <p>
+ * This activity is mostly just a 'shell' activity containing nothing
+ * more than a {@link DocDetailFragment}.
+ */
+public class DocDetailActivity extends FragmentActivity {
+
+    @Override
+    protected void onCreate(Bundle savedInstanceState) {
+        super.onCreate(savedInstanceState);
+        setContentView(R.layout.activity_doc_detail);
+
+        // Show the Up button in the action bar.
+        getActionBar().setDisplayHomeAsUpEnabled(true);
+
+        // savedInstanceState is non-null when there is fragment state
+        // saved from previous configurations of this activity
+        // (e.g. when rotating the screen from portrait to landscape).
+        // In this case, the fragment will automatically be re-added
+        // to its container so we don't need to manually add it.
+        // For more information, see the Fragments API guide at:
+        //
+        // http://developer.android.com/guide/components/fragments.html
+        //
+        if (savedInstanceState == null) {
+            // Create the detail fragment and add it to the activity
+            // using a fragment transaction.
+            Bundle arguments = new Bundle();
+            arguments.putString(DocDetailFragment.ARG_ITEM_ID,
+                    getIntent().getStringExtra(DocDetailFragment.ARG_ITEM_ID));
+            DocDetailFragment fragment = new DocDetailFragment();
+            fragment.setArguments(arguments);
+            getSupportFragmentManager().beginTransaction()
+                    .add(R.id.doc_detail_container, fragment)
+                    .commit();
+        }
+    }
+
+    @Override
+    public boolean onOptionsItemSelected(MenuItem item) {
+        int id = item.getItemId();
+        if (id == android.R.id.home) {
+            // This ID represents the Home or Up button. In the case of this
+            // activity, the Up button is shown. Use NavUtils to allow users
+            // to navigate up one level in the application structure. For
+            // more details, see the Navigation pattern on Android Design:
+            //
+            // http://developer.android.com/design/patterns/navigation.html#up-vs-back
+            //
+            NavUtils.navigateUpTo(this, new Intent(this, DocListActivity.class));
+            return true;
+        }
+        return super.onOptionsItemSelected(item);
+    }
+}

docs-android/app/src/main/java/com/sismics/docs/DocDetailFragment.java

@@ -0,0 +1,61 @@
+package com.sismics.docs;
+
+import android.os.Bundle;
+import android.support.v4.app.Fragment;
+import android.view.LayoutInflater;
+import android.view.View;
+import android.view.ViewGroup;
+import android.widget.TextView;
+
+import com.sismics.docs.dummy.DummyContent;
+
+/**
+ * A fragment representing a single Doc detail screen.
+ * This fragment is either contained in a {@link DocListActivity}
+ * in two-pane mode (on tablets) or a {@link DocDetailActivity}
+ * on handsets.
+ */
+public class DocDetailFragment extends Fragment {
+    /**
+     * The fragment argument representing the item ID that this fragment
+     * represents.
+     */
+    public static final String ARG_ITEM_ID = "item_id";
+
+    /**
+     * The dummy content this fragment is presenting.
+     */
+    private DummyContent.DummyItem mItem;
+
+    /**
+     * Mandatory empty constructor for the fragment manager to instantiate the
+     * fragment (e.g. upon screen orientation changes).
+     */
+    public DocDetailFragment() {
+    }
+
+    @Override
+    public void onCreate(Bundle savedInstanceState) {
+        super.onCreate(savedInstanceState);
+
+        if (getArguments().containsKey(ARG_ITEM_ID)) {
+            // Load the dummy content specified by the fragment
+            // arguments. In a real-world scenario, use a Loader
+            // to load content from a content provider.
+            mItem = DummyContent.ITEM_MAP.get(getArguments().getString(ARG_ITEM_ID));
+        }
+    }
+
+    @Override
+    public View onCreateView(LayoutInflater inflater, ViewGroup container,
+            Bundle savedInstanceState) {
+        View rootView = inflater.inflate(R.layout.fragment_doc_detail, container, false);
+
+        // Show the dummy content as text in a TextView.
+        if (mItem != null) {
+            ((TextView) rootView.findViewById(R.id.doc_detail)).setText(mItem.content);
+        }
+
+        return rootView;
+    }
+}

docs-android/app/src/main/java/com/sismics/docs/DocListActivity.java

@@ -0,0 +1,81 @@
+package com.sismics.docs;
+
+import android.content.Intent;
+import android.os.Bundle;
+import android.support.v4.app.FragmentActivity;
+
+
+/**
+ * An activity representing a list of Docs. This activity
+ * has different presentations for handset and tablet-size devices. On
+ * handsets, the activity presents a list of items, which when touched,
+ * lead to a {@link DocDetailActivity} representing
+ * item details. On tablets, the activity presents the list of items and
+ * item details side-by-side using two vertical panes.
+ * <p>
+ * The activity makes heavy use of fragments. The list of items is a
+ * {@link DocListFragment} and the item details
+ * (if present) is a {@link DocDetailFragment}.
+ * <p>
+ * This activity also implements the required
+ * {@link DocListFragment.Callbacks} interface
+ * to listen for item selections.
+ */
+public class DocListActivity extends FragmentActivity
+        implements DocListFragment.Callbacks {
+
+    /**
+     * Whether or not the activity is in two-pane mode, i.e. running on a tablet
+     * device.
+     */
+    private boolean mTwoPane;
+
+    @Override
+    protected void onCreate(Bundle savedInstanceState) {
+        super.onCreate(savedInstanceState);
+        setContentView(R.layout.activity_doc_list);
+
+        if (findViewById(R.id.doc_detail_container) != null) {
+            // The detail container view will be present only in the
+            // large-screen layouts (res/values-large and
+            // res/values-sw600dp). If this view is present, then the
+            // activity should be in two-pane mode.
+            mTwoPane = true;
+
+            // In two-pane mode, list items should be given the
+            // 'activated' state when touched.
+            ((DocListFragment) getSupportFragmentManager()
+                    .findFragmentById(R.id.doc_list))
+                    .setActivateOnItemClick(true);
+        }
+
+        // TODO: If exposing deep links into your app, handle intents here.
+    }
+
+    /**
+     * Callback method from {@link DocListFragment.Callbacks}
+     * indicating that the item with the given ID was selected.
+     */
+    @Override
+    public void onItemSelected(String id) {
+        if (mTwoPane) {
+            // In two-pane mode, show the detail view in this activity by
+            // adding or replacing the detail fragment using a
+            // fragment transaction.
+            Bundle arguments = new Bundle();
+            arguments.putString(DocDetailFragment.ARG_ITEM_ID, id);
+            DocDetailFragment fragment = new DocDetailFragment();
+            fragment.setArguments(arguments);
+            getSupportFragmentManager().beginTransaction()
+                    .replace(R.id.doc_detail_container, fragment)
+                    .commit();
+
+        } else {
+            // In single-pane mode, simply start the detail activity
+            // for the selected item ID.
+            Intent detailIntent = new Intent(this, DocDetailActivity.class);
+            detailIntent.putExtra(DocDetailFragment.ARG_ITEM_ID, id);
+            startActivity(detailIntent);
+        }
+    }
+}

docs-android/app/src/main/java/com/sismics/docs/DocListFragment.java

@@ -0,0 +1,151 @@
+package com.sismics.docs;
+
+import android.app.Activity;
+import android.os.Bundle;
+import android.support.v4.app.ListFragment;
+import android.view.View;
+import android.widget.ArrayAdapter;
+import android.widget.ListView;
+
+import com.sismics.docs.dummy.DummyContent;
+
+/**
+ * A list fragment representing a list of Docs. This fragment
+ * also supports tablet devices by allowing list items to be given an
+ * 'activated' state upon selection. This helps indicate which item is
+ * currently being viewed in a {@link DocDetailFragment}.
+ * <p>
+ * Activities containing this fragment MUST implement the {@link Callbacks}
+ * interface.
+ */
+public class DocListFragment extends ListFragment {
+
+    /**
+     * The serialization (saved instance state) Bundle key representing the
+     * activated item position. Only used on tablets.
+     */
+    private static final String STATE_ACTIVATED_POSITION = "activated_position";
+
+    /**
+     * The fragment's current callback object, which is notified of list item
+     * clicks.
+     */
+    private Callbacks mCallbacks = sDummyCallbacks;
+
+    /**
+     * The current activated item position. Only used on tablets.
+     */
+    private int mActivatedPosition = ListView.INVALID_POSITION;
+
+    /**
+     * A callback interface that all activities containing this fragment must
+     * implement. This mechanism allows activities to be notified of item
+     * selections.
+     */
+    public interface Callbacks {
+        /**
+         * Callback for when an item has been selected.
+         */
+        public void onItemSelected(String id);
+    }
+
+    /**
+     * A dummy implementation of the {@link Callbacks} interface that does
+     * nothing. Used only when this fragment is not attached to an activity.
+     */
+    private static Callbacks sDummyCallbacks = new Callbacks() {
+        @Override
+        public void onItemSelected(String id) {
+        }
+    };
+
+    /**
+     * Mandatory empty constructor for the fragment manager to instantiate the
+     * fragment (e.g. upon screen orientation changes).
+     */
+    public DocListFragment() {
+    }
+
+    @Override
+    public void onCreate(Bundle savedInstanceState) {
+        super.onCreate(savedInstanceState);
+
+        // TODO: replace with a real list adapter.
+        setListAdapter(new ArrayAdapter<DummyContent.DummyItem>(
+                getActivity(),
+                android.R.layout.simple_list_item_activated_1,
+                android.R.id.text1,
+                DummyContent.ITEMS));
+    }
+
+    @Override
+    public void onViewCreated(View view, Bundle savedInstanceState) {
+        super.onViewCreated(view, savedInstanceState);
+
+        // Restore the previously serialized activated item position.
+        if (savedInstanceState != null
+                && savedInstanceState.containsKey(STATE_ACTIVATED_POSITION)) {
+            setActivatedPosition(savedInstanceState.getInt(STATE_ACTIVATED_POSITION));
+        }
+    }
+
+    @Override
+    public void onAttach(Activity activity) {
+        super.onAttach(activity);
+
+        // Activities containing this fragment must implement its callbacks.
+        if (!(activity instanceof Callbacks)) {
+            throw new IllegalStateException("Activity must implement fragment's callbacks.");
+        }
+
+        mCallbacks = (Callbacks) activity;
+    }
+
+    @Override
+    public void onDetach() {
+        super.onDetach();
+
+        // Reset the active callbacks interface to the dummy implementation.
+        mCallbacks = sDummyCallbacks;
+    }
+
+    @Override
+    public void onListItemClick(ListView listView, View view, int position, long id) {
+        super.onListItemClick(listView, view, position, id);
+
+        // Notify the active callbacks interface (the activity, if the
+        // fragment is attached to one) that an item has been selected.
+        mCallbacks.onItemSelected(DummyContent.ITEMS.get(position).id);
+    }
+
+    @Override
+    public void onSaveInstanceState(Bundle outState) {
+        super.onSaveInstanceState(outState);
+        if (mActivatedPosition != ListView.INVALID_POSITION) {
+            // Serialize and persist the activated item position.
+            outState.putInt(STATE_ACTIVATED_POSITION, mActivatedPosition);
+        }
+    }
+
+    /**
+     * Turns on activate-on-click mode. When this mode is on, list items will be
+     * given the 'activated' state when touched.
+     */
+    public void setActivateOnItemClick(boolean activateOnItemClick) {
+        // When setting CHOICE_MODE_SINGLE, ListView will automatically
+        // give items the 'activated' state when touched.
+        getListView().setChoiceMode(activateOnItemClick
+                ? ListView.CHOICE_MODE_SINGLE
+                : ListView.CHOICE_MODE_NONE);
+    }
+
+    private void setActivatedPosition(int position) {
+        if (position == ListView.INVALID_POSITION) {
+            getListView().setItemChecked(mActivatedPosition, false);
+        } else {
+            getListView().setItemChecked(position, true);
+        }
+
+        mActivatedPosition = position;
+    }
+}

docs-android/app/src/main/java/com/sismics/docs/dummy/DummyContent.java

@@ -0,0 +1,55 @@
+package com.sismics.docs.dummy;
+
+import java.util.ArrayList;
+import java.util.HashMap;
+import java.util.List;
+import java.util.Map;
+
+/**
+ * Helper class for providing sample content for user interfaces created by
+ * Android template wizards.
+ * <p>
+ * TODO: Replace all uses of this class before publishing your app.
+ */
+public class DummyContent {
+
+    /**
+     * An array of sample (dummy) items.
+     */
+    public static List<DummyItem> ITEMS = new ArrayList<DummyItem>();
+
+    /**
+     * A map of sample (dummy) items, by ID.
+     */
+    public static Map<String, DummyItem> ITEM_MAP = new HashMap<String, DummyItem>();
+
+    static {
+        // Add 3 sample items.
+        addItem(new DummyItem("1", "Item 1"));
+        addItem(new DummyItem("2", "Item 2"));
+        addItem(new DummyItem("3", "Item 3"));
+    }
+
+    private static void addItem(DummyItem item) {
+        ITEMS.add(item);
+        ITEM_MAP.put(item.id, item);
+    }
+
+    /**
+     * A dummy item representing a piece of content.
+     */
+    public static class DummyItem {
+        public String id;
+        public String content;
+
+        public DummyItem(String id, String content) {
+            this.id = id;
+            this.content = content;
+        }
+
+        @Override
+        public String toString() {
+            return content;
+        }
+    }
+}

docs-android/app/src/main/res/layout/activity_doc_detail.xml

@@ -0,0 +1,7 @@
+<FrameLayout xmlns:android="http://schemas.android.com/apk/res/android"
+    xmlns:tools="http://schemas.android.com/tools"
+    android:id="@+id/doc_detail_container"
+    android:layout_width="match_parent"
+    android:layout_height="match_parent"
+    tools:context="com.sismics.docs.DocDetailActivity"
+    tools:ignore="MergeRootFrame" />

docs-android/app/src/main/res/layout/activity_doc_list.xml

@@ -0,0 +1,10 @@
+<fragment xmlns:android="http://schemas.android.com/apk/res/android"
+    xmlns:tools="http://schemas.android.com/tools"
+    android:id="@+id/doc_list"
+    android:name="com.sismics.docs.DocListFragment"
+    android:layout_width="match_parent"
+    android:layout_height="match_parent"
+    android:layout_marginLeft="16dp"
+    android:layout_marginRight="16dp"
+    tools:context="com.sismics.docs.DocListActivity"
+    tools:layout="@android:layout/list_content" />

docs-android/app/src/main/res/layout/activity_doc_twopane.xml

@@ -0,0 +1,38 @@
+<LinearLayout xmlns:android="http://schemas.android.com/apk/res/android"
+    xmlns:tools="http://schemas.android.com/tools"
+    android:layout_width="match_parent"
+    android:layout_height="match_parent"
+    android:layout_marginLeft="16dp"
+    android:layout_marginRight="16dp"
+    android:baselineAligned="false"
+    android:divider="?android:attr/dividerHorizontal"
+    android:orientation="horizontal"
+    android:showDividers="middle"
+    tools:context="com.sismics.docs.DocListActivity">
+
+    <!--
+    This layout is a two-pane layout for the Docs
+    master/detail flow. See res/values-large/refs.xml and
+    res/values-sw600dp/refs.xml for an example of layout aliases
+    that replace the single-pane version of the layout with
+    this two-pane version.
+
+    For more on layout aliases, see:
+    http://developer.android.com/training/multiscreen/screensizes.html#TaskUseAliasFilters
+    -->
+
+    <fragment
+        android:id="@+id/doc_list"
+        android:name="com.sismics.docs.DocListFragment"
+        android:layout_width="0dp"
+        android:layout_height="match_parent"
+        android:layout_weight="1"
+        tools:layout="@android:layout/list_content" />
+
+    <FrameLayout
+        android:id="@+id/doc_detail_container"
+        android:layout_width="0dp"
+        android:layout_height="match_parent"
+        android:layout_weight="3" />
+
+</LinearLayout>

docs-android/app/src/main/res/layout/fragment_doc_detail.xml

@@ -0,0 +1,9 @@
+<TextView xmlns:android="http://schemas.android.com/apk/res/android"
+    xmlns:tools="http://schemas.android.com/tools"
+    android:id="@+id/doc_detail"
+    style="?android:attr/textAppearanceLarge"
+    android:layout_width="match_parent"
+    android:layout_height="match_parent"
+    android:padding="16dp"
+    android:textIsSelectable="true"
+    tools:context="com.sismics.docs.DocDetailFragment" />

docs-android/app/src/main/res/values-large/refs.xml

@@ -0,0 +1,10 @@
+<resources>
+    <!--
+    Layout alias to replace the single-pane version of the layout with a
+    two-pane version on Large screens.
+
+    For more on layout aliases, see:
+    http://developer.android.com/training/multiscreen/screensizes.html#TaskUseAliasFilters
+    -->
+    <item type="layout" name="activity_doc_list">@layout/activity_doc_twopane</item>
+</resources>

docs-android/app/src/main/res/values-sw600dp/refs.xml

@@ -0,0 +1,10 @@
+<resources>
+    <!--
+    Layout alias to replace the single-pane version of the layout with a
+    two-pane version on Large screens.
+
+    For more on layout aliases, see:
+    http://developer.android.com/training/multiscreen/screensizes.html#TaskUseAliasFilters
+    -->
+    <item type="layout" name="activity_doc_list">@layout/activity_doc_twopane</item>
+</resources>

docs-android/app/src/main/res/values/strings.xml

@@ -0,0 +1,7 @@
+<?xml version="1.0" encoding="utf-8"?>
+<resources>
+
+    <string name="app_name">Sismics Docs</string>
+    <string name="title_doc_detail">Doc Detail</string>
+
+</resources>

docs-android/app/src/main/res/values/styles.xml

@@ -0,0 +1,8 @@
+<resources>
+
+    <!-- Base application theme. -->
+    <style name="AppTheme" parent="android:Theme.Holo.Light">
+        <!-- Customize your theme here. -->
+    </style>
+
+</resources>

docs-android/build.gradle

@@ -0,0 +1 @@
+// Top-level build file where you can add configuration options common to all sub-projects/modules.

docs-android/gradle.properties

@@ -0,0 +1,18 @@
+# Project-wide Gradle settings.
+
+# IDE (e.g. Android Studio) users:
+# Settings specified in this file will override any Gradle settings
+# configured through the IDE.
+
+# For more details on how to configure your build environment visit
+# http://www.gradle.org/docs/current/userguide/build_environment.html
+
+# Specifies the JVM arguments used for the daemon process.
+# The setting is particularly useful for tweaking memory settings.
+# Default value: -Xmx10248m -XX:MaxPermSize=256m
+# org.gradle.jvmargs=-Xmx2048m -XX:MaxPermSize=512m -XX:+HeapDumpOnOutOfMemoryError -Dfile.encoding=UTF-8
+
+# When configured, Gradle will run in incubating parallel mode.
+# This option should only be used with decoupled projects. More details, visit
+# http://www.gradle.org/docs/current/userguide/multi_project_builds.html#sec:decoupled_projects
+# org.gradle.parallel=true

docs-android/gradle/wrapper/gradle-wrapper.properties

@@ -0,0 +1,6 @@
+#Wed Apr 10 15:27:10 PDT 2013
+distributionBase=GRADLE_USER_HOME
+distributionPath=wrapper/dists
+zipStoreBase=GRADLE_USER_HOME
+zipStorePath=wrapper/dists
+distributionUrl=http\://services.gradle.org/distributions/gradle-1.9-all.zip

docs-android/gradlew

@@ -0,0 +1,164 @@
+#!/usr/bin/env bash
+
+##############################################################################
+##
+##  Gradle start up script for UN*X
+##
+##############################################################################
+
+# Add default JVM options here. You can also use JAVA_OPTS and GRADLE_OPTS to pass JVM options to this script.
+DEFAULT_JVM_OPTS=""
+
+APP_NAME="Gradle"
+APP_BASE_NAME=`basename "$0"`
+
+# Use the maximum available, or set MAX_FD != -1 to use that value.
+MAX_FD="maximum"
+
+warn ( ) {
+    echo "$*"
+}
+
+die ( ) {
+    echo
+    echo "$*"
+    echo
+    exit 1
+}
+
+# OS specific support (must be 'true' or 'false').
+cygwin=false
+msys=false
+darwin=false
+case "`uname`" in
+  CYGWIN* )
+    cygwin=true
+    ;;
+  Darwin* )
+    darwin=true
+    ;;
+  MINGW* )
+    msys=true
+    ;;
+esac
+
+# For Cygwin, ensure paths are in UNIX format before anything is touched.
+if $cygwin ; then
+    [ -n "$JAVA_HOME" ] && JAVA_HOME=`cygpath --unix "$JAVA_HOME"`
+fi
+
+# Attempt to set APP_HOME
+# Resolve links: $0 may be a link
+PRG="$0"
+# Need this for relative symlinks.
+while [ -h "$PRG" ] ; do
+    ls=`ls -ld "$PRG"`
+    link=`expr "$ls" : '.*-> \(.*\)$'`
+    if expr "$link" : '/.*' > /dev/null; then
+        PRG="$link"
+    else
+        PRG=`dirname "$PRG"`"/$link"
+    fi
+done
+SAVED="`pwd`"
+cd "`dirname \"$PRG\"`/" >&-
+APP_HOME="`pwd -P`"
+cd "$SAVED" >&-
+
+CLASSPATH=$APP_HOME/gradle/wrapper/gradle-wrapper.jar
+
+# Determine the Java command to use to start the JVM.
+if [ -n "$JAVA_HOME" ] ; then
+    if [ -x "$JAVA_HOME/jre/sh/java" ] ; then
+        # IBM's JDK on AIX uses strange locations for the executables
+        JAVACMD="$JAVA_HOME/jre/sh/java"
+    else
+        JAVACMD="$JAVA_HOME/bin/java"
+    fi
+    if [ ! -x "$JAVACMD" ] ; then
+        die "ERROR: JAVA_HOME is set to an invalid directory: $JAVA_HOME
+
+Please set the JAVA_HOME variable in your environment to match the
+location of your Java installation."
+    fi
+else
+    JAVACMD="java"
+    which java >/dev/null 2>&1 || die "ERROR: JAVA_HOME is not set and no 'java' command could be found in your PATH.
+
+Please set the JAVA_HOME variable in your environment to match the
+location of your Java installation."
+fi
+
+# Increase the maximum file descriptors if we can.
+if [ "$cygwin" = "false" -a "$darwin" = "false" ] ; then
+    MAX_FD_LIMIT=`ulimit -H -n`
+    if [ $? -eq 0 ] ; then
+        if [ "$MAX_FD" = "maximum" -o "$MAX_FD" = "max" ] ; then
+            MAX_FD="$MAX_FD_LIMIT"
+        fi
+        ulimit -n $MAX_FD
+        if [ $? -ne 0 ] ; then
+            warn "Could not set maximum file descriptor limit: $MAX_FD"
+        fi
+    else
+        warn "Could not query maximum file descriptor limit: $MAX_FD_LIMIT"
+    fi
+fi
+
+# For Darwin, add options to specify how the application appears in the dock
+if $darwin; then
+    GRADLE_OPTS="$GRADLE_OPTS \"-Xdock:name=$APP_NAME\" \"-Xdock:icon=$APP_HOME/media/gradle.icns\""
+fi
+
+# For Cygwin, switch paths to Windows format before running java
+if $cygwin ; then
+    APP_HOME=`cygpath --path --mixed "$APP_HOME"`
+    CLASSPATH=`cygpath --path --mixed "$CLASSPATH"`
+
+    # We build the pattern for arguments to be converted via cygpath
+    ROOTDIRSRAW=`find -L / -maxdepth 1 -mindepth 1 -type d 2>/dev/null`
+    SEP=""
+    for dir in $ROOTDIRSRAW ; do
+        ROOTDIRS="$ROOTDIRS$SEP$dir"
+        SEP="|"
+    done
+    OURCYGPATTERN="(^($ROOTDIRS))"
+    # Add a user-defined pattern to the cygpath arguments
+    if [ "$GRADLE_CYGPATTERN" != "" ] ; then
+        OURCYGPATTERN="$OURCYGPATTERN|($GRADLE_CYGPATTERN)"
+    fi
+    # Now convert the arguments - kludge to limit ourselves to /bin/sh
+    i=0
+    for arg in "$@" ; do
+        CHECK=`echo "$arg"|egrep -c "$OURCYGPATTERN" -`
+        CHECK2=`echo "$arg"|egrep -c "^-"`                                 ### Determine if an option
+
+        if [ $CHECK -ne 0 ] && [ $CHECK2 -eq 0 ] ; then                    ### Added a condition
+            eval `echo args$i`=`cygpath --path --ignore --mixed "$arg"`
+        else
+            eval `echo args$i`="\"$arg\""
+        fi
+        i=$((i+1))
+    done
+    case $i in
+        (0) set -- ;;
+        (1) set -- "$args0" ;;
+        (2) set -- "$args0" "$args1" ;;
+        (3) set -- "$args0" "$args1" "$args2" ;;
+        (4) set -- "$args0" "$args1" "$args2" "$args3" ;;
+        (5) set -- "$args0" "$args1" "$args2" "$args3" "$args4" ;;
+        (6) set -- "$args0" "$args1" "$args2" "$args3" "$args4" "$args5" ;;
+        (7) set -- "$args0" "$args1" "$args2" "$args3" "$args4" "$args5" "$args6" ;;
+        (8) set -- "$args0" "$args1" "$args2" "$args3" "$args4" "$args5" "$args6" "$args7" ;;
+        (9) set -- "$args0" "$args1" "$args2" "$args3" "$args4" "$args5" "$args6" "$args7" "$args8" ;;
+    esac
+fi
+
+# Split up the JVM_OPTS And GRADLE_OPTS values into an array, following the shell quoting and substitution rules
+function splitJvmOpts() {
+    JVM_OPTS=("$@")
+}
+eval splitJvmOpts $DEFAULT_JVM_OPTS $JAVA_OPTS $GRADLE_OPTS
+JVM_OPTS[${#JVM_OPTS[*]}]="-Dorg.gradle.appname=$APP_BASE_NAME"
+
+exec "$JAVACMD" "${JVM_OPTS[@]}" -classpath "$CLASSPATH" org.gradle.wrapper.GradleWrapperMain "$@"

docs-android/gradlew.bat

@@ -0,0 +1,90 @@
+@if "%DEBUG%" == "" @echo off
+@rem ##########################################################################
+@rem
+@rem  Gradle startup script for Windows
+@rem
+@rem ##########################################################################
+
+@rem Set local scope for the variables with windows NT shell
+if "%OS%"=="Windows_NT" setlocal
+
+@rem Add default JVM options here. You can also use JAVA_OPTS and GRADLE_OPTS to pass JVM options to this script.
+set DEFAULT_JVM_OPTS=
+
+set DIRNAME=%~dp0
+if "%DIRNAME%" == "" set DIRNAME=.
+set APP_BASE_NAME=%~n0
+set APP_HOME=%DIRNAME%
+
+@rem Find java.exe
+if defined JAVA_HOME goto findJavaFromJavaHome
+
+set JAVA_EXE=java.exe
+%JAVA_EXE% -version >NUL 2>&1
+if "%ERRORLEVEL%" == "0" goto init
+
+echo.
+echo ERROR: JAVA_HOME is not set and no 'java' command could be found in your PATH.
+echo.
+echo Please set the JAVA_HOME variable in your environment to match the
+echo location of your Java installation.
+
+goto fail
+
+:findJavaFromJavaHome
+set JAVA_HOME=%JAVA_HOME:"=%
+set JAVA_EXE=%JAVA_HOME%/bin/java.exe
+
+if exist "%JAVA_EXE%" goto init
+
+echo.
+echo ERROR: JAVA_HOME is set to an invalid directory: %JAVA_HOME%
+echo.
+echo Please set the JAVA_HOME variable in your environment to match the
+echo location of your Java installation.
+
+goto fail
+
+:init
+@rem Get command-line arguments, handling Windowz variants
+
+if not "%OS%" == "Windows_NT" goto win9xME_args
+if "%@eval[2+2]" == "4" goto 4NT_args
+
+:win9xME_args
+@rem Slurp the command line arguments.
+set CMD_LINE_ARGS=
+set _SKIP=2
+
+:win9xME_args_slurp
+if "x%~1" == "x" goto execute
+
+set CMD_LINE_ARGS=%*
+goto execute
+
+:4NT_args
+@rem Get arguments from the 4NT Shell from JP Software
+set CMD_LINE_ARGS=%$
+
+:execute
+@rem Setup the command line
+
+set CLASSPATH=%APP_HOME%\gradle\wrapper\gradle-wrapper.jar
+
+@rem Execute Gradle
+"%JAVA_EXE%" %DEFAULT_JVM_OPTS% %JAVA_OPTS% %GRADLE_OPTS% "-Dorg.gradle.appname=%APP_BASE_NAME%" -classpath "%CLASSPATH%" org.gradle.wrapper.GradleWrapperMain %CMD_LINE_ARGS%
+
+:end
+@rem End local scope for the variables with windows NT shell
+if "%ERRORLEVEL%"=="0" goto mainEnd
+
+:fail
+rem Set variable GRADLE_EXIT_CONSOLE if you need the _script_ return code instead of
+rem the _cmd.exe /c_ return code!
+if  not "" == "%GRADLE_EXIT_CONSOLE%" exit 1
+exit /b 1
+
+:mainEnd
+if "%OS%"=="Windows_NT" endlocal
+
+:omega

docs-android/settings.gradle

@@ -0,0 +1 @@
+include ':app'

docs-core/pom.xml

@@ -122,6 +122,11 @@
       <artifactId>pdfbox</artifactId>
     </dependency>
     
+    <dependency>
+      <groupId>org.bouncycastle</groupId>
+      <artifactId>bcprov-jdk15on</artifactId>
+    </dependency>
+    
     <!-- OCR dependencies -->
     <dependency>
       <groupId>jna</groupId>
@@ -133,11 +138,6 @@
       <artifactId>imageio</artifactId>
     </dependency>
     
-    <dependency>
-      <groupId>tess4j</groupId>
-      <artifactId>tess4j</artifactId>
-    </dependency>
-    
     <!-- Test dependencies -->
     <dependency>
       <groupId>junit</groupId>

docs-core/src/main/java/com/sismics/docs/core/dao/jpa/DocumentDao.java

@@ -138,14 +138,15 @@ public class DocumentDao {
      * 
      * @param paginatedList List of documents (updated by side effects)
      * @param criteria Search criteria
-     * @return List of document
+     * @return List of documents
      * @throws Exception 
      */
     public void findByCriteria(PaginatedList<DocumentDto> paginatedList, DocumentCriteria criteria, SortCriteria sortCriteria) throws Exception {
         Map<String, Object> parameterMap = new HashMap<String, Object>();
         List<String> criteriaList = new ArrayList<String>();
         
-        StringBuilder sb = new StringBuilder("select distinct d.DOC_ID_C c0, d.DOC_TITLE_C c1, d.DOC_DESCRIPTION_C c2, d.DOC_CREATEDATE_D c3, d.DOC_LANGUAGE_C c4, s.SHA_ID_C is not null c5 ");
+        StringBuilder sb = new StringBuilder("select distinct d.DOC_ID_C c0, d.DOC_TITLE_C c1, d.DOC_DESCRIPTION_C c2, d.DOC_CREATEDATE_D c3, d.DOC_LANGUAGE_C c4, s.SHA_ID_C is not null c5, ");
+        sb.append(" (select count(f.FIL_ID_C) from T_FILE f where f.FIL_DELETEDATE_D is null and f.FIL_IDDOC_C = d.DOC_ID_C) c6 ");
         sb.append(" from T_DOCUMENT d ");
         sb.append(" left join T_SHARE s on s.SHA_IDDOCUMENT_C = d.DOC_ID_C and s.SHA_DELETEDATE_D is null ");
         
@@ -211,6 +212,7 @@ public class DocumentDao {
             documentDto.setCreateTimestamp(((Timestamp) o[i++]).getTime());
             documentDto.setLanguage((String) o[i++]);
             documentDto.setShared((Boolean) o[i++]);
+            documentDto.setFileCount(((Number) o[i++]).intValue());
             documentDtoList.add(documentDto);
         }
 

docs-core/src/main/java/com/sismics/docs/core/dao/jpa/dto/DocumentDto.java

@@ -39,6 +39,11 @@ public class DocumentDto {
      */
     private Boolean shared;
 
+    /**
+     * File count.
+     */
+    private Integer fileCount;
+    
     /**
      * Getter de id.
      *
@@ -146,4 +151,20 @@ public class DocumentDto {
     public void setLanguage(String language) {
         this.language = language;
     }
+
+    /**
+     * Getter of fileCount.
+     * @return fileCount
+     */
+    public Integer getFileCount() {
+        return fileCount;
+    }
+
+    /**
+     * Setter of fileCount.
+     * @param fileCount fileCount
+     */
+    public void setFileCount(Integer fileCount) {
+        this.fileCount = fileCount;
+    }
 }

docs-core/src/main/java/com/sismics/docs/core/dao/lucene/LuceneDao.java

@@ -10,6 +10,7 @@ import java.util.Set;
 import org.apache.lucene.document.Field;
 import org.apache.lucene.document.StringField;
 import org.apache.lucene.document.TextField;
+import org.apache.lucene.index.DirectoryReader;
 import org.apache.lucene.index.IndexWriter;
 import org.apache.lucene.index.Term;
 import org.apache.lucene.queries.TermsFilter;
@@ -171,12 +172,17 @@ public class LuceneDao {
         TermsFilter userFilter = new TermsFilter(terms);
         
         // Search
-        IndexSearcher searcher = new IndexSearcher(AppContext.getInstance().getIndexingService().getDirectoryReader());
+        DirectoryReader directoryReader = AppContext.getInstance().getIndexingService().getDirectoryReader();
+        Set<String> documentIdList = new HashSet<String>();
+        if (directoryReader == null) {
+            // The directory reader is not yet initialized (probably because there is nothing indexed)
+            return documentIdList;
+        }
+        IndexSearcher searcher = new IndexSearcher(directoryReader);
         TopDocs topDocs = searcher.search(query, userFilter, Integer.MAX_VALUE);
         ScoreDoc[] docs = topDocs.scoreDocs;
         
         // Extract document IDs
-        Set<String> documentIdList = new HashSet<String>();
         for (int i = 0; i < docs.length; i++) {
             org.apache.lucene.document.Document document = searcher.doc(docs[i].doc);
             String type = document.get("type");

docs-core/src/main/java/com/sismics/docs/core/event/ExtractFileAsyncEvent.java

@@ -1,16 +0,0 @@
-package com.sismics.docs.core.event;
-
-import com.google.common.base.Objects;
-
-/**
- * Extract file content event.
- *
- * @author bgamard
- */
-public class ExtractFileAsyncEvent {
-    @Override
-    public String toString() {
-        return Objects.toStringHelper(this)
-                .toString();
-    }
-}

docs-core/src/main/java/com/sismics/docs/core/event/FileCreatedAsyncEvent.java

@@ -1,5 +1,7 @@
 package com.sismics.docs.core.event;
 
+import java.io.InputStream;
+
 import com.google.common.base.Objects;
 import com.sismics.docs.core.model.jpa.Document;
 import com.sismics.docs.core.model.jpa.File;
@@ -20,6 +22,11 @@ public class FileCreatedAsyncEvent {
      */
     private Document document;
     
+    /**
+     * Unencrypted input stream containing the file.
+     */
+    private InputStream inputStream;
+    
     /**
      * Getter of file.
      *
@@ -56,6 +63,24 @@ public class FileCreatedAsyncEvent {
         this.document = document;
     }
     
+    /**
+     * Getter of inputStream.
+     *
+     * @return the inputStream
+     */
+    public InputStream getInputStream() {
+        return inputStream;
+    }
+
+    /**
+     * Setter de inputStream.
+     *
+     * @param inputStream inputStream
+     */
+    public void setInputStream(InputStream inputStream) {
+        this.inputStream = inputStream;
+    }
+
     @Override
     public String toString() {
         return Objects.toStringHelper(this)

docs-core/src/main/java/com/sismics/docs/core/listener/async/ExtractFileAsyncListener.java

@@ -1,57 +0,0 @@
-package com.sismics.docs.core.listener.async;
-
-import java.text.MessageFormat;
-import java.util.List;
-
-import org.slf4j.Logger;
-import org.slf4j.LoggerFactory;
-
-import com.google.common.eventbus.Subscribe;
-import com.sismics.docs.core.dao.jpa.DocumentDao;
-import com.sismics.docs.core.dao.jpa.FileDao;
-import com.sismics.docs.core.event.ExtractFileAsyncEvent;
-import com.sismics.docs.core.model.jpa.Document;
-import com.sismics.docs.core.model.jpa.File;
-import com.sismics.docs.core.util.FileUtil;
-import com.sismics.docs.core.util.TransactionUtil;
-
-/**
- * Listener on extract content from all files.
- * 
- * @author bgamard
- */
-public class ExtractFileAsyncListener {
-    /**
-     * Logger.
-     */
-    private static final Logger log = LoggerFactory.getLogger(ExtractFileAsyncListener.class);
-
-    /**
-     * Extract content from all files.
-     * 
-     * @param extractFileAsyncEvent Extract file content event
-     * @throws Exception
-     */
-    @Subscribe
-    public void on(final ExtractFileAsyncEvent extractFileAsyncEvent) throws Exception {
-        if (log.isInfoEnabled()) {
-            log.info("Extract file content event: " + extractFileAsyncEvent.toString());
-        }
-
-        TransactionUtil.handle(new Runnable() {
-            @Override
-            public void run() {
-                FileDao fileDao = new FileDao();
-                DocumentDao documentDao = new DocumentDao();
-                List<File> fileList = fileDao.findAll();
-                for (File file : fileList) {
-                    long startTime = System.currentTimeMillis();
-                    Document document = documentDao.getById(file.getDocumentId());
-                    file.setContent(FileUtil.extractContent(document, file));
-                    TransactionUtil.commit();
-                    log.info(MessageFormat.format("File content extracted in {0}ms", System.currentTimeMillis() - startTime));
-                }
-            }
-        });
-    }
-}

docs-core/src/main/java/com/sismics/docs/core/listener/async/FileCreatedAsyncListener.java

@@ -39,7 +39,7 @@ public class FileCreatedAsyncListener {
         // OCR the file
         final File file = fileCreatedAsyncEvent.getFile();
         long startTime = System.currentTimeMillis();
-        final String content = FileUtil.extractContent(fileCreatedAsyncEvent.getDocument(), file);
+        final String content = FileUtil.extractContent(fileCreatedAsyncEvent.getDocument(), file, fileCreatedAsyncEvent.getInputStream());
         log.info(MessageFormat.format("File content extracted in {0}ms", System.currentTimeMillis() - startTime));
         
         // Store the OCR-ization result in the database

docs-core/src/main/java/com/sismics/docs/core/model/context/AppContext.java

@@ -16,7 +16,6 @@ import com.sismics.docs.core.listener.async.DocumentDeletedAsyncListener;
 import com.sismics.docs.core.listener.async.DocumentUpdatedAsyncListener;
 import com.sismics.docs.core.listener.async.FileCreatedAsyncListener;
 import com.sismics.docs.core.listener.async.FileDeletedAsyncListener;
-import com.sismics.docs.core.listener.async.ExtractFileAsyncListener;
 import com.sismics.docs.core.listener.async.RebuildIndexAsyncListener;
 import com.sismics.docs.core.listener.sync.DeadEventListener;
 import com.sismics.docs.core.model.jpa.Config;
@@ -82,7 +81,6 @@ public class AppContext {
         asyncEventBus.register(new DocumentUpdatedAsyncListener());
         asyncEventBus.register(new DocumentDeletedAsyncListener());
         asyncEventBus.register(new RebuildIndexAsyncListener());
-        asyncEventBus.register(new ExtractFileAsyncListener());
     }
 
     /**

docs-core/src/main/java/com/sismics/docs/core/model/jpa/Tag.java

@@ -50,7 +50,7 @@ public class Tag {
     /**
      * Tag name.
      */
-    @Column(name = "TAG_COLOR_C", nullable = false, length = 6)
+    @Column(name = "TAG_COLOR_C", nullable = false, length = 7)
     private String color;
 
     /**

docs-core/src/main/java/com/sismics/docs/core/model/jpa/User.java

@@ -47,6 +47,12 @@ public class User {
     @Column(name = "USE_PASSWORD_C", nullable = false, length = 100)
     private String password;
 
+    /**
+     * User's private key.
+     */
+    @Column(name = "USE_PRIVATEKEY_C", nullable = false, length = 100)
+    private String privateKey;
+    
     /**
      * Email address.
      */
@@ -257,6 +263,22 @@ public class User {
         this.deleteDate = deleteDate;
     }
     
+    /**
+     * Getter de privateKey.
+     * @return privateKey
+     */
+    public String getPrivateKey() {
+        return privateKey;
+    }
+
+    /**
+     * Setter de privateKey.
+     * @param privateKey privateKey
+     */
+    public void setPrivateKey(String privateKey) {
+        this.privateKey = privateKey;
+    }
+
     @Override
     public String toString() {
         return Objects.toStringHelper(this)

docs-core/src/main/java/com/sismics/docs/core/service/IndexingService.java

@@ -128,7 +128,6 @@ public class IndexingService extends AbstractScheduledService {
     public DirectoryReader getDirectoryReader() {
         if (directoryReader == null) {
             if (!DirectoryReader.indexExists(directory)) {
-                log.info("Lucene directory not yet created");
                 return null;
             }
             try {

docs-core/src/main/java/com/sismics/docs/core/util/EncryptionUtil.java

@@ -0,0 +1,89 @@
+package com.sismics.docs.core.util;
+
+import java.io.InputStream;
+import java.math.BigInteger;
+import java.security.NoSuchAlgorithmException;
+import java.security.SecureRandom;
+import java.security.Security;
+
+import javax.crypto.Cipher;
+import javax.crypto.CipherInputStream;
+import javax.crypto.SecretKey;
+import javax.crypto.SecretKeyFactory;
+import javax.crypto.spec.PBEKeySpec;
+
+import org.bouncycastle.jce.provider.BouncyCastleProvider;
+
+import com.google.common.base.Strings;
+
+/**
+ * Encryption utilities.
+ * 
+ * @author bgamard
+ */
+public class EncryptionUtil {
+
+    /**
+     * Salt.
+     */
+    private static final String SALT = "LEpxZmm2SMu2PeKzPNrar2rhVAS6LrrgvXKeL9uyXC4vgKHg";
+    
+    static {
+        // Initialize Bouncy Castle provider
+        Security.insertProviderAt(new BouncyCastleProvider(), 1);
+    }
+    
+    /**
+     * Generate a private key.
+     * 
+     * @return New random private key
+     * @throws NoSuchAlgorithmException 
+     */
+    public static String generatePrivateKey() throws NoSuchAlgorithmException {
+        SecureRandom random = SecureRandom.getInstance("SHA1PRNG");
+        return new BigInteger(176, random).toString(32);
+    }
+    
+    /**
+     * Decrypt an InputStream using the specified private key.
+     * 
+     * @param is InputStream to encrypt
+     * @param privateKey Private key
+     * @return Encrypted stream
+     * @throws Exception 
+     */
+    public static InputStream decryptInputStream(InputStream is, String privateKey) throws Exception {
+        return new CipherInputStream(is, getCipher(privateKey, Cipher.DECRYPT_MODE));
+    }
+    
+    /**
+     * Return an encryption cipher.
+     * 
+     * @param privateKey Private key
+     * @return Encryption cipher
+     * @throws Exception
+     */
+    public static Cipher getEncryptionCipher(String privateKey) throws Exception {
+        if (Strings.isNullOrEmpty(privateKey)) {
+            throw new IllegalArgumentException("The private key is null or empty");
+        }
+        return getCipher(privateKey, Cipher.ENCRYPT_MODE);
+    }
+    
+    /**
+     * Initialize a Cipher.
+     * 
+     * @param privateKey Private key
+     * @param mode Mode (encrypt or decrypt)
+     * @return Cipher
+     * @throws Exception
+     */
+    private static Cipher getCipher(String privateKey, int mode) throws Exception {
+        PBEKeySpec keySpec = new PBEKeySpec(privateKey.toCharArray(), SALT.getBytes(), 2000, 256);
+        SecretKeyFactory skf = SecretKeyFactory.getInstance("PBEWITHSHA256AND256BITAES-CBC-BC");
+        SecretKey desKey = skf.generateSecret(keySpec);
+        Cipher cipher = Cipher.getInstance("AES/CTR/NOPADDING");
+        cipher.init(mode, desKey);
+        return cipher;
+    }
+}

docs-core/src/main/java/com/sismics/docs/core/util/FileUtil.java

@@ -1,17 +1,20 @@
 package com.sismics.docs.core.util;
 
 import java.awt.image.BufferedImage;
+import java.io.FileOutputStream;
 import java.io.IOException;
 import java.io.InputStream;
+import java.io.OutputStream;
 import java.nio.file.Files;
 import java.nio.file.Path;
 import java.nio.file.Paths;
 import java.util.List;
 
+import javax.crypto.Cipher;
+import javax.crypto.CipherInputStream;
+import javax.crypto.CipherOutputStream;
 import javax.imageio.ImageIO;
 
-import net.sourceforge.tess4j.Tesseract;
-
 import org.apache.pdfbox.pdmodel.PDDocument;
 import org.apache.pdfbox.pdmodel.PDPage;
 import org.apache.pdfbox.util.PDFTextStripper;
@@ -23,6 +26,7 @@ import org.slf4j.LoggerFactory;
 
 import com.sismics.docs.core.model.jpa.Document;
 import com.sismics.docs.core.model.jpa.File;
+import com.sismics.tess4j.Tesseract;
 import com.sismics.util.ImageUtil;
 import com.sismics.util.mime.MimeType;
 
@@ -42,36 +46,36 @@ public class FileUtil {
      * 
      * @param document Document linked to the file
      * @param file File to extract
+     * @param inputStream Unencrypted input stream
      * @return Content extract
      */
-    public static String extractContent(Document document, File file) {
+    public static String extractContent(Document document, File file, InputStream inputStream) {
         String content = null;
         
         if (ImageUtil.isImage(file.getMimeType())) {
-            content = ocrFile(document, file);
+            content = ocrFile(inputStream, document);
         } else if (file.getMimeType().equals(MimeType.APPLICATION_PDF)) {
-            content = extractPdf(file);
+            content = extractPdf(inputStream);
         }
         
         return content;
     }
     
     /**
-     * Optical character recognition on a file.
+     * Optical character recognition on a stream.
      * 
+     * @param inputStream Unencrypted input stream
      * @param document Document linked to the file
-     * @param file File to OCR
      * @return Content extracted
      */
-    private static String ocrFile(Document document, File file) {
+    private static String ocrFile(InputStream inputStream, Document document) {
         Tesseract instance = Tesseract.getInstance();
-        java.io.File storedfile = Paths.get(DirectoryUtil.getStorageDirectory().getPath(), file.getId()).toFile();
         String content = null;
         BufferedImage image = null;
         try {
-            image = ImageIO.read(storedfile);
+            image = ImageIO.read(inputStream);
         } catch (IOException e) {
-            log.error("Error reading the image " + storedfile, e);
+            log.error("Error reading the image", e);
         }
         
         // Upscale and grayscale the image
@@ -85,7 +89,7 @@ public class FileUtil {
             instance.setLanguage(document.getLanguage());
             content = instance.doOCR(image);
         } catch (Exception e) {
-            log.error("Error while OCR-izing the file " + storedfile, e);
+            log.error("Error while OCR-izing the image", e);
         }
         
         return content;
@@ -94,19 +98,18 @@ public class FileUtil {
     /**
      * Extract text from a PDF.
      * 
-     * @param file File to extract
+     * @param inputStream Unencrypted input stream
      * @return Content extracted
      */
-    private static String extractPdf(File file) {
+    private static String extractPdf(InputStream inputStream) {
         String content = null;
         PDDocument pdfDocument = null;
-        java.io.File storedfile = Paths.get(DirectoryUtil.getStorageDirectory().getPath(), file.getId()).toFile();
         try {
             PDFTextStripper stripper = new PDFTextStripper();
-            pdfDocument = PDDocument.load(storedfile.getAbsolutePath(), true);
+            pdfDocument = PDDocument.load(inputStream, true);
             content = stripper.getText(pdfDocument);
         } catch (IOException e) {
-            log.error("Error while extracting text from the PDF " + storedfile, e);
+            log.error("Error while extracting text from the PDF", e);
         } finally {
             if (pdfDocument != null) {
                 try {
@@ -123,39 +126,39 @@ public class FileUtil {
     /**
      * Save a file on the storage filesystem.
      * 
-     * @param is InputStream
+     * @param inputStream Unencrypted input stream
      * @param file File to save
-     * @throws IOException
+     * @param privateKey Private key used for encryption
+     * @throws Exception
      */
-    public static void save(InputStream is, File file) throws IOException {
+    public static void save(InputStream inputStream, File file, String privateKey) throws Exception {
+        Cipher cipher = EncryptionUtil.getEncryptionCipher(privateKey);
         Path path = Paths.get(DirectoryUtil.getStorageDirectory().getPath(), file.getId());
-        Files.copy(is, path);
+        Files.copy(new CipherInputStream(inputStream, cipher), path);
         
         // Generate file variations
-        try {
-            saveVariations(file, path.toFile());
-        } catch (IOException e) {
-            // Don't rethrow Exception from file variations generation
-            log.error("Error creating file variations", e);
-        }
+        inputStream.reset();
+        saveVariations(file, inputStream, cipher);
+        inputStream.reset();
     }
 
     /**
      * Generate file variations.
      * 
      * @param file File from database
-     * @param originalFile Original file
-     * @throws IOException
+     * @param inputStream Unencrypted input stream
+     * @param cipher Cipher to use for encryption
+     * @throws Exception
      */
-    public static void saveVariations(File file, java.io.File originalFile) throws IOException {
+    public static void saveVariations(File file, InputStream inputStream, Cipher cipher) throws Exception {
         BufferedImage image = null;
         if (ImageUtil.isImage(file.getMimeType())) {
-            image = ImageIO.read(originalFile);
+            image = ImageIO.read(inputStream);
         } else if(file.getMimeType().equals(MimeType.APPLICATION_PDF)) {
             // Generate preview from the first page of the PDF
             PDDocument pdfDocument = null;
             try {
-                pdfDocument = PDDocument.load(originalFile.getAbsolutePath(), true);
+                pdfDocument = PDDocument.load(inputStream, true);
                 @SuppressWarnings("unchecked")
                 List<PDPage> pageList = pdfDocument.getDocumentCatalog().getAllPages();
                 if (pageList.size() > 0) {
@@ -172,8 +175,24 @@ public class FileUtil {
             BufferedImage web = Scalr.resize(image, Scalr.Method.AUTOMATIC, Scalr.Mode.AUTOMATIC, 1280, Scalr.OP_ANTIALIAS);
             BufferedImage thumbnail = Scalr.resize(image, Scalr.Method.AUTOMATIC, Scalr.Mode.AUTOMATIC, 256, Scalr.OP_ANTIALIAS);
             image.flush();
-            ImageUtil.writeJpeg(web, Paths.get(DirectoryUtil.getStorageDirectory().getPath(), file.getId() + "_web").toFile());
-            ImageUtil.writeJpeg(thumbnail, Paths.get(DirectoryUtil.getStorageDirectory().getPath(), file.getId() + "_thumb").toFile());
+            
+            // Write "web" encrypted image
+            java.io.File outputFile = Paths.get(DirectoryUtil.getStorageDirectory().getPath(), file.getId() + "_web").toFile();
+            OutputStream outputStream = new CipherOutputStream(new FileOutputStream(outputFile), cipher);
+            try {
+                ImageUtil.writeJpeg(web, outputStream);
+            } finally {
+                outputStream.close();
+            }
+            
+            // Write "thumb" encrypted image
+            outputFile = Paths.get(DirectoryUtil.getStorageDirectory().getPath(), file.getId() + "_thumb").toFile();
+            outputStream = new CipherOutputStream(new FileOutputStream(outputFile), cipher);
+            try {
+                ImageUtil.writeJpeg(thumbnail, outputStream);
+            } finally {
+                outputStream.close();
+            }
         }
     }
 

docs-core/src/main/java/com/sismics/tess4j/ImageHelper.java

@@ -0,0 +1,173 @@
+/**
+ * Copyright @ 2008 Quan Nguyen
+ *
+ * Licensed under the Apache License, Version 2.0 (the "License"); you may not
+ * use this file except in compliance with the License. You may obtain a copy of
+ * the License at
+ *
+ * http://www.apache.org/licenses/LICENSE-2.0
+ *
+ * Unless required by applicable law or agreed to in writing, software
+ * distributed under the License is distributed on an "AS IS" BASIS, WITHOUT
+ * WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. See the
+ * License for the specific language governing permissions and limitations under
+ * the License.
+ */
+package com.sismics.tess4j;
+
+import java.awt.Graphics2D;
+import java.awt.Image;
+import java.awt.RenderingHints;
+import java.awt.Toolkit;
+import java.awt.Transparency;
+import java.awt.datatransfer.Clipboard;
+import java.awt.datatransfer.DataFlavor;
+import java.awt.image.*;
+
+public class ImageHelper {
+
+    /**
+     * Convenience method that returns a scaled instance of the provided
+     * {@code BufferedImage}.
+     *
+     * @param image the original image to be scaled
+     * @param targetWidth the desired width of the scaled instance, in pixels
+     * @param targetHeight the desired height of the scaled instance, in pixels
+     * @return a scaled version of the original {@code BufferedImage}
+     */
+    public static BufferedImage getScaledInstance(BufferedImage image, int targetWidth, int targetHeight) {
+        int type = (image.getTransparency() == Transparency.OPAQUE)
+                ? BufferedImage.TYPE_INT_RGB : BufferedImage.TYPE_INT_ARGB;
+        BufferedImage tmp = new BufferedImage(targetWidth, targetHeight, type);
+        Graphics2D g2 = tmp.createGraphics();
+        g2.setRenderingHint(RenderingHints.KEY_INTERPOLATION, RenderingHints.VALUE_INTERPOLATION_BICUBIC);
+        g2.drawImage(image, 0, 0, targetWidth, targetHeight, null);
+        g2.dispose();
+        return tmp;
+    }
+
+    /**
+     * A replacement for the standard
+     * <code>BufferedImage.getSubimage</code> method.
+     *
+     * @param image
+     * @param x the X coordinate of the upper-left corner of the specified
+     * rectangular region
+     * @param y the Y coordinate of the upper-left corner of the specified
+     * rectangular region
+     * @param width the width of the specified rectangular region
+     * @param height the height of the specified rectangular region
+     * @return a BufferedImage that is the subimage of <code>image</code>.
+     */
+    public static BufferedImage getSubImage(BufferedImage image, int x, int y, int width, int height) {
+        int type = (image.getTransparency() == Transparency.OPAQUE)
+                ? BufferedImage.TYPE_INT_RGB : BufferedImage.TYPE_INT_ARGB;
+        BufferedImage tmp = new BufferedImage(width, height, type);
+        Graphics2D g2 = tmp.createGraphics();
+        g2.drawImage(image.getSubimage(x, y, width, height), 0, 0, null);
+        g2.dispose();
+        return tmp;
+    }
+
+    /**
+     * A simple method to convert an image to binary or B/W image.
+     *
+     * @param image input image
+     * @return a monochrome image
+     */
+    public static BufferedImage convertImageToBinary(BufferedImage image) {
+        BufferedImage tmp = new BufferedImage(image.getWidth(), image.getHeight(), BufferedImage.TYPE_BYTE_BINARY);
+        Graphics2D g2 = tmp.createGraphics();
+        g2.drawImage(image, 0, 0, null);
+        g2.dispose();
+        return tmp;
+    }
+    
+    /**
+     * A simple method to convert an image to binary or B/W image.
+     *
+     * @param image input image
+     * @return a monochrome image
+     * @deprecated  As of release 1.1, renamed to {@link #convertImageToBinary(BufferedImage image)}
+     */
+    @Deprecated
+    public static BufferedImage convertImage2Binary(BufferedImage image) {
+        return convertImageToBinary(image);
+    }
+    
+    /**
+     * A simple method to convert an image to gray scale.
+     *
+     * @param image input image
+     * @return a monochrome image
+     */
+    public static BufferedImage convertImageToGrayscale(BufferedImage image) {
+        BufferedImage tmp = new BufferedImage(image.getWidth(), image.getHeight(), BufferedImage.TYPE_BYTE_GRAY);
+        Graphics2D g2 = tmp.createGraphics();
+        g2.drawImage(image, 0, 0, null);
+        g2.dispose();
+        return tmp;
+    }
+    
+    private static final short[] invertTable;
+
+    static {
+        invertTable = new short[256];
+        for (int i = 0; i < 256; i++) {
+            invertTable[i] = (short) (255 - i);
+        }
+    }
+    
+    /**
+     * Inverts image color.
+     * 
+     * @param image input image
+     * @return an inverted-color image
+     */
+    public static BufferedImage invertImageColor(BufferedImage image) {
+        BufferedImage tmp = new BufferedImage(image.getWidth(), image.getHeight(), image.getType());
+        BufferedImageOp invertOp = new LookupOp(new ShortLookupTable(0, invertTable), null);
+        return invertOp.filter(image, tmp);
+    }
+
+    /**
+     * Rotates an image.
+     * 
+     * @param image the original image
+     * @param angle the degree of rotation
+     * @return a rotated image
+     */
+    public static BufferedImage rotateImage(BufferedImage image, double angle) {
+        double theta = Math.toRadians(angle);
+        double sin = Math.abs(Math.sin(theta));
+        double cos = Math.abs(Math.cos(theta));
+        int w = image.getWidth();
+        int h = image.getHeight();
+        int newW = (int) Math.floor(w * cos + h * sin);
+        int newH = (int) Math.floor(h * cos + w * sin);
+        
+        BufferedImage tmp = new BufferedImage(newW, newH, image.getType());
+        Graphics2D g2d = tmp.createGraphics();
+        g2d.setRenderingHint(RenderingHints.KEY_INTERPOLATION,
+                RenderingHints.VALUE_INTERPOLATION_BICUBIC);
+        g2d.translate((newW - w) / 2, (newH - h) / 2);
+        g2d.rotate(theta, w / 2, h / 2);
+        g2d.drawImage(image, 0, 0, null);
+        g2d.dispose();
+        return tmp;
+    }
+
+    /**
+     * Gets an image from Clipboard.
+     *
+     * @return image
+     */
+    public static Image getClipboardImage() {
+        Clipboard clipboard = Toolkit.getDefaultToolkit().getSystemClipboard();
+        try {
+            return (Image) clipboard.getData(DataFlavor.imageFlavor);
+        } catch (Exception e) {
+            return null;
+        }
+    }
+}

docs-core/src/main/java/com/sismics/tess4j/ImageIOHelper.java

@@ -0,0 +1,143 @@
+/**
+ * Copyright @ 2008 Quan Nguyen
+ *
+ * Licensed under the Apache License, Version 2.0 (the "License"); you may not
+ * use this file except in compliance with the License. You may obtain a copy of
+ * the License at
+ *
+ * http://www.apache.org/licenses/LICENSE-2.0
+ *
+ * Unless required by applicable law or agreed to in writing, software
+ * distributed under the License is distributed on an "AS IS" BASIS, WITHOUT
+ * WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. See the
+ * License for the specific language governing permissions and limitations under
+ * the License.
+ */
+package com.sismics.tess4j;
+
+import java.awt.Toolkit;
+import java.awt.image.BufferedImage;
+import java.awt.image.DataBufferByte;
+import java.io.ByteArrayOutputStream;
+import java.io.IOException;
+import java.nio.ByteBuffer;
+import java.nio.ByteOrder;
+import java.util.HashMap;
+import java.util.Locale;
+import java.util.Map;
+
+import javax.imageio.IIOImage;
+import javax.imageio.ImageIO;
+import javax.imageio.ImageReadParam;
+import javax.imageio.ImageReader;
+import javax.imageio.ImageWriteParam;
+import javax.imageio.ImageWriter;
+import javax.imageio.metadata.IIOMetadata;
+import javax.imageio.metadata.IIOMetadataNode;
+import javax.imageio.stream.ImageOutputStream;
+
+import org.w3c.dom.NodeList;
+
+import com.sun.media.imageio.plugins.tiff.TIFFImageWriteParam;
+import com.sun.media.imageioimpl.plugins.tiff.TIFFImageReaderSpi;
+import com.sun.media.imageioimpl.plugins.tiff.TIFFImageWriterSpi;
+
+public class ImageIOHelper {
+
+    final static String TIFF_FORMAT = "tiff";
+
+
+    /**
+     * Gets pixel data of an
+     * <code>IIOImage</code> object.
+     *
+     * @param image an
+     * <code>IIOImage</code> object
+     * @return a byte buffer of pixel data
+     * @throws Exception
+     */
+    public static ByteBuffer getImageByteBuffer(IIOImage image) throws IOException {
+        //Set up the writeParam
+        TIFFImageWriteParam tiffWriteParam = new TIFFImageWriteParam(Locale.US);
+        tiffWriteParam.setCompressionMode(ImageWriteParam.MODE_DISABLED);
+
+        //Get tif writer and set output to file
+        ImageWriter writer = new TIFFImageWriterSpi().createWriterInstance();
+
+        //Get the stream metadata
+        IIOMetadata streamMetadata = writer.getDefaultStreamMetadata(tiffWriteParam);
+
+        ByteArrayOutputStream outputStream = new ByteArrayOutputStream();
+        ImageOutputStream ios = ImageIO.createImageOutputStream(outputStream);
+        writer.setOutput(ios);
+        writer.write(streamMetadata, new IIOImage(image.getRenderedImage(), null, null), tiffWriteParam);
+        writer.dispose();
+        
+        // Read the writed image
+        ios.seek(0);
+        ImageReader reader = new TIFFImageReaderSpi().createReaderInstance();
+        ImageReadParam param = reader.getDefaultReadParam();
+        reader.setInput(ios, true, true);
+        BufferedImage bi;
+        try {
+            bi = reader.read(0, param);
+        } finally {
+            reader.dispose();
+            ios.close();
+        }
+        
+        return convertImageData(bi);
+    }
+
+    /**
+     * Converts <code>BufferedImage</code> to <code>ByteBuffer</code>.
+     * 
+     * @param bi Input image
+     * @return pixel data
+     */
+    public static ByteBuffer convertImageData(BufferedImage bi) {
+        byte[] pixelData = ((DataBufferByte) bi.getRaster().getDataBuffer()).getData();
+ //        return ByteBuffer.wrap(pixelData);
+        ByteBuffer buf = ByteBuffer.allocateDirect(pixelData.length);
+        buf.order(ByteOrder.nativeOrder());
+        buf.put(pixelData);
+        buf.flip();
+        return buf;
+    }
+
+    /**
+     * Reads image meta data.
+     *
+     * @param oimage
+     * @return a map of meta data
+     */
+    public static Map<String, String> readImageData(IIOImage oimage) {
+        Map<String, String> dict = new HashMap<String, String>();
+
+        IIOMetadata imageMetadata = oimage.getMetadata();
+        if (imageMetadata != null) {
+            IIOMetadataNode dimNode = (IIOMetadataNode) imageMetadata.getAsTree("javax_imageio_1.0");
+            NodeList nodes = dimNode.getElementsByTagName("HorizontalPixelSize");
+            int dpiX;
+            if (nodes.getLength() > 0) {
+                float dpcWidth = Float.parseFloat(nodes.item(0).getAttributes().item(0).getNodeValue());
+                dpiX = (int) Math.round(25.4f / dpcWidth);
+            } else {
+                dpiX = Toolkit.getDefaultToolkit().getScreenResolution();
+            }
+            dict.put("dpiX", String.valueOf(dpiX));
+
+            nodes = dimNode.getElementsByTagName("VerticalPixelSize");
+            int dpiY;
+            if (nodes.getLength() > 0) {
+                float dpcHeight = Float.parseFloat(nodes.item(0).getAttributes().item(0).getNodeValue());
+                dpiY = (int) Math.round(25.4f / dpcHeight);
+            } else {
+                dpiY = Toolkit.getDefaultToolkit().getScreenResolution();
+            }
+            dict.put("dpiY", String.valueOf(dpiY));
+        }
+
+        return dict;
+    }
+}

docs-core/src/main/java/com/sismics/tess4j/TessAPI.java

@@ -0,0 +1,686 @@
+/**
+ * Copyright @ 2012 Quan Nguyen
+ *
+ * Licensed under the Apache License, Version 2.0 (the "License"); you may not
+ * use this file except in compliance with the License. You may obtain a copy of
+ * the License at
+ *
+ * http://www.apache.org/licenses/LICENSE-2.0
+ *
+ * Unless required by applicable law or agreed to in writing, software
+ * distributed under the License is distributed on an "AS IS" BASIS, WITHOUT
+ * WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. See the
+ * License for the specific language governing permissions and limitations under
+ * the License.
+ */
+package com.sismics.tess4j;
+
+import com.sun.jna.*;
+import com.sun.jna.ptr.*;
+import java.nio.*;
+
+/**
+ * A Java wrapper for
+ * <code>Tesseract OCR 3.02 API</code> using
+ * <code>JNA Interface Mapping</code>.
+ */
+public interface TessAPI extends Library {
+
+    static final boolean WINDOWS = System.getProperty("os.name").toLowerCase().startsWith("windows");
+    /**
+     * Native library name.
+     */
+    public static final String LIB_NAME = "libtesseract302";
+    public static final String LIB_NAME_NON_WIN = "tesseract";
+    /**
+     * An instance of the class library.
+     */
+    public static final TessAPI INSTANCE = (TessAPI) Native.loadLibrary(WINDOWS ? LIB_NAME : LIB_NAME_NON_WIN, TessAPI.class);
+
+    /**
+     * When Tesseract/Cube is initialized we can choose to instantiate/load/run
+     * only the Tesseract part, only the Cube part or both along with the
+     * combiner. The preference of which engine to use is stored in
+     * <code>tessedit_ocr_engine_mode</code>.<br /> <br /> ATTENTION: When
+     * modifying this enum, please make sure to make the appropriate changes to
+     * all the enums mirroring it (e.g. OCREngine in
+     * cityblock/workflow/detection/detection_storage.proto). Such enums will
+     * mention the connection to OcrEngineMode in the comments.
+     */
+    public static interface TessOcrEngineMode {
+
+        public static final int OEM_TESSERACT_ONLY = (int) 0;
+        public static final int OEM_CUBE_ONLY = (int) 1;
+        public static final int OEM_TESSERACT_CUBE_COMBINED = (int) 2;
+        public static final int OEM_DEFAULT = (int) 3;
+    };
+
+    /**
+     * Possible modes for page layout analysis. These *must* be kept in order of
+     * decreasing amount of layout analysis to be done, except for
+     * <code>OSD_ONLY</code>, so that the inequality test macros below work.
+     */
+    public static interface TessPageSegMode {
+
+        public static final int PSM_OSD_ONLY = (int) 0;
+        public static final int PSM_AUTO_OSD = (int) 1;
+        public static final int PSM_AUTO_ONLY = (int) 2;
+        public static final int PSM_AUTO = (int) 3;
+        public static final int PSM_SINGLE_COLUMN = (int) 4;
+        public static final int PSM_SINGLE_BLOCK_VERT_TEXT = (int) 5;
+        public static final int PSM_SINGLE_BLOCK = (int) 6;
+        public static final int PSM_SINGLE_LINE = (int) 7;
+        public static final int PSM_SINGLE_WORD = (int) 8;
+        public static final int PSM_CIRCLE_WORD = (int) 9;
+        public static final int PSM_SINGLE_CHAR = (int) 10;
+        public static final int PSM_COUNT = (int) 11;
+    };
+
+    /**
+     * Enum of the elements of the page hierarchy, used in
+     * <code>ResultIterator</code> to provide functions that operate on each
+     * level without having to have 5x as many functions.
+     */
+    public static interface TessPageIteratorLevel {
+
+        public static final int RIL_BLOCK = (int) 0;
+        public static final int RIL_PARA = (int) 1;
+        public static final int RIL_TEXTLINE = (int) 2;
+        public static final int RIL_WORD = (int) 3;
+        public static final int RIL_SYMBOL = (int) 4;
+    };
+
+    public static interface TessPolyBlockType {
+
+        public static final int PT_UNKNOWN = (int) 0;
+        public static final int PT_FLOWING_TEXT = (int) 1;
+        public static final int PT_HEADING_TEXT = (int) 2;
+        public static final int PT_PULLOUT_TEXT = (int) 3;
+        public static final int PT_TABLE = (int) 4;
+        public static final int PT_VERTICAL_TEXT = (int) 5;
+        public static final int PT_CAPTION_TEXT = (int) 6;
+        public static final int PT_FLOWING_IMAGE = (int) 7;
+        public static final int PT_HEADING_IMAGE = (int) 8;
+        public static final int PT_PULLOUT_IMAGE = (int) 9;
+        public static final int PT_HORZ_LINE = (int) 10;
+        public static final int PT_VERT_LINE = (int) 11;
+        public static final int PT_NOISE = (int) 12;
+        public static final int PT_COUNT = (int) 13;
+    };
+
+    /**
+     * <pre>
+     *  +------------------+
+     *  | 1 Aaaa Aaaa Aaaa |
+     *  | Aaa aa aaa aa    |
+     *  | aaaaaa A aa aaa. |
+     *  |                2 |
+     *  |   #######  c c C |
+     *  |   #######  c c c |
+     *  | < #######  c c c |
+     *  | < #######  c   c |
+     *  | < #######  .   c |
+     *  | 3 #######      c |
+     *  +------------------+
+     * </pre>
+     * Orientation Example:<br />
+     * ====================<br />
+     * Above is a
+     * diagram of some (1) English and (2) Chinese text and a (3) photo
+     * credit.<br />
+     * <br />
+     * Upright Latin characters are represented as A and a. '<' represents
+     * a latin character rotated anti-clockwise 90 degrees. Upright
+     * Chinese characters are represented C and c.<br />
+     * <br />
+     * NOTA BENE: enum values here should match goodoc.proto<br />
+     * <br />
+     * If you orient your head so that "up" aligns with Orientation, then
+     * the characters will appear "right side up" and readable.<br />
+     * <br />
+     * In the example above, both the
+     * English and Chinese paragraphs are oriented so their "up" is the top of
+     * the page (page up). The photo credit is read with one's head turned
+     * leftward ("up" is to page left).<br />
+     * <br /> The values of this enum
+     * match the convention of Tesseract's osdetect.h
+     */
+    public static interface TessOrientation {
+
+        public static final int ORIENTATION_PAGE_UP = (int) 0;
+        public static final int ORIENTATION_PAGE_RIGHT = (int) 1;
+        public static final int ORIENTATION_PAGE_DOWN = (int) 2;
+        public static final int ORIENTATION_PAGE_LEFT = (int) 3;
+    };
+
+    /**
+     * The grapheme clusters within a line of text are laid out logically in
+     * this direction, judged when looking at the text line rotated so that its
+     * Orientation is "page up".<br /> <br /> For English text, the writing
+     * direction is left-to-right. For the Chinese text in the above example,
+     * the writing direction is top-to-bottom.
+     */
+    public static interface TessWritingDirection {
+
+        public static final int WRITING_DIRECTION_LEFT_TO_RIGHT = (int) 0;
+        public static final int WRITING_DIRECTION_RIGHT_TO_LEFT = (int) 1;
+        public static final int WRITING_DIRECTION_TOP_TO_BOTTOM = (int) 2;
+    };
+
+    /**
+     * The text lines are read in the given sequence.<br /> <br /> In English,
+     * the order is top-to-bottom. In Chinese, vertical text lines are read
+     * right-to-left. Mongolian is written in vertical columns top to bottom
+     * like Chinese, but the lines order left-to right.<br /> <br /> Note that
+     * only some combinations make sense. For example,
+     * <code>WRITING_DIRECTION_LEFT_TO_RIGHT</code> implies
+     * <code>TEXTLINE_ORDER_TOP_TO_BOTTOM</code>.
+     */
+    public static interface TessTextlineOrder {
+
+        public static final int TEXTLINE_ORDER_LEFT_TO_RIGHT = (int) 0;
+        public static final int TEXTLINE_ORDER_RIGHT_TO_LEFT = (int) 1;
+        public static final int TEXTLINE_ORDER_TOP_TO_BOTTOM = (int) 2;
+    };
+    public static final int TRUE = (int) 1;
+    public static final int FALSE = (int) 0;
+
+    /**
+     * Returns the version identifier.
+     */
+    String TessVersion();
+    
+    void TessDeleteText(Pointer text);
+
+    void TessDeleteTextArray(PointerByReference arr);
+
+    void TessDeleteIntArray(IntBuffer arr);
+    
+    /**
+     * Creates an instance of the base class for all Tesseract APIs.
+     */
+    TessAPI.TessBaseAPI TessBaseAPICreate();
+
+    /**
+     * Disposes the TesseractAPI instance.
+     */
+    void TessBaseAPIDelete(TessAPI.TessBaseAPI handle);
+
+    /**
+     * Set the name of the input file. Needed only for training and reading a
+     * UNLV zone file.
+     */
+    void TessBaseAPISetInputName(TessAPI.TessBaseAPI handle, String name);
+
+    /**
+     * Set the name of the bonus output files. Needed only for debugging.
+     */
+    void TessBaseAPISetOutputName(TessAPI.TessBaseAPI handle, String name);
+
+    /**
+     * Set the value of an internal "parameter." Supply the name of the
+     * parameter and the value as a string, just as you would in a config file.
+     * Returns false if the name lookup failed. E.g.,
+     * <code>SetVariable("tessedit_char_blacklist", "xyz");</code> to ignore x,
+     * y and z. Or
+     * <code>SetVariable("classify_bln_numeric_mode", "1");</code> to set
+     * numeric-only mode.
+     * <code>SetVariable</code> may be used before
+     * <code>Init</code>, but settings will revert to defaults on
+     * <code>End()</code>.<br /> <br /> Note: Must be called after
+     * <code>Init()</code>. Only works for non-init variables (init variables
+     * should be passed to
+     * <code>Init()</code>).
+     */
+    int TessBaseAPISetVariable(TessAPI.TessBaseAPI handle, String name, String value);
+
+    /**
+     * Returns true (1) if the parameter was found among Tesseract parameters.
+     * Fills in value with the value of the parameter.
+     */
+    int TessBaseAPIGetIntVariable(TessAPI.TessBaseAPI handle, String name, IntBuffer value);
+
+    int TessBaseAPIGetBoolVariable(TessAPI.TessBaseAPI handle, String name, IntBuffer value);
+
+    int TessBaseAPIGetDoubleVariable(TessAPI.TessBaseAPI handle, String name, DoubleBuffer value);
+
+    String TessBaseAPIGetStringVariable(TessAPI.TessBaseAPI handle, String name);
+
+    /**
+     * Print Tesseract parameters to the given file.<br /> <br /> Note: Must not
+     * be the first method called after instance create.
+     */
+    void TessBaseAPIPrintVariablesToFile(TessAPI.TessBaseAPI handle, String filename);
+
+    /**
+     * Instances are now mostly thread-safe and totally independent, but some
+     * global parameters remain. Basically it is safe to use multiple
+     * TessBaseAPIs in different threads in parallel, UNLESS: you use
+     * <code>SetVariable</code> on some of the Params in classify and textord.
+     * If you do, then the effect will be to change it for all your
+     * instances.<br /> <br /> Start tesseract. Returns zero on success and -1
+     * on failure. NOTE that the only members that may be called before Init are
+     * those listed above here in the class definition.<br /> <br /> The
+     * <code>datapath</code> must be the name of the parent directory of
+     * tessdata and must end in / . Any name after the last / will be stripped.
+     * The language is (usually) an
+     * <code>ISO 639-3</code> string or
+     * <code>NULL</code> will default to eng. It is entirely safe (and
+     * eventually will be efficient too) to call Init multiple times on the same
+     * instance to change language, or just to reset the classifier. The
+     * language may be a string of the form [~]<lang>[+[~]<lang>]* indicating
+     * that multiple languages are to be loaded. E.g., hin+eng will load Hindi
+     * and English. Languages may specify internally that they want to be loaded
+     * with one or more other languages, so the ~ sign is available to override
+     * that. E.g., if hin were set to load eng by default, then hin+~eng would
+     * force loading only hin. The number of loaded languages is limited only by
+     * memory, with the caveat that loading additional languages will impact
+     * both speed and accuracy, as there is more work to do to decide on the
+     * applicable language, and there is more chance of hallucinating incorrect
+     * words. WARNING: On changing languages, all Tesseract parameters are reset
+     * back to their default values. (Which may vary between languages.) If you
+     * have a rare need to set a Variable that controls initialization for a
+     * second call to
+     * <code>Init</code> you should explicitly call
+     * <code>End()</code> and then use
+     * <code>SetVariable</code> before
+     * <code>Init</code>. This is only a very rare use case, since there are
+     * very few uses that require any parameters to be set before
+     * <code>Init</code>.<br /> <br /> If
+     * <code>set_only_non_debug_params</code> is true, only params that do not
+     * contain "debug" in the name will be set.
+     */
+    int TessBaseAPIInit1(TessAPI.TessBaseAPI handle, String datapath, String language, int oem, PointerByReference configs, int configs_size);
+
+    int TessBaseAPIInit2(TessAPI.TessBaseAPI handle, String datapath, String language, int oem);
+
+    int TessBaseAPIInit3(TessAPI.TessBaseAPI handle, String datapath, String language);
+
+    /**
+     * Returns the languages string used in the last valid initialization. If
+     * the last initialization specified "deu+hin" then that will be returned.
+     * If hin loaded eng automatically as well, then that will not be included
+     * in this list. To find the languages actually loaded, use
+     * <code>GetLoadedLanguagesAsVector</code>. The returned string should NOT
+     * be deleted.
+     */
+    String TessBaseAPIGetInitLanguagesAsString(TessAPI.TessBaseAPI handle);
+
+    /**
+     * Returns the loaded languages in the vector of STRINGs. Includes all
+     * languages loaded by the last
+     * <code>Init</code>, including those loaded as dependencies of other loaded
+     * languages.
+     */
+    PointerByReference TessBaseAPIGetLoadedLanguagesAsVector(TessAPI.TessBaseAPI handle);
+
+    /**
+     * Returns the available languages in the vector of STRINGs.
+     */
+    PointerByReference TessBaseAPIGetAvailableLanguagesAsVector(TessAPI.TessBaseAPI handle);
+
+    /**
+     * Init only the lang model component of Tesseract. The only functions that
+     * work after this init are
+     * <code>SetVariable</code> and
+     * <code>IsValidWord</code>. WARNING: temporary! This function will be
+     * removed from here and placed in a separate API at some future time.
+     */
+    int TessBaseAPIInitLangMod(TessAPI.TessBaseAPI handle, String datapath, String language);
+
+    /**
+     * Init only for page layout analysis. Use only for calls to
+     * <code>SetImage</code> and
+     * <code>AnalysePage</code>. Calls that attempt recognition will generate an
+     * error.
+     */
+    void TessBaseAPIInitForAnalysePage(TessAPI.TessBaseAPI handle);
+
+    /**
+     * Read a "config" file containing a set of param, value pairs. Searches the
+     * standard places:
+     * <code>tessdata/configs</code>,
+     * <code>tessdata/tessconfigs</code> and also accepts a relative or absolute
+     * path name. Note: only non-init params will be set (init params are set by
+     * <code>Init()</code>).
+     */
+    void TessBaseAPIReadConfigFile(TessAPI.TessBaseAPI handle, String filename, int init_only);
+
+    /**
+     * Set the current page segmentation mode. Defaults to PSM_SINGLE_BLOCK. The
+     * mode is stored as an IntParam so it can also be modified by
+     * <code>ReadConfigFile</code> or
+     * <code>SetVariable("tessedit_pageseg_mode", mode as string)</code>.
+     */
+    void TessBaseAPISetPageSegMode(TessAPI.TessBaseAPI handle, int mode);
+
+    /**
+     * Return the current page segmentation mode.
+     */
+    int TessBaseAPIGetPageSegMode(TessAPI.TessBaseAPI handle);
+
+    /**
+     * Recognize a rectangle from an image and return the result as a string.
+     * May be called many times for a single
+     * <code>Init</code>. Currently has no error checking. Greyscale of 8 and
+     * color of 24 or 32 bits per pixel may be given. Palette color images will
+     * not work properly and must be converted to 24 bit. Binary images of 1 bit
+     * per pixel may also be given but they must be byte packed with the MSB of
+     * the first byte being the first pixel, and a 1 represents WHITE. For
+     * binary images set bytes_per_pixel=0. The recognized text is returned as a
+     * char* which is coded as UTF8 and must be freed with the delete []
+     * operator.<br /> <br /> Note that
+     * <code>TesseractRect</code> is the simplified convenience interface. For
+     * advanced uses, use
+     * <code>SetImage</code>, (optionally)
+     * <code>SetRectangle</code>,
+     * <code>Recognize</code>, and one or more of the
+     * <code>Get*Text</code> functions below.
+     */
+    Pointer TessBaseAPIRect(TessAPI.TessBaseAPI handle, ByteBuffer imagedata, int bytes_per_pixel, int bytes_per_line, int left, int top, int width, int height);
+
+    /**
+     * Call between pages or documents etc to free up memory and forget adaptive
+     * data.
+     */
+    void TessBaseAPIClearAdaptiveClassifier(TessAPI.TessBaseAPI handle);
+
+    /**
+     * Provide an image for Tesseract to recognize. Format is as TesseractRect
+     * above. Does not copy the image buffer, or take ownership. The source
+     * image may be destroyed after Recognize is called, either explicitly or
+     * implicitly via one of the
+     * <code>Get*Text</code> functions.
+     * <code>SetImage</code> clears all recognition results, and sets the
+     * rectangle to the full image, so it may be followed immediately by a
+     * <code>GetUTF8Text</code>, and it will automatically perform recognition.
+     */
+    void TessBaseAPISetImage(TessAPI.TessBaseAPI handle, ByteBuffer imagedata, int width, int height, int bytes_per_pixel, int bytes_per_line);
+
+    /**
+     * Set the resolution of the source image in pixels per inch so font size
+     * information can be calculated in results. Call this after SetImage().
+     */
+    void TessBaseAPISetSourceResolution(TessAPI.TessBaseAPI handle, int ppi);
+
+    /**
+     * Restrict recognition to a sub-rectangle of the image. Call after
+     * <code>SetImage</code>. Each
+     * <code>SetRectangle</code> clears the recognition results so multiple
+     * rectangles can be recognized with the same image.
+     */
+    void TessBaseAPISetRectangle(TessAPI.TessBaseAPI handle, int left, int top, int width, int height);
+
+    /** Scale factor from original image. */
+    int TessBaseAPIGetThresholdedImageScaleFactor(TessAPI.TessBaseAPI handle);
+
+    /** Dump the internal binary image to a PGM file. */
+    void TessBaseAPIDumpPGM(TessAPI.TessBaseAPI handle, String filename);
+                
+    /**
+     * Runs page layout analysis in the mode set by SetPageSegMode. May
+     * optionally be called prior to Recognize to get access to just the page
+     * layout results. Returns an iterator to the results. Returns NULL on
+     * error. The returned iterator must be deleted after use. WARNING! This
+     * class points to data held within the TessBaseAPI class, and therefore can
+     * only be used while the TessBaseAPI class still exists and has not been
+     * subjected to a call of
+     * <code>Init</code>,
+     * <code>SetImage</code>,
+     * <code>Recognize</code>,
+     * <code>Clear</code>,
+     * <code>End</code>, DetectOS, or anything else that changes the internal
+     * PAGE_RES.
+     */
+    TessAPI.TessPageIterator TessBaseAPIAnalyseLayout(TessAPI.TessBaseAPI handle);
+
+    /**
+     * Recognize the image from SetAndThresholdImage, generating Tesseract
+     * internal structures. Returns 0 on success. Optional. The
+     * <code>Get*Text</code> functions below will call
+     * <code>Recognize</code> if needed. After Recognize, the output is kept
+     * internally until the next
+     * <code>SetImage</code>.
+     */
+    int TessBaseAPIRecognize(TessAPI.TessBaseAPI handle, TessAPI.ETEXT_DESC monitor);
+
+    /**
+     * Variant on Recognize used for testing chopper.
+     */
+    int TessBaseAPIRecognizeForChopTest(TessAPI.TessBaseAPI handle, TessAPI.ETEXT_DESC monitor);
+
+    /**
+     * Get a reading-order iterator to the results of LayoutAnalysis and/or
+     * Recognize. The returned iterator must be deleted after use. WARNING! This
+     * class points to data held within the TessBaseAPI class, and therefore can
+     * only be used while the TessBaseAPI class still exists and has not been
+     * subjected to a call of
+     * <code>Init</code>,
+     * <code>SetImage</code>,
+     * <code>Recognize</code>,
+     * <code>Clear</code>,
+     * <code>End</code>, DetectOS, or anything else that changes the internal
+     * PAGE_RES.
+     */
+    TessAPI.TessResultIterator TessBaseAPIGetIterator(TessAPI.TessBaseAPI handle);
+    
+   /**
+    * Get a mutable iterator to the results of LayoutAnalysis and/or Recognize.
+    * The returned iterator must be deleted after use.
+    * WARNING! This class points to data held within the TessBaseAPI class, and
+    * therefore can only be used while the TessBaseAPI class still exists and
+    * has not been subjected to a call of Init, SetImage, Recognize, Clear, End
+    * DetectOS, or anything else that changes the internal PAGE_RES.
+    */
+    TessAPI.TessMutableIterator TessBaseAPIGetMutableIterator(TessAPI.TessBaseAPI handle);
+
+    /**
+     * Recognizes all the pages in the named file, as a multi-page tiff or list
+     * of filenames, or single image, and gets the appropriate kind of text
+     * according to parameters:
+     * <code>tessedit_create_boxfile</code>,
+     * <code>tessedit_make_boxes_from_boxes</code>,
+     * <code>tessedit_write_unlv</code>,
+     * <code>tessedit_create_hocr</code>. Calls ProcessPage on each page in the
+     * input file, which may be a multi-page tiff, single-page other file
+     * format, or a plain text list of images to read. If tessedit_page_number
+     * is non-negative, processing begins at that page of a multi-page tiff
+     * file, or filelist. The text is returned in text_out. Returns false on
+     * error. If non-zero timeout_millisec terminates processing after the
+     * timeout on a single page. If non-NULL and non-empty, and some page fails
+     * for some reason, the page is reprocessed with the retry_config config
+     * file. Useful for interactively debugging a bad page.
+     */
+    Pointer TessBaseAPIProcessPages(TessAPI.TessBaseAPI handle, String filename, String retry_config, int timeout_millisec);
+
+    /**
+     * The recognized text is returned as a char* which is coded as UTF-8 and
+     * must be freed with the delete [] operator.
+     */
+    Pointer TessBaseAPIGetUTF8Text(TessAPI.TessBaseAPI handle);
+
+    /**
+     * Make a HTML-formatted string with hOCR markup from the internal data
+     * structures. page_number is 0-based but will appear in the output as
+     * 1-based.
+     */
+    Pointer TessBaseAPIGetHOCRText(TessAPI.TessBaseAPI handle, int page_number);
+
+    /**
+     * The recognized text is returned as a char* which is coded in the same
+     * format as a box file used in training. Returned string must be freed with
+     * the delete [] operator. Constructs coordinates in the original image -
+     * not just the rectangle. page_number is a 0-based page index that will
+     * appear in the box file.
+     */
+    Pointer TessBaseAPIGetBoxText(TessAPI.TessBaseAPI handle, int page_number);
+
+    /**
+     * The recognized text is returned as a char* which is coded as UNLV format
+     * Latin-1 with specific reject and suspect codes and must be freed with the
+     * delete [] operator.
+     */
+    Pointer TessBaseAPIGetUNLVText(TessAPI.TessBaseAPI handle);
+
+    /**
+     * Returns the (average) confidence value between 0 and 100.
+     */
+    int TessBaseAPIMeanTextConf(TessAPI.TessBaseAPI handle);
+
+    /**
+     * Returns all word confidences (between 0 and 100) in an array, terminated
+     * by -1. The calling function must delete [] after use. The number of
+     * confidences should correspond to the number of space-delimited words in
+     * GetUTF8Text.
+     */
+    IntByReference TessBaseAPIAllWordConfidences(TessAPI.TessBaseAPI handle);
+
+    /**
+     * Applies the given word to the adaptive classifier if possible. The word
+     * must be SPACE-DELIMITED UTF-8 - l i k e t h i s , so it can tell the
+     * boundaries of the graphemes. Assumes that SetImage/SetRectangle have been
+     * used to set the image to the given word. The mode arg should be
+     * PSM_SINGLE_WORD or PSM_CIRCLE_WORD, as that will be used to control
+     * layout analysis. The currently set PageSegMode is preserved. Returns
+     * false if adaption was not possible for some reason.
+     */
+    int TessBaseAPIAdaptToWordStr(TessAPI.TessBaseAPI handle, int mode, String wordstr);
+
+    /**
+     * Free up recognition results and any stored image data, without actually
+     * freeing any recognition data that would be time-consuming to reload.
+     * Afterwards, you must call
+     * <code>SetImage</code> or
+     * <code>TesseractRect</code> before doing any
+     * <code>Recognize</code> or
+     * <code>Get*</code> operation.
+     */
+    void TessBaseAPIClear(TessAPI.TessBaseAPI handle);
+
+    /**
+     * Close down tesseract and free up all memory.
+     * <code>End()</code> is equivalent to destructing and reconstructing your
+     * TessBaseAPI. Once
+     * <code>End()</code> has been used, none of the other API functions may be
+     * used other than
+     * <code>Init</code> and anything declared above it in the class definition.
+     */
+    void TessBaseAPIEnd(TessAPI.TessBaseAPI handle);
+
+    /**
+     * Check whether a word is valid according to Tesseract's language model.
+     *
+     * @return 0 if the word is invalid, non-zero if valid. @warning temporary!
+     * This function will be removed from here and placed in a separate API at
+     * some future time.
+     */
+    int TessBaseAPIIsValidWord(TessAPI.TessBaseAPI handle, String word);
+
+    int TessBaseAPIGetTextDirection(TessAPI.TessBaseAPI handle, IntBuffer out_offset, FloatBuffer out_slope);
+
+    /**
+     * This method returns the string form of the specified unichar.
+     */
+    String TessBaseAPIGetUnichar(TessAPI.TessBaseAPI handle, int unichar_id);
+
+    /* Page iterator */
+    void TessPageIteratorDelete(TessAPI.TessPageIterator handle);
+
+    TessAPI.TessPageIterator TessPageIteratorCopy(TessAPI.TessPageIterator handle);
+
+    void TessPageIteratorBegin(TessAPI.TessPageIterator handle);
+
+    int TessPageIteratorNext(TessAPI.TessPageIterator handle, int level);
+
+    int TessPageIteratorIsAtBeginningOf(TessAPI.TessPageIterator handle, int level);
+
+    int TessPageIteratorIsAtFinalElement(TessAPI.TessPageIterator handle, int level, int element);
+
+    int TessPageIteratorBoundingBox(TessAPI.TessPageIterator handle, int level, IntBuffer left, IntBuffer top, IntBuffer right, IntBuffer bottom);
+
+    int TessPageIteratorBlockType(TessAPI.TessPageIterator handle);
+
+    int TessPageIteratorBaseline(TessAPI.TessPageIterator handle, int level, IntBuffer x1, IntBuffer y1, IntBuffer x2, IntBuffer y2);
+
+    void TessPageIteratorOrientation(TessAPI.TessPageIterator handle, IntBuffer orientation, IntBuffer writing_direction, IntBuffer textline_order, FloatBuffer deskew_angle);
+
+    /* Result iterator */
+    void TessResultIteratorDelete(TessAPI.TessResultIterator handle);
+
+    TessAPI.TessResultIterator TessResultIteratorCopy(TessAPI.TessResultIterator handle);
+
+    TessAPI.TessPageIterator TessResultIteratorGetPageIterator(TessAPI.TessResultIterator handle);
+
+    TessAPI.TessPageIterator TessResultIteratorGetPageIteratorConst(TessAPI.TessResultIterator handle);
+
+    Pointer TessResultIteratorGetUTF8Text(TessAPI.TessResultIterator handle, int level);
+
+    float TessResultIteratorConfidence(TessAPI.TessResultIterator handle, int level);
+
+    String TessResultIteratorWordFontAttributes(TessAPI.TessResultIterator handle, IntBuffer is_bold, IntBuffer is_italic, IntBuffer is_underlined, IntBuffer is_monospace, IntBuffer is_serif, IntBuffer is_smallcaps, IntBuffer pointsize, IntBuffer font_id);
+
+    int TessResultIteratorWordIsFromDictionary(TessAPI.TessResultIterator handle);
+
+    int TessResultIteratorWordIsNumeric(TessAPI.TessResultIterator handle);
+
+    int TessResultIteratorSymbolIsSuperscript(TessAPI.TessResultIterator handle);
+
+    int TessResultIteratorSymbolIsSubscript(TessAPI.TessResultIterator handle);
+
+    int TessResultIteratorSymbolIsDropcap(TessAPI.TessResultIterator handle);
+
+    public static class TessBaseAPI extends PointerType {
+
+        public TessBaseAPI(Pointer address) {
+            super(address);
+        }
+
+        public TessBaseAPI() {
+            super();
+        }
+    };
+
+    public static class ETEXT_DESC extends PointerType {
+
+        public ETEXT_DESC(Pointer address) {
+            super(address);
+        }
+
+        public ETEXT_DESC() {
+            super();
+        }
+    };
+
+    public static class TessPageIterator extends PointerType {
+
+        public TessPageIterator(Pointer address) {
+            super(address);
+        }
+
+        public TessPageIterator() {
+            super();
+        }
+    };
+    
+    public static class TessMutableIterator extends PointerType {
+
+        public TessMutableIterator(Pointer address) {
+            super(address);
+        }
+
+        public TessMutableIterator() {
+            super();
+        }
+    };
+    
+    public static class TessResultIterator extends PointerType {
+
+        public TessResultIterator(Pointer address) {
+            super(address);
+        }
+
+        public TessResultIterator() {
+            super();
+        }
+    };
+}

docs-core/src/main/java/com/sismics/tess4j/Tesseract.java

@@ -0,0 +1,256 @@
+/**
+ * Copyright @ 2012 Quan Nguyen
+ *
+ * Licensed under the Apache License, Version 2.0 (the "License"); you may not
+ * use this file except in compliance with the License. You may obtain a copy of
+ * the License at
+ *
+ * http://www.apache.org/licenses/LICENSE-2.0
+ *
+ * Unless required by applicable law or agreed to in writing, software
+ * distributed under the License is distributed on an "AS IS" BASIS, WITHOUT
+ * WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. See the
+ * License for the specific language governing permissions and limitations under
+ * the License.
+ */
+package com.sismics.tess4j;
+
+import java.awt.Rectangle;
+import java.awt.image.BufferedImage;
+import java.awt.image.RenderedImage;
+import java.io.IOException;
+import java.nio.ByteBuffer;
+import java.util.ArrayList;
+import java.util.Enumeration;
+import java.util.List;
+import java.util.Properties;
+
+import javax.imageio.IIOImage;
+
+import com.sun.jna.Pointer;
+
+/**
+ * An object layer on top of
+ * <code>TessAPI</code>, provides character recognition support for common image
+ * formats, and multi-page TIFF images beyond the uncompressed, binary TIFF
+ * format supported by Tesseract OCR engine. The extended capabilities are
+ * provided by the
+ * <code>Java Advanced Imaging Image I/O Tools</code>. <br /><br /> Support for
+ * PDF documents is available through
+ * <code>Ghost4J</code>, a
+ * <code>JNA</code> wrapper for
+ * <code>GPL Ghostscript</code>, which should be installed and included in
+ * system path. <br /><br /> Any program that uses the library will need to
+ * ensure that the required libraries (the
+ * <code>.jar</code> files for
+ * <code>jna</code>,
+ * <code>jai-imageio</code>, and
+ * <code>ghost4j</code>) are in its compile and run-time
+ * <code>classpath</code>.
+ */
+public class Tesseract {
+
+    private static Tesseract instance;
+    private final static Rectangle EMPTY_RECTANGLE = new Rectangle();
+    private String language = "eng";
+    private String datapath = "tessdata";
+    private int psm = TessAPI.TessPageSegMode.PSM_AUTO;
+    private boolean hocr;
+    private int pageNum;
+    private int ocrEngineMode = TessAPI.TessOcrEngineMode.OEM_DEFAULT;
+    private Properties prop = new Properties();
+    public final static String htmlBeginTag =
+            "<!DOCTYPE html PUBLIC \"-//W3C//DTD HTML 4.01 Transitional//EN\""
+            + " \"http://www.w3.org/TR/html4/loose.dtd\">\n"
+            + "<html>\n<head>\n<title></title>\n"
+            + "<meta http-equiv=\"Content-Type\" content=\"text/html;"
+            + "charset=utf-8\" />\n<meta name='ocr-system' content='tesseract'/>\n"
+            + "</head>\n<body>\n";
+    public final static String htmlEndTag = "</body>\n</html>\n";
+
+    /**
+     * Private constructor.
+     */
+    private Tesseract() {
+        System.setProperty("jna.encoding", "UTF8");
+    }
+
+    /**
+     * Gets an instance of the class library.
+     *
+     * @return instance
+     */
+    public static synchronized Tesseract getInstance() {
+        if (instance == null) {
+            instance = new Tesseract();
+        }
+
+        return instance;
+    }
+
+    /**
+     * Sets tessdata path.
+     *
+     * @param datapath the tessdata path to set
+     */
+    public void setDatapath(String datapath) {
+        this.datapath = datapath;
+    }
+
+    /**
+     * Sets language for OCR.
+     *
+     * @param language the language code, which follows ISO 639-3 standard.
+     */
+    public void setLanguage(String language) {
+        this.language = language;
+    }
+
+    /**
+     * Sets OCR engine mode.
+     *
+     * @param ocrEngineMode the OcrEngineMode to set
+     */
+    public void setOcrEngineMode(int ocrEngineMode) {
+        this.ocrEngineMode = ocrEngineMode;
+    }
+
+    /**
+     * Sets page segmentation mode.
+     *
+     * @param mode the page segmentation mode to set
+     */
+    public void setPageSegMode(int mode) {
+        this.psm = mode;
+    }
+
+    /**
+     * Enables hocr output.
+     *
+     * @param hocr to enable or disable hocr output
+     */
+    public void setHocr(boolean hocr) {
+        this.hocr = hocr;
+        prop.setProperty("tessedit_create_hocr", hocr ? "1" : "0");
+    }
+
+    /**
+     * Set the value of Tesseract's internal parameter.
+     *
+     * @param key variable name, e.g.,
+     * <code>tessedit_create_hocr</code>,
+     * <code>tessedit_char_whitelist</code>, etc.
+     * @param value value for corresponding variable, e.g., "1", "0",
+     * "0123456789", etc.
+     */
+    public void setTessVariable(String key, String value) {
+        prop.setProperty(key, value);
+    }
+
+    /**
+     * Performs OCR operation.
+     *
+     * @param bi a buffered image
+     * @return the recognized text
+     * @throws TesseractException
+     */
+    public String doOCR(BufferedImage bi) throws TesseractException {
+        return doOCR(bi, null);
+    }
+
+    /**
+     * Performs OCR operation.
+     *
+     * @param bi a buffered image
+     * @param rect the bounding rectangle defines the region of the image to be
+     * recognized. A rectangle of zero dimension or
+     * <code>null</code> indicates the whole image.
+     * @return the recognized text
+     * @throws TesseractException
+     */
+    public String doOCR(BufferedImage bi, Rectangle rect) throws TesseractException {
+        IIOImage oimage = new IIOImage(bi, null, null);
+        List<IIOImage> imageList = new ArrayList<IIOImage>();
+        imageList.add(oimage);
+        return doOCR(imageList, rect);
+    }
+
+    /**
+     * Performs OCR operation.
+     *
+     * @param imageList a list of
+     * <code>IIOImage</code> objects
+     * @param rect the bounding rectangle defines the region of the image to be
+     * recognized. A rectangle of zero dimension or
+     * <code>null</code> indicates the whole image.
+     * @return the recognized text
+     * @throws TesseractException
+     */
+    public String doOCR(List<IIOImage> imageList, Rectangle rect) throws TesseractException {
+        StringBuilder sb = new StringBuilder();
+        pageNum = 0;
+
+        for (IIOImage oimage : imageList) {
+            pageNum++;
+            try {
+                ByteBuffer buf = ImageIOHelper.getImageByteBuffer(oimage);
+                RenderedImage ri = oimage.getRenderedImage();
+                String pageText = doOCR(ri.getWidth(), ri.getHeight(), buf, rect, ri.getColorModel().getPixelSize());
+                sb.append(pageText);
+            } catch (IOException ioe) {
+                //skip the problematic image
+                System.err.println(ioe.getMessage());
+            }
+        }
+
+        if (hocr) {
+            sb.insert(0, htmlBeginTag).append(htmlEndTag);
+        }
+        return sb.toString();
+    }
+
+    /**
+     * Performs OCR operation. Use
+     * <code>SetImage</code>, (optionally)
+     * <code>SetRectangle</code>, and one or more of the
+     * <code>Get*Text</code> functions.
+     *
+     * @param xsize width of image
+     * @param ysize height of image
+     * @param buf pixel data
+     * @param rect the bounding rectangle defines the region of the image to be
+     * recognized. A rectangle of zero dimension or
+     * <code>null</code> indicates the whole image.
+     * @param bpp bits per pixel, represents the bit depth of the image, with 1
+     * for binary bitmap, 8 for gray, and 24 for color RGB.
+     * @return the recognized text
+     * @throws TesseractException
+     */
+    public String doOCR(int xsize, int ysize, ByteBuffer buf, Rectangle rect, int bpp) throws TesseractException {
+        TessAPI api = TessAPI.INSTANCE;
+        TessAPI.TessBaseAPI handle = api.TessBaseAPICreate();
+        api.TessBaseAPIInit2(handle, datapath, language, ocrEngineMode);
+        api.TessBaseAPISetPageSegMode(handle, psm);
+        
+        Enumeration<?> em = prop.propertyNames();
+        while (em.hasMoreElements()) {
+            String key = (String) em.nextElement();
+            api.TessBaseAPISetVariable(handle, key, prop.getProperty(key));
+        }
+
+        int bytespp = bpp / 8;
+        int bytespl = (int) Math.ceil(xsize * bpp / 8.0);
+        api.TessBaseAPISetImage(handle, buf, xsize, ysize, bytespp, bytespl);
+
+        if (rect != null && !rect.equals(EMPTY_RECTANGLE)) {
+            api.TessBaseAPISetRectangle(handle, rect.x, rect.y, rect.width, rect.height);
+        }
+
+        Pointer utf8Text = hocr ? api.TessBaseAPIGetHOCRText(handle, pageNum - 1) : api.TessBaseAPIGetUTF8Text(handle);
+        String str = utf8Text.getString(0);
+        api.TessDeleteText(utf8Text);
+        api.TessBaseAPIDelete(handle);
+        
+        return str;
+    }
+}

docs-core/src/main/java/com/sismics/tess4j/TesseractException.java

@@ -0,0 +1,38 @@
+/**
+ * Copyright @ 2010 Quan Nguyen
+ *
+ * Licensed under the Apache License, Version 2.0 (the "License");
+ * you may not use this file except in compliance with the License.
+ * You may obtain a copy of the License at
+ *
+ *  http://www.apache.org/licenses/LICENSE-2.0
+ *
+ * Unless required by applicable law or agreed to in writing, software
+ * distributed under the License is distributed on an "AS IS" BASIS,
+ * WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
+ * See the License for the specific language governing permissions and
+ * limitations under the License.
+ */
+
+package com.sismics.tess4j;
+
+public class TesseractException extends Exception {
+
+    private static final long serialVersionUID = 1L;
+
+    public TesseractException() {
+        super();
+    }
+
+    public TesseractException(String message) {
+        super(message);
+    }
+
+    public TesseractException(Throwable cause) {
+        super(cause);
+    }
+
+    public TesseractException(String message, Throwable cause) {
+        super(message, cause);
+    }
+}

docs-core/src/main/java/com/sismics/util/ImageUtil.java

@@ -1,16 +1,17 @@
 package com.sismics.util;
 
-import com.sismics.util.mime.MimeType;
+import java.awt.image.BufferedImage;
+import java.io.IOException;
+import java.io.OutputStream;
+import java.util.Iterator;
 
 import javax.imageio.IIOImage;
 import javax.imageio.ImageIO;
 import javax.imageio.ImageWriteParam;
 import javax.imageio.ImageWriter;
-import javax.imageio.stream.FileImageOutputStream;
-import java.awt.image.BufferedImage;
-import java.io.File;
-import java.io.IOException;
-import java.util.Iterator;
+import javax.imageio.stream.ImageOutputStream;
+
+import com.sismics.util.mime.MimeType;
 
 /**
  * Image processing utilities.
@@ -23,26 +24,26 @@ public class ImageUtil {
      * Write a high quality JPEG.
      * 
      * @param image
-     * @param file
+     * @param outputStream Output stream
      * @throws IOException
      */
-    public static void writeJpeg(BufferedImage image, File file) throws IOException {
+    public static void writeJpeg(BufferedImage image, OutputStream outputStream) throws IOException {
         Iterator<ImageWriter> iter = ImageIO.getImageWritersByFormatName("jpeg");
         ImageWriter writer = null;
-        FileImageOutputStream output = null;
+        ImageOutputStream imageOutputStream = null;
         try {
             writer = (ImageWriter) iter.next();
             ImageWriteParam iwp = writer.getDefaultWriteParam();
             iwp.setCompressionMode(ImageWriteParam.MODE_EXPLICIT);
             iwp.setCompressionQuality(1.f);
-            output = new FileImageOutputStream(file);
-            writer.setOutput(output);
+            imageOutputStream = ImageIO.createImageOutputStream(outputStream);
+            writer.setOutput(imageOutputStream);
             IIOImage iioImage = new IIOImage(image, null, null);
             writer.write(null, iioImage, iwp);
         } finally {
-            if (output != null) {
+            if (imageOutputStream != null) {
                 try {
-                    output.close();
+                    imageOutputStream.close();
                 } catch (Exception inner) {
                     // NOP
                 }

docs-core/src/main/java/com/sismics/util/ResourceUtil.java

@@ -54,28 +54,33 @@ public class ResourceUtil {
             // Extract the JAR path
             String jarPath = dirUrl.getPath().substring(5, dirUrl.getPath().indexOf("!"));
             JarFile jar = new JarFile(URLDecoder.decode(jarPath, "UTF-8"));
-            
-            Enumeration<JarEntry> entries = jar.entries();
             Set<String> fileSet = new HashSet<String>();
-            while (entries.hasMoreElements()) {
-                // Filter according to the path
-                String entryName = entries.nextElement().getName();
-                if (!entryName.startsWith(path)) {
-                    continue;
-                }
-                String name = entryName.substring(path.length());
-                if (!"".equals(name)) {
-                    // If it is a subdirectory, just return the directory name
-                    int checkSubdir = name.indexOf("/");
-                    if (checkSubdir >= 0) {
-                        name = name.substring(0, checkSubdir);
-                    }
             
-                    if (filter == null || filter.accept(null, name)) {
-                        fileSet.add(name);
+            try {
+                Enumeration<JarEntry> entries = jar.entries();
+                while (entries.hasMoreElements()) {
+                    // Filter according to the path
+                    String entryName = entries.nextElement().getName();
+                    if (!entryName.startsWith(path)) {
+                        continue;
+                    }
+                    String name = entryName.substring(path.length());
+                    if (!"".equals(name)) {
+                        // If it is a subdirectory, just return the directory name
+                        int checkSubdir = name.indexOf("/");
+                        if (checkSubdir >= 0) {
+                            name = name.substring(0, checkSubdir);
+                        }
+                        
+                        if (filter == null || filter.accept(null, name)) {
+                            fileSet.add(name);
+                        }
                     }
                 }
+            } finally {
+                jar.close();
             }
+                
             return Lists.newArrayList(fileSet);
         }
         

docs-core/src/main/java/com/sismics/util/log4j/MemoryAppender.java

@@ -44,7 +44,6 @@ public class MemoryAppender extends AppenderSkeleton {
 
     @Override
     public synchronized void append(LoggingEvent event) {
-        // TODO Don't use size()
         while (logQueue.size() > size) {
             logQueue.remove();
         }

docs-core/src/main/java/com/sismics/util/mime/MimeTypeUtil.java

@@ -1,6 +1,7 @@
 package com.sismics.util.mime;
 
 import java.io.InputStream;
+import java.io.UnsupportedEncodingException;
 
 /**
  * Utility to check MIME types.
@@ -24,6 +25,18 @@ public class MimeTypeUtil {
         if (readCount <= 0) {
             throw new Exception("Cannot read input file");
         }
+        
+        return guessMimeType(headerBytes);
+    }
+
+    /**
+     * Try to guess the MIME type of a file by its magic number (header).
+     * 
+     * @param headerBytes File header (first bytes)
+     * @return MIME type
+     * @throws UnsupportedEncodingException
+     */
+    public static String guessMimeType(byte[] headerBytes) throws UnsupportedEncodingException {
         String header = new String(headerBytes, "US-ASCII");
         
         if (header.startsWith("PK")) {

docs-core/src/main/resources/config.properties

@@ -1 +1 @@
-db.version=5
+db.version=6

docs-core/src/main/resources/db/update/dbupdate-006-0.sql

@@ -0,0 +1,3 @@
+alter table T_USER add column USE_PRIVATEKEY_C varchar(100) default '' not null;
+update T_USER set USE_PRIVATEKEY_C = 'AdminPk' where USE_ID_C = 'admin';
+update T_CONFIG set CFG_VALUE_C='6' where CFG_ID_C='DB_VERSION';

docs-core/src/test/java/com/sismics/docs/core/dao/jpa/TestJpa.java

@@ -21,6 +21,7 @@ public class TestJpa extends BaseTransactionalTest {
         user.setEmail("toto@docs.com");
         user.setLocaleId("fr");
         user.setRoleId("admin");
+        user.setPrivateKey("AwesomePrivateKey");
         String id = userDao.create(user);
         
         TransactionUtil.commit();

docs-core/src/test/java/com/sismics/docs/core/util/TestEncryptUtil.java

@@ -0,0 +1,60 @@
+package com.sismics.docs.core.util;
+
+import java.io.InputStream;
+
+import javax.crypto.Cipher;
+import javax.crypto.CipherInputStream;
+
+import junit.framework.Assert;
+
+import org.junit.Test;
+
+import com.google.common.base.Strings;
+import com.google.common.io.ByteStreams;
+
+/**
+ * Test of the encryption utilities.
+ * 
+ * @author bgamard
+ */
+public class TestEncryptUtil {
+
+    /**
+     * Test private key.
+     */
+    String pk = "OnceUponATime";
+    
+    @Test
+    public void generatePrivateKeyTest() throws Exception {
+        String key = EncryptionUtil.generatePrivateKey();
+        System.out.println(key);
+        Assert.assertFalse(Strings.isNullOrEmpty(key));
+    }
+    
+    @Test
+    public void encryptStreamTest() throws Exception {
+        try {
+            EncryptionUtil.getEncryptionCipher("");
+            Assert.fail();
+        } catch (IllegalArgumentException e) {
+            // NOP
+        }
+        Cipher cipher = EncryptionUtil.getEncryptionCipher(pk);
+        InputStream inputStream = new CipherInputStream(this.getClass().getResourceAsStream("/file/udhr.pdf"), cipher);
+        byte[] encryptedData = ByteStreams.toByteArray(inputStream);
+        byte[] assertData = ByteStreams.toByteArray(this.getClass().getResourceAsStream("/file/udhr_encrypted.pdf"));
+        Assert.assertTrue(ByteStreams.equal(
+                ByteStreams.newInputStreamSupplier(encryptedData),
+                ByteStreams.newInputStreamSupplier(assertData)));
+    }
+    
+    @Test
+    public void decryptStreamTest() throws Exception {
+        InputStream inputStream = EncryptionUtil.decryptInputStream(this.getClass().getResourceAsStream("/file/udhr_encrypted.pdf"), pk);
+        byte[] encryptedData = ByteStreams.toByteArray(inputStream);
+        byte[] assertData = ByteStreams.toByteArray(this.getClass().getResourceAsStream("/file/udhr.pdf"));
+        Assert.assertTrue(ByteStreams.equal(
+                ByteStreams.newInputStreamSupplier(encryptedData),
+                ByteStreams.newInputStreamSupplier(assertData)));
+    }
+}

docs-parent/TODO

@@ -0,0 +1 @@
+- Automatic backup system using Quartz (server)

docs-parent/pom.xml

@@ -63,6 +63,7 @@
     <org.vafer.jdeb.version>1.0.1</org.vafer.jdeb.version>
     <com.samaxes.maven.minify-maven-plugin.version>1.7</com.samaxes.maven.minify-maven-plugin.version>
     <org.apache.pdfbox.pdfbox.version>1.8.2</org.apache.pdfbox.pdfbox.version>
+    <org.bouncycastle.bcprov-jdk15on.version>1.49</org.bouncycastle.bcprov-jdk15on.version>
   </properties>
   
   <scm>
@@ -443,6 +444,12 @@
         <version>${org.apache.pdfbox.pdfbox.version}</version>
       </dependency>
       
+      <dependency>
+        <groupId>org.bouncycastle</groupId>
+        <artifactId>bcprov-jdk15on</artifactId>
+        <version>${org.bouncycastle.bcprov-jdk15on.version}</version>
+      </dependency>
+      
       <!-- OCR dependencies -->
       <dependency>
         <groupId>jna</groupId>
@@ -456,11 +463,6 @@
         <version>1.0</version>
       </dependency>
       
-      <dependency>
-        <groupId>tess4j</groupId>
-        <artifactId>tess4j</artifactId>
-        <version>1.0</version>
-      </dependency>
     </dependencies>
   </dependencyManagement>
   
@@ -524,23 +526,6 @@
                 </goals>
               </execution>
               
-              <execution>
-                <id>install-tess4j</id>
-                <phase>validate</phase>
-                <configuration>
-                  <file>${project.basedir}/lib/tess4j.jar</file>
-                  <repositoryLayout>default</repositoryLayout>
-                  <groupId>tess4j</groupId>
-                  <artifactId>tess4j</artifactId>
-                  <version>1.0</version>
-                  <packaging>jar</packaging>
-                  <generatePom>true</generatePom>
-                </configuration>
-                <goals>
-                  <goal>install-file</goal>
-                </goals>
-              </execution>
-              
             </executions>
           </plugin>
         </plugins>

docs-web-common/src/main/java/com/sismics/rest/util/ValidationUtil.java

@@ -102,7 +102,6 @@ public class ValidationUtil {
      * @throws JSONException
      */
     public static void validateHexColor(String s, String name, boolean nullable) throws JSONException {
-        // TODO Do a real check
         ValidationUtil.validateLength(s, "name", 7, 7, nullable);
     }
     

docs-web-common/src/test/java/com/sismics/docs/rest/descriptor/JerseyTestWebAppDescriptorFactory.java

@@ -30,6 +30,7 @@ public class JerseyTestWebAppDescriptorFactory {
             .addFilter(TokenBasedSecurityFilter.class, "tokenBasedSecurityFilter")
             .initParam("com.sun.jersey.spi.container.ContainerRequestFilters", "com.sun.jersey.api.container.filter.LoggingFilter")
             .initParam("com.sun.jersey.spi.container.ContainerResponseFilters", "com.sun.jersey.api.container.filter.LoggingFilter")
+            .initParam("com.sun.jersey.config.feature.logging.DisableEntitylogging", "true")
             .build();
     }
 }

docs-web/src/dev/resources/config.properties

@@ -1,3 +1,3 @@
 api.current_version=${project.version}
 api.min_version=1.0
-db.version=5
+db.version=6

docs-web/src/main/java/com/sismics/docs/rest/resource/AppResource.java

@@ -1,7 +1,5 @@
 package com.sismics.docs.rest.resource;
 
-import java.io.IOException;
-import java.nio.file.Paths;
 import java.util.ArrayList;
 import java.util.HashMap;
 import java.util.List;
@@ -26,12 +24,10 @@ import com.sismics.docs.core.dao.jpa.DocumentDao;
 import com.sismics.docs.core.dao.jpa.FileDao;
 import com.sismics.docs.core.dao.jpa.criteria.DocumentCriteria;
 import com.sismics.docs.core.dao.jpa.dto.DocumentDto;
-import com.sismics.docs.core.event.ExtractFileAsyncEvent;
 import com.sismics.docs.core.model.context.AppContext;
 import com.sismics.docs.core.model.jpa.File;
 import com.sismics.docs.core.util.ConfigUtil;
 import com.sismics.docs.core.util.DirectoryUtil;
-import com.sismics.docs.core.util.FileUtil;
 import com.sismics.docs.core.util.jpa.PaginatedList;
 import com.sismics.docs.core.util.jpa.PaginatedLists;
 import com.sismics.docs.core.util.jpa.SortCriteria;
@@ -113,7 +109,7 @@ public class AppResource extends BaseResource {
         if (!authenticate()) {
             throw new ForbiddenClientException();
         }
-        checkBaseFunction(BaseFunction.ADMIN);
+        // TODO Change level by minLevel (returns all logs above)
 
         // Get the memory appender
         Logger logger = Logger.getRootLogger();
@@ -147,29 +143,6 @@ public class AppResource extends BaseResource {
         return Response.ok().entity(response).build();
     }
     
-    /**
-     * Extract content from all files again.
-     * 
-     * @return Response
-     * @throws JSONException
-     */
-    @POST
-    @Path("batch/extract")
-    @Produces(MediaType.APPLICATION_JSON)
-    public Response batchExtract() throws JSONException {
-        if (!authenticate()) {
-            throw new ForbiddenClientException();
-        }
-        checkBaseFunction(BaseFunction.ADMIN);
-        
-        // Raise an extract file content event
-        AppContext.getInstance().getAsyncEventBus().post(new ExtractFileAsyncEvent());
-        
-        JSONObject response = new JSONObject();
-        response.put("status", "ok");
-        return Response.ok().entity(response).build();
-    }
-    
     /**
      * Destroy and rebuild Lucene index.
      * 
@@ -197,7 +170,7 @@ public class AppResource extends BaseResource {
     }
     
     /**
-     * Destroy and rebuild Lucene index.
+     * Clean storage.
      * 
      * @return Response
      * @throws JSONException
@@ -233,38 +206,4 @@ public class AppResource extends BaseResource {
         response.put("status", "ok");
         return Response.ok().entity(response).build();
     }
-    
-    /**
-     * Regenerate file variations.
-     * 
-     * @return Response
-     * @throws JSONException
-     */
-    @POST
-    @Path("batch/file_variations")
-    @Produces(MediaType.APPLICATION_JSON)
-    public Response batchFileVariations() throws JSONException {
-        if (!authenticate()) {
-            throw new ForbiddenClientException();
-        }
-        checkBaseFunction(BaseFunction.ADMIN);
-        
-        // Get all files
-        FileDao fileDao = new FileDao();
-        List<File> fileList = fileDao.findAll();
-        
-        // Generate variations for each file
-        for (File file : fileList) {
-            java.io.File originalFile = Paths.get(DirectoryUtil.getStorageDirectory().getPath(), file.getId()).toFile();
-            try {
-                FileUtil.saveVariations(file, originalFile);
-            } catch (IOException e) {
-                throw new ServerException("FileError", "Error generating file variations", e);
-            }
-        }
-        
-        JSONObject response = new JSONObject();
-        response.put("status", "ok");
-        return Response.ok().entity(response).build();
-    }
 }

docs-web/src/main/java/com/sismics/docs/rest/resource/DocumentResource.java

@@ -34,6 +34,7 @@ import com.google.common.base.Joiner;
 import com.google.common.base.Strings;
 import com.sismics.docs.core.constant.Constants;
 import com.sismics.docs.core.dao.jpa.DocumentDao;
+import com.sismics.docs.core.dao.jpa.FileDao;
 import com.sismics.docs.core.dao.jpa.ShareDao;
 import com.sismics.docs.core.dao.jpa.TagDao;
 import com.sismics.docs.core.dao.jpa.criteria.DocumentCriteria;
@@ -42,8 +43,10 @@ import com.sismics.docs.core.dao.jpa.dto.TagDto;
 import com.sismics.docs.core.event.DocumentCreatedAsyncEvent;
 import com.sismics.docs.core.event.DocumentDeletedAsyncEvent;
 import com.sismics.docs.core.event.DocumentUpdatedAsyncEvent;
+import com.sismics.docs.core.event.FileDeletedAsyncEvent;
 import com.sismics.docs.core.model.context.AppContext;
 import com.sismics.docs.core.model.jpa.Document;
+import com.sismics.docs.core.model.jpa.File;
 import com.sismics.docs.core.model.jpa.Share;
 import com.sismics.docs.core.model.jpa.Tag;
 import com.sismics.docs.core.util.jpa.PaginatedList;
@@ -168,6 +171,7 @@ public class DocumentResource extends BaseResource {
             document.put("create_date", documentDto.getCreateTimestamp());
             document.put("shared", documentDto.getShared());
             document.put("language", documentDto.getLanguage());
+            document.put("file_count", documentDto.getFileCount());
             
             // Get tags
             List<TagDto> tagDtoList = tagDao.getByDocumentId(documentDto.getId());
@@ -243,7 +247,9 @@ public class DocumentResource extends BaseResource {
                     if (params[0].equals("before")) documentCriteria.setCreateDateMax(date.toDate());
                     else documentCriteria.setCreateDateMin(date.toDate());
                 } catch (IllegalArgumentException e) {
-                    // NOP
+                    // Invalid date, returns no documents
+                    if (params[0].equals("before")) documentCriteria.setCreateDateMax(new Date(0));
+                    else documentCriteria.setCreateDateMin(new Date(Long.MAX_VALUE / 2));
                 }
             } else if (params[0].equals("at")) {
                 // New specific date criteria
@@ -262,7 +268,9 @@ public class DocumentResource extends BaseResource {
                         documentCriteria.setCreateDateMax(date.plusYears(1).minusSeconds(1).toDate());
                     }
                 } catch (IllegalArgumentException e) {
-                    // NOP
+                    // Invalid date, returns no documents
+                    documentCriteria.setCreateDateMin(new Date(0));
+                    documentCriteria.setCreateDateMax(new Date(0));
                 }
             } else if (params[0].equals("shared")) {
                 // New shared state criteria
@@ -292,6 +300,9 @@ public class DocumentResource extends BaseResource {
      * 
      * @param title Title
      * @param description Description
+     * @param tags Tags
+     * @param language Language
+     * @param createDateStr Creation date
      * @return Response
      * @throws JSONException
      */
@@ -455,21 +466,31 @@ public class DocumentResource extends BaseResource {
 
         // Get the document
         DocumentDao documentDao = new DocumentDao();
+        FileDao fileDao = new FileDao();
         Document document;
+        List<File> fileList;
         try {
             document = documentDao.getDocument(id, principal.getId());
+            fileList = fileDao.getByDocumentId(id);
         } catch (NoResultException e) {
             throw new ClientException("DocumentNotFound", MessageFormat.format("Document not found: {0}", id));
         }
         
+        // Delete the document
+        documentDao.delete(document.getId());
+        
+        // Raise file deleted events
+        for (File file : fileList) {
+            FileDeletedAsyncEvent fileDeletedAsyncEvent = new FileDeletedAsyncEvent();
+            fileDeletedAsyncEvent.setFile(file);
+            AppContext.getInstance().getAsyncEventBus().post(fileDeletedAsyncEvent);
+        }
+        
         // Raise a document deleted event
         DocumentDeletedAsyncEvent documentDeletedAsyncEvent = new DocumentDeletedAsyncEvent();
         documentDeletedAsyncEvent.setDocument(document);
         AppContext.getInstance().getAsyncEventBus().post(documentDeletedAsyncEvent);
         
-        // Delete the document
-        documentDao.delete(document.getId());
-        
         // Always return ok
         JSONObject response = new JSONObject();
         response.put("status", "ok");

docs-web/src/main/java/com/sismics/docs/rest/resource/FileResource.java

@@ -1,7 +1,10 @@
 package com.sismics.docs.rest.resource;
 
-import java.io.BufferedInputStream;
+import java.io.ByteArrayInputStream;
+import java.io.FileInputStream;
+import java.io.IOException;
 import java.io.InputStream;
+import java.io.OutputStream;
 import java.nio.file.Paths;
 import java.text.MessageFormat;
 import java.text.SimpleDateFormat;
@@ -20,22 +23,28 @@ import javax.ws.rs.Path;
 import javax.ws.rs.PathParam;
 import javax.ws.rs.Produces;
 import javax.ws.rs.QueryParam;
+import javax.ws.rs.WebApplicationException;
 import javax.ws.rs.core.MediaType;
 import javax.ws.rs.core.Response;
+import javax.ws.rs.core.StreamingOutput;
 
 import org.codehaus.jettison.json.JSONException;
 import org.codehaus.jettison.json.JSONObject;
 
 import com.google.common.collect.Lists;
+import com.google.common.io.ByteStreams;
 import com.sismics.docs.core.dao.jpa.DocumentDao;
 import com.sismics.docs.core.dao.jpa.FileDao;
 import com.sismics.docs.core.dao.jpa.ShareDao;
+import com.sismics.docs.core.dao.jpa.UserDao;
 import com.sismics.docs.core.event.FileCreatedAsyncEvent;
 import com.sismics.docs.core.event.FileDeletedAsyncEvent;
 import com.sismics.docs.core.model.context.AppContext;
 import com.sismics.docs.core.model.jpa.Document;
 import com.sismics.docs.core.model.jpa.File;
+import com.sismics.docs.core.model.jpa.User;
 import com.sismics.docs.core.util.DirectoryUtil;
+import com.sismics.docs.core.util.EncryptionUtil;
 import com.sismics.docs.core.util.FileUtil;
 import com.sismics.rest.exception.ClientException;
 import com.sismics.rest.exception.ForbiddenClientException;
@@ -77,20 +86,30 @@ public class FileResource extends BaseResource {
 
         // Get the document
         DocumentDao documentDao = new DocumentDao();
+        FileDao fileDao = new FileDao();
+        UserDao userDao = new UserDao();
         Document document;
+        User user;
         try {
             document = documentDao.getDocument(documentId, principal.getId());
+            user = userDao.getById(principal.getId());
         } catch (NoResultException e) {
             throw new ClientException("DocumentNotFound", MessageFormat.format("Document not found: {0}", documentId));
         }
         
-        FileDao fileDao = new FileDao();
+        // Keep unencrypted data in memory, because we will need it two times
+        byte[] fileData;
+        try {
+            fileData = ByteStreams.toByteArray(fileBodyPart.getValueAs(InputStream.class));
+        } catch (IOException e) {
+            throw new ServerException("StreamError", "Error reading the input file", e);
+        }
+        InputStream fileInputStream = new ByteArrayInputStream(fileData);
         
         // Validate mime type
-        InputStream is = new BufferedInputStream(fileBodyPart.getValueAs(InputStream.class));
         String mimeType;
         try {
-            mimeType = MimeTypeUtil.guessMimeType(is);
+            mimeType = MimeTypeUtil.guessMimeType(fileInputStream);
         } catch (Exception e) {
             throw new ServerException("ErrorGuessMime", "Error guessing mime type", e);
         }
@@ -113,12 +132,13 @@ public class FileResource extends BaseResource {
             String fileId = fileDao.create(file);
             
             // Save the file
-            FileUtil.save(is, file);
+            FileUtil.save(fileInputStream, file, user.getPrivateKey());
             
             // Raise a new file created event
             FileCreatedAsyncEvent fileCreatedAsyncEvent = new FileCreatedAsyncEvent();
             fileCreatedAsyncEvent.setDocument(document);
             fileCreatedAsyncEvent.setFile(file);
+            fileCreatedAsyncEvent.setInputStream(fileInputStream);
             AppContext.getInstance().getAsyncEventBus().post(fileCreatedAsyncEvent);
 
             // Always return ok
@@ -249,14 +269,14 @@ public class FileResource extends BaseResource {
             throw new ClientException("FileNotFound", MessageFormat.format("File not found: {0}", id));
         }
         
+        // Delete the file
+        fileDao.delete(file.getId());
+        
         // Raise a new file deleted event
         FileDeletedAsyncEvent fileDeletedAsyncEvent = new FileDeletedAsyncEvent();
         fileDeletedAsyncEvent.setFile(file);
         AppContext.getInstance().getAsyncEventBus().post(fileDeletedAsyncEvent);
         
-        // Delete the file
-        fileDao.delete(file.getId());
-        
         // Always return ok
         JSONObject response = new JSONObject();
         response.put("status", "ok");
@@ -288,10 +308,12 @@ public class FileResource extends BaseResource {
         // Get the file
         FileDao fileDao = new FileDao();
         DocumentDao documentDao = new DocumentDao();
+        UserDao userDao = new UserDao();
         File file;
+        Document document;
         try {
             file = fileDao.getFile(fileId);
-            Document document = documentDao.getDocument(file.getDocumentId());
+            document = documentDao.getDocument(file.getDocumentId());
             
             // Check document visibility
             ShareDao shareDao = new ShareDao();
@@ -306,21 +328,48 @@ public class FileResource extends BaseResource {
         // Get the stored file
         java.io.File storedfile;
         String mimeType;
+        boolean decrypt = false;
         if (size != null) {
             storedfile = Paths.get(DirectoryUtil.getStorageDirectory().getPath(), fileId + "_" + size).toFile();
             mimeType = MimeType.IMAGE_JPEG; // Thumbnails are JPEG
+            decrypt = true; // Thumbnails are encrypted
             if (!storedfile.exists()) {
                 storedfile = new java.io.File(getClass().getResource("/image/file.png").getFile());
                 mimeType = MimeType.IMAGE_PNG;
+                decrypt = false;
             }
         } else {
             storedfile = Paths.get(DirectoryUtil.getStorageDirectory().getPath(), fileId).toFile();
             mimeType = file.getMimeType();
+            decrypt = true; // Original files are encrypted
         }
         
-        return Response.ok(storedfile)
+        // Stream the output and decrypt it if necessary
+        StreamingOutput stream;
+        User user = userDao.getById(document.getUserId());
+        try {
+            InputStream fileInputStream = new FileInputStream(storedfile);
+            final InputStream responseInputStream = decrypt ?
+                    EncryptionUtil.decryptInputStream(fileInputStream, user.getPrivateKey()) : fileInputStream;
+                    
+            stream = new StreamingOutput() {
+                @Override
+                public void write(OutputStream outputStream) throws IOException, WebApplicationException {
+                    try {
+                        ByteStreams.copy(responseInputStream, outputStream);
+                    } finally {
+                        responseInputStream.close();
+                        outputStream.close();
+                    }
+                }
+            };
+        } catch (Exception e) {
+            throw new ServerException("FileError", "Error while reading the file", e);
+        }
+
+        return Response.ok(stream)
                 .header("Content-Type", mimeType)
-                .header("Expires", new SimpleDateFormat("EEE, dd MMM yyyy HH:mm:ss Z").format(new Date().getTime() + 3600000 * 24 * 7))
+                .header("Expires", new SimpleDateFormat("EEE, dd MMM yyyy HH:mm:ss Z").format(new Date().getTime() + 3600000 * 24))
                 .build();
     }
 }

docs-web/src/main/java/com/sismics/docs/rest/resource/UserResource.java

@@ -7,6 +7,7 @@ import com.sismics.docs.core.dao.jpa.UserDao;
 import com.sismics.docs.core.dao.jpa.dto.UserDto;
 import com.sismics.docs.core.model.jpa.AuthenticationToken;
 import com.sismics.docs.core.model.jpa.User;
+import com.sismics.docs.core.util.EncryptionUtil;
 import com.sismics.docs.core.util.jpa.PaginatedList;
 import com.sismics.docs.core.util.jpa.PaginatedLists;
 import com.sismics.docs.core.util.jpa.SortCriteria;
@@ -28,6 +29,8 @@ import javax.ws.rs.*;
 import javax.ws.rs.core.MediaType;
 import javax.ws.rs.core.NewCookie;
 import javax.ws.rs.core.Response;
+
+import java.security.NoSuchAlgorithmException;
 import java.util.ArrayList;
 import java.util.Date;
 import java.util.List;
@@ -76,6 +79,11 @@ public class UserResource extends BaseResource {
         user.setUsername(username);
         user.setPassword(password);
         user.setEmail(email);
+        try {
+            user.setPrivateKey(EncryptionUtil.generatePrivateKey());
+        } catch (NoSuchAlgorithmException e) {
+            throw new ServerException("PrivateKeyError", "Error while generating a private key", e);
+        }
         user.setCreateDate(new Date());
 
         if (localeId == null) {

docs-web/src/main/webapp/.gitignore

@@ -1 +1,2 @@
 /sismicsdocs
+/.idea

docs-web/src/main/webapp/app/docs/app.js

@@ -219,4 +219,5 @@ var App = angular.module('docs',
 .run(function($rootScope, $state, $stateParams) {
   $rootScope.$state = $state;
   $rootScope.$stateParams = $stateParams;
+  $rootScope.pageTitle = 'Sismics Docs';
 });

docs-web/src/main/webapp/app/docs/controller/DocumentEdit.js

@@ -3,7 +3,7 @@
 /**
  * Document edition controller.
  */
-App.controller('DocumentEdit', function($scope, $q, $http, $state, $stateParams, Restangular, Tag) {
+App.controller('DocumentEdit', function($rootScope, $scope, $q, $http, $state, $stateParams, Restangular, Tag) {
   // Alerts
   $scope.alerts = [];
   
@@ -39,18 +39,15 @@ App.controller('DocumentEdit', function($scope, $q, $http, $state, $stateParams,
   };
 
   /**
-   * In edit mode, load the current document.
+   * Reset the form to add a new document.
    */
-  if ($scope.isEdit()) {
-    Restangular.one('document', $stateParams.id).get().then(function(data) {
-      $scope.document = data;
-    });
-  } else {
+  $scope.resetForm = function() {
     $scope.document = {
       tags: [],
       language: 'fra'
     };
-  }
+    $scope.newFiles = [];
+  };
 
   /**
    * Edit a document.
@@ -84,16 +81,17 @@ App.controller('DocumentEdit', function($scope, $q, $http, $state, $stateParams,
       // When all files upload are over, move on
       var navigateNext = function() {
         if ($scope.isEdit()) {
+          // Go back to the edited document
           $scope.pageDocuments();
           $state.transitionTo('document.view', { id: $stateParams.id });
         } else {
+          // Reset the scope and stay here
           var fileUploadCount = _.size($scope.newFiles);
           $scope.alerts.unshift({
             type: 'success',
             msg: 'Document successfully added (with ' + fileUploadCount + ' file' + (fileUploadCount > 1 ? 's' :  '') + ')'
           });
-          $scope.document = { tags: [] };
-          $scope.newFiles = [];
+          $scope.resetForm();
           $scope.loadDocuments();
         }
       }
@@ -102,6 +100,7 @@ App.controller('DocumentEdit', function($scope, $q, $http, $state, $stateParams,
         navigateNext();
       } else {
         $scope.fileIsUploading = true;
+        $rootScope.pageTitle = '0% - Sismics Docs';
         
         // Send a file from the input file array and return a promise
         var sendFile = function(key) {
@@ -122,6 +121,7 @@ App.controller('DocumentEdit', function($scope, $q, $http, $state, $stateParams,
           
           promiseFile.then(function() {
             $scope.fileProgress += 100 / _.size($scope.newFiles);
+            $rootScope.pageTitle = Math.round($scope.fileProgress) + '% - Sismics Docs';
           });
           
           return promiseFile;
@@ -136,6 +136,7 @@ App.controller('DocumentEdit', function($scope, $q, $http, $state, $stateParams,
           } else {
             $scope.fileIsUploading = false;
             $scope.fileProgress = 0;
+            $rootScope.pageTitle = 'Sismics Docs';
             navigateNext();
           }
         };
@@ -154,4 +155,15 @@ App.controller('DocumentEdit', function($scope, $q, $http, $state, $stateParams,
       $state.transitionTo('document.default');
     }
   };
+
+  /**
+   * In edit mode, load the current document.
+   */
+  if ($scope.isEdit()) {
+    Restangular.one('document', $stateParams.id).get().then(function(data) {
+      $scope.document = data;
+    });
+  } else {
+    $scope.resetForm();
+  }
 });

docs-web/src/main/webapp/app/docs/controller/FileView.js

@@ -6,6 +6,7 @@
 App.controller('FileView', function($dialog, $state, $stateParams) {
   var dialog = $dialog.dialog({
     keyboard: true,
+    dialogClass: 'modal modal-fileview',
     templateUrl: 'partial/docs/file.view.html',
     controller: function($scope, $state, $stateParams, Restangular, dialog) {
       // Load files

docs-web/src/main/webapp/app/docs/controller/Navigation.js

@@ -6,6 +6,42 @@
 App.controller('Navigation', function($scope, $http, $state, $rootScope, User, Restangular) {
   $rootScope.userInfo = User.userInfo();
 
+  // Last time when the errors logs was checked
+  $scope.lastLogCheck = new Date().getTime();
+
+  // Number of errors logs
+  $scope.errorNumber = 0;
+
+  // Check repeatedly if there is a new error log
+  setInterval(function() {
+    $scope.$apply(function() {
+      Restangular.one('app/log').get({
+        // Error count will be wrong if there is more than 10 errors in 60 seconds
+        limit: 10,
+        level: 'ERROR'
+      }).then(function(data) {
+          // Add new errors
+          $scope.errorNumber += _.reduce(data.logs, function(number, log) {
+            if (log.date > $scope.lastLogCheck) {
+              return ++number; // It's a new error
+            }
+            return number; // Not a new error
+          }, 0);
+
+          // Update last check timestamp
+          $scope.lastLogCheck = new Date().getTime();
+        });
+    })
+  }, 60000);
+
+  /**
+   * Navigate to error logs.
+   */
+  $scope.openLogs = function() {
+    $scope.errorNumber = 0;
+    $state.transitionTo('settings.log');
+  };
+
   /**
    * User logout.
    */
@@ -17,6 +53,9 @@ App.controller('Navigation', function($scope, $http, $state, $rootScope, User, R
     $event.preventDefault();
   };
 
+  /**
+   * Returns true if at least an asynchronous request is in progress.
+   */
   $scope.isLoading = function() {
     return $http.pendingRequests.length > 0;
   };

docs-web/src/main/webapp/app/docs/controller/Tag.js

@@ -38,7 +38,6 @@ App.controller('Tag', function($scope, $dialog, $state, Tag, Restangular) {
    * Add a tag.
    */
   $scope.addTag = function() {
-    // TODO Check if the tag don't already exists
     Restangular.one('tag').put($scope.tag).then(function(data) {
       $scope.tags.push({ id: data.id, name: $scope.tag.name, color: $scope.tag.color });
       $scope.tag = { name: '', color: '#3a87ad' };

docs-web/src/main/webapp/app/docs/directive/SelectTag.js

@@ -10,7 +10,8 @@ App.directive('selectTag', function() {
     replace: true,
     scope: {
       tags: '=',
-      ref: '@'
+      ref: '@',
+      ngDisabled: '='
     },
     controller: function($scope, Tag) {
       // Retrieve tags

docs-web/src/main/webapp/app/share/controller/FileView.js

@@ -6,6 +6,7 @@
 App.controller('FileView', function($dialog, $state, $stateParams) {
   var dialog = $dialog.dialog({
     keyboard: true,
+    dialogClass: 'modal modal-fileview',
     templateUrl: 'partial/share/file.view.html',
     controller: function($scope, $state, $stateParams, Restangular, dialog) {
       // Load files

docs-web/src/main/webapp/index.html

@@ -1,7 +1,7 @@
 <!DOCTYPE html>
 <html ng-app="docs">
   <head>
-    <title>Sismics Docs</title>
+    <title ng-bind-template="{{ pageTitle }}">Sismics Docs</title>
     <meta http-equiv="Content-Type" content="text/html; charset=UTF-8" />
     <meta name="viewport" content="width=device-width, initial-scale=1.0" />
     <link rel="shortcut icon" href="favicon.png" />
@@ -60,7 +60,7 @@
     <div class="navbar" ng-controller="Navigation">
       <div class="navbar-inner">
         <div class="container">
-          <div class="brand loader" ng-class="{hide: !isLoading() }">
+          <div class="brand loader hidden-phone" ng-class="{hide: !isLoading() }">
             <img src="img/loader.gif" />
           </div>
           
@@ -72,6 +72,11 @@
           </ul>
           
           <ul class="nav pull-right" ng-show="!userInfo.anonymous">
+            <li ng-show="errorNumber > 0">
+                <a href="#/settings/log" ng-click="openLogs()" class="nav-text-error">
+                  <span class="icon-warning-sign"></span> {{ errorNumber }} new error{{ errorNumber > 1 ? 's' : '' }}
+                </a>
+            </li>
             <li ng-class="{active: $uiRoute}" ui-route="/settings.*"><a href="#/settings/account"><span class="icon-cog"></span><span class="hidden-phone"> Settings</span></a></li>
             <li><a href="#" ng-click="logout($event)"><span class="icon-off"></span><span class="hidden-phone"> Logout</span></a></li>
           </ul>

docs-web/src/main/webapp/partial/docs/directive.selecttag.html

@@ -1,7 +1,7 @@
 <div>
   <ul class="inline">
-    <li ng-repeat="tag in tags"><span class="label label-info" ng-style="{ 'background': tag.color }">{{ tag.name }} <span class="icon-remove icon-white" ng-click="deleteTag(tag)"></span></span></li>
+    <li ng-repeat="tag in tags"><span class="label label-info" ng-style="{ 'background': tag.color }">{{ tag.name }} <span class="icon-remove icon-white" ng-click="deleteTag(tag)" ng-show="!ngDisabled"></span></span></li>
   </ul>
-  <input class="span12" type="text" id="{{ ref }}" placeholder="Type a tag" ng-model="input"
+  <input class="span12" type="text" id="{{ ref }}" placeholder="Type a tag" ng-model="input" ng-disabled="ngDisabled"
     autocomplete="off" typeahead="tag.name for tag in allTags | filter: $viewValue" typeahead-on-select="addTag()" />
 </div>

docs-web/src/main/webapp/partial/docs/document.edit.html

@@ -1,56 +1,63 @@
-<form class="form-horizontal" name="documentForm">
-  <div class="control-group" ng-class="{ error: !documentForm.title.$valid }">
-    <label class="control-label" for="inputTitle">Title</label>
-    <div class="controls">
-      <input required ng-maxlength="100" class="input-block-level" type="text" id="inputTitle"
-        placeholder="Title" name="title" ng-model="document.title" autocomplete="off"
-        typeahead="document for document in getTitleTypeahead($viewValue) | filter: $viewValue"
-        typeahead-wait-ms="200" />
-    </div>
-  </div>
-  <div class="control-group" ng-class="{ error: !documentForm.description.$valid }">
-    <label class="control-label" for="inputDescription">Description</label>
-    <div class="controls">
-      <textarea ng-maxlength="4000" class="input-block-level" rows="5" id="inputDescription" name="description" ng-model="document.description"></textarea>
-    </div>
-  </div>
-  <div class="control-group">
-    <label class="control-label" for="inputCreateDate">Creation date</label>
-    <div class="controls">
-      <input type="text" id="inputCreateDate" ng-readonly="true" datepicker-popup="yyyy-MM-dd" ng-model="document.create_date" starting-day="1" show-weeks="false" />
-    </div>
-  </div>
-  <div class="control-group">
-    <label class="control-label" for="inputCreateDate">Language</label>
-    <div class="controls">
-      <select id="inputLanguage" ng-model="document.language">
-        <option value="fra">French</option>
-        <option value="eng">English</option>
-        <option value="jpn">Japanese</option>
-      </select>
-    </div>
-  </div>
-  <div class="control-group">
-    <label class="control-label" for="inputFiles">New files</label>
-    <div class="controls">
-      <file class="input-block-level" id="inputFiles" multiple="multiple" ng-model="newFiles" accept="image/png,image/jpg,image/jpeg,image/gif,application/pdf" />
-    </div>
-  </div>
-  <div class="control-group">
-    <label class="control-label" for="inputTags">Tags</label>
-    <div class="controls">
-      <select-tag tags="document.tags" class="input-block-level" ref="inputTags" />
-    </div>
-  </div>
-  <div class="form-actions">
-    <button type="submit" class="btn btn-primary" ng-disabled="!documentForm.$valid || fileIsUploading" ng-click="edit()">{{ isEdit() ? 'Edit' : 'Add' }}</button>
-    <button type="submit" class="btn" ng-click="cancel()">Cancel</button>
-  </div>
-</form>
+<img src="img/loader.gif" ng-show="!document && isEdit()" />
 
-<div class="row-fluid" ng-show="fileIsUploading">
-  <h4>Uploading files...</h4>
-  <div class="span6"><progress percent="fileProgress" class="progress-info active"></progress></div>
+<div ng-show="document || !isEdit()">
+  <form class="form-horizontal" name="documentForm">
+    <div class="control-group" ng-class="{ error: !documentForm.title.$valid }">
+      <label class="control-label" for="inputTitle">Title</label>
+      <div class="controls">
+        <input required ng-maxlength="100" class="input-block-level" type="text" id="inputTitle"
+          placeholder="Title" name="title" ng-model="document.title" autocomplete="off"
+          typeahead="document for document in getTitleTypeahead($viewValue) | filter: $viewValue"
+          typeahead-wait-ms="200" ng-disabled="fileIsUploading" />
+      </div>
+    </div>
+    <div class="control-group" ng-class="{ error: !documentForm.description.$valid }">
+      <label class="control-label" for="inputDescription">Description</label>
+      <div class="controls">
+        <textarea ng-maxlength="4000" class="input-block-level" rows="5" id="inputDescription"
+          name="description" ng-model="document.description" ng-disabled="fileIsUploading"></textarea>
+      </div>
+    </div>
+    <div class="control-group">
+      <label class="control-label" for="inputCreateDate">Creation date</label>
+      <div class="controls">
+        <input type="text" id="inputCreateDate" ng-readonly="true" datepicker-popup="yyyy-MM-dd"
+          ng-model="document.create_date" starting-day="1" show-weeks="false" ng-disabled="fileIsUploading" />
+      </div>
+    </div>
+    <div class="control-group">
+      <label class="control-label" for="inputCreateDate">Language</label>
+      <div class="controls">
+        <select id="inputLanguage" ng-model="document.language" ng-disabled="fileIsUploading">
+          <option value="fra">French</option>
+          <option value="eng">English</option>
+          <option value="jpn">Japanese</option>
+        </select>
+      </div>
+    </div>
+    <div class="control-group">
+      <label class="control-label" for="inputFiles">New files</label>
+      <div class="controls">
+        <file class="input-block-level" id="inputFiles" multiple="multiple" ng-model="newFiles"
+          accept="image/png,image/jpg,image/jpeg,image/gif,application/pdf" ng-disabled="fileIsUploading" />
+      </div>
+    </div>
+    <div class="control-group">
+      <label class="control-label" for="inputTags">Tags</label>
+      <div class="controls">
+        <select-tag tags="document.tags" class="input-block-level" ref="inputTags" ng-disabled="fileIsUploading" />
+      </div>
+    </div>
+    <div class="form-actions">
+      <button type="submit" class="btn btn-primary" ng-disabled="!documentForm.$valid || fileIsUploading" ng-click="edit()">{{ isEdit() ? 'Edit' : 'Add' }}</button>
+      <button type="submit" class="btn" ng-click="cancel()" ng-disabled="fileIsUploading">Cancel</button>
+    </div>
+  </form>
+  
+  <div class="row-fluid" ng-show="fileIsUploading">
+    <h4>Uploading files...</h4>
+    <div class="span6"><progress percent="fileProgress" class="progress-info active"></progress></div>
+  </div>
+  
+  <alert ng-repeat="alert in alerts" type="alert.type" close="closeAlert($index)">{{ alert.msg }}</alert>
 </div>
-
-<alert ng-repeat="alert in alerts" type="alert.type" close="closeAlert($index)">{{ alert.msg }}</alert>

docs-web/src/main/webapp/partial/docs/document.html

@@ -30,7 +30,7 @@
         </thead>
         <tbody>
           <tr ng-click="viewDocument(document.id)" ng-repeat="document in documents">
-            <td>{{ document.title }} <span class="icon-share" ng-if="document.shared" tooltip="Shared"></span></td>
+            <td>{{ document.title }} ({{ document.file_count }})<span class="icon-share" ng-if="document.shared" tooltip="Shared"></span></td>
             <td>{{ document.create_date | date: 'yyyy-MM-dd' }}</td>
             <td class="hidden-phone cell-tags">
               <div class="tags">

docs-web/src/main/webapp/partial/docs/document.view.html

@@ -1,6 +1,6 @@
-<img src="img/loader.gif" ng-if="!document" />
+<img src="img/loader.gif" ng-show="!document" />
 
-<div ng-if="document">
+<div ng-show="document">
 	<div class="text-right">
 	  <div class="btn-group">
 	    <button class="btn btn-danger" ng-click="deleteDocument(document)"><span class="icon-trash icon-white"></span> Delete</button>
@@ -9,7 +9,7 @@
 	</div>
 	
 	<div class="page-header">
-	  <h1>{{ document.title }} <small>{{ document.create_date | date: 'yyyy-MM-dd' }}</small> <img ng-src="img/flag/{{ document.language }}.png" title="{{ document.language }}" /></h1>
+	  <h1>{{ document.title }} <small>{{ document.create_date | date: 'yyyy-MM-dd' }}</small> <img ng-if="document" ng-src="img/flag/{{ document.language }}.png" title="{{ document.language }}" /></h1>
 	  <p>
 	    <button class="btn btn-small btn-inverse" ng-click="share()"><span class="icon-share icon-white"></span> Share</button>
 	    <button class="btn btn-small" ng-repeat="share in document.shares" ng-click="showShare(share)"><span class="icon-ok"></span> {{ share.name ? share.name : 'shared' }}</button>

docs-web/src/main/webapp/partial/docs/settings.user.edit.html

@@ -1,62 +1,66 @@
-<h2 ng-show="isEdit()">Edit
-  <small>"{{ user.username }}"</small>
-</h2>
-<h2 ng-show="!isEdit()">Add
-  <small>user</small>
-</h2>
-<form class="form-horizontal" name="editUserForm" novalidate>
-  <div class="control-group" ng-class="{ error: !editUserForm.username.$valid, success: editUserForm.username.$valid }">
-    <label class="control-label" for="inputUsername">Username</label>
+<img src="img/loader.gif" ng-show="!user && isEdit()" />
 
-    <div class="controls">
-      <input name="username" type="text" id="inputUsername" required ng-disabled="isEdit()"
-             ng-minlength="3" ng-maxlength="50" placeholder="Username" ng-model="user.username"/>
-      <span class="help-inline" ng-show="editUserForm.username.$error.required">Required</span>
-      <span class="help-inline" ng-show="editUserForm.username.$error.minlength">Too short</span>
-      <span class="help-inline" ng-show="editUserForm.username.$error.maxlength">Too long</span>
-    </div>
-  </div>
-  <div class="control-group" ng-class="{ error: !editUserForm.email.$valid, success: editUserForm.email.$valid }">
-    <label class="control-label" for="inputEmail">E-mail</label>
+<div ng-show="user || !isEdit()">
+  <h2 ng-show="isEdit()">Edit
+    <small>"{{ user.username }}"</small>
+  </h2>
+  <h2 ng-show="!isEdit()">Add
+    <small>user</small>
+  </h2>
+  <form class="form-horizontal" name="editUserForm" novalidate>
+    <div class="control-group" ng-class="{ error: !editUserForm.username.$valid, success: editUserForm.username.$valid }">
+      <label class="control-label" for="inputUsername">Username</label>
   
-    <div class="controls">
-      <input name="email" type="email" id="inputEmail" required
-             ng-minlength="3" ng-maxlength="50" placeholder="E-mail" ng-model="user.email"/>
-      <span class="help-inline" ng-show="editUserForm.email.$error.required">Required</span>
-      <span class="help-inline" ng-show="editUserForm.email.$error.email">Must be a valid e-mail</span>
-      <span class="help-inline" ng-show="editUserForm.email.$error.minlength">Too short</span>
-      <span class="help-inline" ng-show="editUserForm.email.$error.maxlength">Too long</span>
+      <div class="controls">
+        <input name="username" type="text" id="inputUsername" required ng-disabled="isEdit()"
+               ng-minlength="3" ng-maxlength="50" placeholder="Username" ng-model="user.username"/>
+        <span class="help-inline" ng-show="editUserForm.username.$error.required">Required</span>
+        <span class="help-inline" ng-show="editUserForm.username.$error.minlength">Too short</span>
+        <span class="help-inline" ng-show="editUserForm.username.$error.maxlength">Too long</span>
+      </div>
     </div>
-  </div>
-  <div class="control-group" ng-class="{ error: !editUserForm.password.$valid, success: editUserForm.password.$valid }">
-    <label class="control-label" for="inputPassword">Password</label>
+    <div class="control-group" ng-class="{ error: !editUserForm.email.$valid, success: editUserForm.email.$valid }">
+      <label class="control-label" for="inputEmail">E-mail</label>
   
-    <div class="controls">
-      <input name="password" type="password" id="inputPassword" ng-required="!isEdit()"
-             ng-minlength="8" ng-maxlength="50" placeholder="Password" ng-model="user.password"/>
-      <span class="help-inline" ng-show="editUserForm.password.$error.required">Required</span>
-      <span class="help-inline" ng-show="editUserForm.password.$error.minlength">Too short</span>
-      <span class="help-inline" ng-show="editUserForm.password.$error.maxlength">Too long</span>
+      <div class="controls">
+        <input name="email" type="email" id="inputEmail" required
+               ng-minlength="3" ng-maxlength="50" placeholder="E-mail" ng-model="user.email"/>
+        <span class="help-inline" ng-show="editUserForm.email.$error.required">Required</span>
+        <span class="help-inline" ng-show="editUserForm.email.$error.email">Must be a valid e-mail</span>
+        <span class="help-inline" ng-show="editUserForm.email.$error.minlength">Too short</span>
+        <span class="help-inline" ng-show="editUserForm.email.$error.maxlength">Too long</span>
+      </div>
     </div>
-  </div>
-  <div class="control-group"
-       ng-class="{ error: !editUserForm.passwordconfirm.$valid, success: editUserForm.passwordconfirm.$valid }">
-    <label class="control-label" for="inputPasswordConfirm">Password (confirm)</label>
+    <div class="control-group" ng-class="{ error: !editUserForm.password.$valid, success: editUserForm.password.$valid }">
+      <label class="control-label" for="inputPassword">Password</label>
   
-    <div class="controls">
-      <input name="passwordconfirm" type="password" id="inputPasswordConfirm" ng-required="!isEdit()"
-             ui-validate="'$value == user.password'" ui-validate-watch="'user.password'"
-             placeholder="Password (confirm)" ng-model="user.passwordconfirm"/>
-      <span class="help-inline" ng-show="editUserForm.passwordconfirm.$error.validator">Password and password confirmation must match</span>
+      <div class="controls">
+        <input name="password" type="password" id="inputPassword" ng-required="!isEdit()"
+               ng-minlength="8" ng-maxlength="50" placeholder="Password" ng-model="user.password"/>
+        <span class="help-inline" ng-show="editUserForm.password.$error.required">Required</span>
+        <span class="help-inline" ng-show="editUserForm.password.$error.minlength">Too short</span>
+        <span class="help-inline" ng-show="editUserForm.password.$error.maxlength">Too long</span>
+      </div>
     </div>
-  </div>
-  <div class="form-actions">
-    <button type="submit" class="btn btn-primary" ng-click="edit()" ng-disabled="!editUserForm.$valid">
-      <span class="icon-pencil icon-white"></span> {{ isEdit() ? 'Edit' : 'Add' }}
-    </button>
-    <button type="button" class="btn btn-danger" ng-click="remove()" ng-show="isEdit()">
-      <span class="icon-trash icon-white"></span> Delete
-    </button>
-  </div>
-</form>
-<alert ng-repeat="alert in alerts" type="alert.type" close="closeAlert($index)">{{ alert.msg }}</alert>
+    <div class="control-group"
+         ng-class="{ error: !editUserForm.passwordconfirm.$valid, success: editUserForm.passwordconfirm.$valid }">
+      <label class="control-label" for="inputPasswordConfirm">Password (confirm)</label>
+  
+      <div class="controls">
+        <input name="passwordconfirm" type="password" id="inputPasswordConfirm" ng-required="!isEdit()"
+               ui-validate="'$value == user.password'" ui-validate-watch="'user.password'"
+               placeholder="Password (confirm)" ng-model="user.passwordconfirm"/>
+        <span class="help-inline" ng-show="editUserForm.passwordconfirm.$error.validator">Password and password confirmation must match</span>
+      </div>
+    </div>
+    <div class="form-actions">
+      <button type="submit" class="btn btn-primary" ng-click="edit()" ng-disabled="!editUserForm.$valid">
+        <span class="icon-pencil icon-white"></span> {{ isEdit() ? 'Edit' : 'Add' }}
+      </button>
+      <button type="button" class="btn btn-danger" ng-click="remove()" ng-show="isEdit()">
+        <span class="icon-trash icon-white"></span> Delete
+      </button>
+    </div>
+  </form>
+  <alert ng-repeat="alert in alerts" type="alert.type" close="closeAlert($index)">{{ alert.msg }}</alert>
+</div>

docs-web/src/main/webapp/style/main.less

@@ -80,6 +80,13 @@
 	}
 }
 
+// File view
+.modal-fileview {
+	top: 2%;
+	max-height: 96%;
+	overflow-y: scroll; 
+}
+
 // File thumbnails
 .thumbnail-file {
 	cursor: pointer;
@@ -134,3 +141,7 @@ input[readonly].share-link {
     cursor: pointer;
 	}
 }
+
+.nav-text-error {
+  color: #b94a48 !important;
+}

docs-web/src/prod/resources/config.properties

@@ -1,3 +1,3 @@
 api.current_version=${project.version}
 api.min_version=1.0
-db.version=5
+db.version=6

docs-web/src/test/java/com/sismics/docs/rest/TestAppResource.java

@@ -43,13 +43,6 @@ public class TestAppResource extends BaseJerseyTest {
         Assert.assertTrue(totalMemory > 0 && totalMemory > freeMemory);
         Assert.assertEquals(0, json.getInt("document_count"));
         
-        // OCR-ize all files
-        appResource = resource().path("/app/batch/extract");
-        appResource.addFilter(new CookieAuthenticationFilter(adminAuthenticationToken));
-        response = appResource.post(ClientResponse.class);
-        Assert.assertEquals(Status.OK, Status.fromStatusCode(response.getStatus()));
-        json = response.getEntity(JSONObject.class);
-        
         // Rebuild Lucene index
         appResource = resource().path("/app/batch/reindex");
         appResource.addFilter(new CookieAuthenticationFilter(adminAuthenticationToken));
@@ -83,7 +76,7 @@ public class TestAppResource extends BaseJerseyTest {
         Assert.assertEquals(Status.OK, Status.fromStatusCode(response.getStatus()));
         JSONObject json = response.getEntity(JSONObject.class);
         JSONArray logs = json.getJSONArray("logs");
-        Assert.assertTrue(logs.length() == 10);
+        Assert.assertTrue(logs.length() > 0);
         Long date1 = logs.optJSONObject(0).optLong("date");
         Long date2 = logs.optJSONObject(9).optLong("date");
         Assert.assertTrue(date1 > date2);
@@ -99,7 +92,7 @@ public class TestAppResource extends BaseJerseyTest {
         Assert.assertEquals(Status.OK, Status.fromStatusCode(response.getStatus()));
         json = response.getEntity(JSONObject.class);
         logs = json.getJSONArray("logs");
-        Assert.assertTrue(logs.length() == 10);
+        Assert.assertTrue(logs.length() > 0);
         Long date3 = logs.optJSONObject(0).optLong("date");
         Long date4 = logs.optJSONObject(9).optLong("date");
         Assert.assertTrue(date3 > date4);

docs-web/src/test/java/com/sismics/docs/rest/TestDocumentResource.java

@@ -3,6 +3,7 @@ package com.sismics.docs.rest;
 
 import java.io.BufferedInputStream;
 import java.io.InputStream;
+import java.nio.file.Paths;
 import java.util.Date;
 
 import javax.ws.rs.core.MediaType;
@@ -10,13 +11,15 @@ import javax.ws.rs.core.MediaType;
 import junit.framework.Assert;
 
 import org.codehaus.jettison.json.JSONArray;
-import org.codehaus.jettison.json.JSONException;
 import org.codehaus.jettison.json.JSONObject;
 import org.joda.time.format.DateTimeFormat;
 import org.junit.Test;
 
 import com.google.common.io.ByteStreams;
+import com.sismics.docs.core.util.DirectoryUtil;
 import com.sismics.docs.rest.filter.CookieAuthenticationFilter;
+import com.sismics.util.mime.MimeType;
+import com.sismics.util.mime.MimeTypeUtil;
 import com.sun.jersey.api.client.ClientResponse;
 import com.sun.jersey.api.client.ClientResponse.Status;
 import com.sun.jersey.api.client.WebResource;
@@ -32,11 +35,10 @@ import com.sun.jersey.multipart.FormDataMultiPart;
 public class TestDocumentResource extends BaseJerseyTest {
     /**
      * Test the document resource.
-     * 
-     * @throws JSONException
+     * @throws Exception 
      */
     @Test
-    public void testDocumentResource() throws JSONException {
+    public void testDocumentResource() throws Exception {
         // Login document1
         clientUtil.createUser("document1");
         String document1Token = clientUtil.login("document1");
@@ -82,6 +84,7 @@ public class TestDocumentResource extends BaseJerseyTest {
         response = fileResource.type(MediaType.MULTIPART_FORM_DATA).put(ClientResponse.class, form);
         Assert.assertEquals(Status.OK, Status.fromStatusCode(response.getStatus()));
         json = response.getEntity(JSONObject.class);
+        String file1Id = json.getString("id");
         
         // Share this document
         WebResource fileShareResource = resource().path("/share");
@@ -106,183 +109,36 @@ public class TestDocumentResource extends BaseJerseyTest {
         Assert.assertTrue(documents.length() == 1);
         Assert.assertEquals(document1Id, documents.getJSONObject(0).getString("id"));
         Assert.assertEquals("eng", documents.getJSONObject(0).getString("language"));
+        Assert.assertEquals(1, documents.getJSONObject(0).getInt("file_count"));
         Assert.assertEquals(1, tags.length());
         Assert.assertEquals(tag1Id, tags.getJSONObject(0).getString("id"));
         Assert.assertEquals("SuperTag", tags.getJSONObject(0).getString("name"));
         Assert.assertEquals("#ffff00", tags.getJSONObject(0).getString("color"));
         
-        // Search documents by query in full content
-        documentResource = resource().path("/document/list");
-        documentResource.addFilter(new CookieAuthenticationFilter(document1Token));
-        getParams = new MultivaluedMapImpl();
-        getParams.putSingle("search", "full:uranium");
-        response = documentResource.queryParams(getParams).get(ClientResponse.class);
-        json = response.getEntity(JSONObject.class);
-        Assert.assertEquals(Status.OK, Status.fromStatusCode(response.getStatus()));
-        documents = json.getJSONArray("documents");
-        Assert.assertTrue(documents.length() == 1);
-        
-        // Search documents by query in full content
-        documentResource = resource().path("/document/list");
-        documentResource.addFilter(new CookieAuthenticationFilter(document1Token));
-        getParams = new MultivaluedMapImpl();
-        getParams.putSingle("search", "full:title");
-        response = documentResource.queryParams(getParams).get(ClientResponse.class);
-        json = response.getEntity(JSONObject.class);
-        Assert.assertEquals(Status.OK, Status.fromStatusCode(response.getStatus()));
-        documents = json.getJSONArray("documents");
-        Assert.assertTrue(documents.length() == 1);
-        
-        // Search documents by query in title/description
-        documentResource = resource().path("/document/list");
-        documentResource.addFilter(new CookieAuthenticationFilter(document1Token));
-        getParams = new MultivaluedMapImpl();
-        getParams.putSingle("search", "title");
-        response = documentResource.queryParams(getParams).get(ClientResponse.class);
-        json = response.getEntity(JSONObject.class);
-        Assert.assertEquals(Status.OK, Status.fromStatusCode(response.getStatus()));
-        documents = json.getJSONArray("documents");
-        Assert.assertTrue(documents.length() == 1);
-
-        // Search documents by query in title/description
-        documentResource = resource().path("/document/list");
-        documentResource.addFilter(new CookieAuthenticationFilter(document1Token));
-        getParams = new MultivaluedMapImpl();
-        getParams.putSingle("search", "description");
-        response = documentResource.queryParams(getParams).get(ClientResponse.class);
-        json = response.getEntity(JSONObject.class);
-        Assert.assertEquals(Status.OK, Status.fromStatusCode(response.getStatus()));
-        documents = json.getJSONArray("documents");
-        Assert.assertTrue(documents.length() == 1);
-        
-        // Search documents by specific date
-        documentResource = resource().path("/document/list");
-        documentResource.addFilter(new CookieAuthenticationFilter(document1Token));
-        getParams = new MultivaluedMapImpl();
-        getParams.putSingle("search", "at:" + DateTimeFormat.forPattern("yyyy-MM").print(new Date().getTime()));
-        response = documentResource.queryParams(getParams).get(ClientResponse.class);
-        json = response.getEntity(JSONObject.class);
-        Assert.assertEquals(Status.OK, Status.fromStatusCode(response.getStatus()));
-        documents = json.getJSONArray("documents");
-        Assert.assertTrue(documents.length() == 1);
-        Assert.assertEquals(document1Id, documents.getJSONObject(0).getString("id"));
-        
-        // Search documents by date span
-        documentResource = resource().path("/document/list");
-        documentResource.addFilter(new CookieAuthenticationFilter(document1Token));
-        getParams = new MultivaluedMapImpl();
-        getParams.putSingle("search", "after:2010 before:2040-08");
-        response = documentResource.queryParams(getParams).get(ClientResponse.class);
-        json = response.getEntity(JSONObject.class);
-        Assert.assertEquals(Status.OK, Status.fromStatusCode(response.getStatus()));
-        documents = json.getJSONArray("documents");
-        Assert.assertTrue(documents.length() == 1);
-        Assert.assertEquals(document1Id, documents.getJSONObject(0).getString("id"));
-        
-        // Search documents by tag
-        documentResource = resource().path("/document/list");
-        documentResource.addFilter(new CookieAuthenticationFilter(document1Token));
-        getParams = new MultivaluedMapImpl();
-        getParams.putSingle("search", "tag:super");
-        response = documentResource.queryParams(getParams).get(ClientResponse.class);
-        json = response.getEntity(JSONObject.class);
-        Assert.assertEquals(Status.OK, Status.fromStatusCode(response.getStatus()));
-        documents = json.getJSONArray("documents");
-        Assert.assertTrue(documents.length() == 1);
-        Assert.assertEquals(document1Id, documents.getJSONObject(0).getString("id"));
-        
-        // Search documents by shared status
-        documentResource = resource().path("/document/list");
-        documentResource.addFilter(new CookieAuthenticationFilter(document1Token));
-        getParams = new MultivaluedMapImpl();
-        getParams.putSingle("search", "shared:yes");
-        response = documentResource.queryParams(getParams).get(ClientResponse.class);
-        json = response.getEntity(JSONObject.class);
-        Assert.assertEquals(Status.OK, Status.fromStatusCode(response.getStatus()));
-        documents = json.getJSONArray("documents");
-        Assert.assertTrue(documents.length() == 1);
-        Assert.assertEquals(document1Id, documents.getJSONObject(0).getString("id"));
-        Assert.assertEquals(true, documents.getJSONObject(0).getBoolean("shared"));
-        
-        // Search documents by language
-        documentResource = resource().path("/document/list");
-        documentResource.addFilter(new CookieAuthenticationFilter(document1Token));
-        getParams = new MultivaluedMapImpl();
-        getParams.putSingle("search", "lang:eng");
-        response = documentResource.queryParams(getParams).get(ClientResponse.class);
-        json = response.getEntity(JSONObject.class);
-        Assert.assertEquals(Status.OK, Status.fromStatusCode(response.getStatus()));
-        documents = json.getJSONArray("documents");
-        Assert.assertTrue(documents.length() == 1);
-        Assert.assertEquals(document1Id, documents.getJSONObject(0).getString("id"));
-        Assert.assertEquals("eng", documents.getJSONObject(0).getString("language"));
-        
-        // Search documents with multiple criteria
-        documentResource = resource().path("/document/list");
-        documentResource.addFilter(new CookieAuthenticationFilter(document1Token));
-        getParams = new MultivaluedMapImpl();
-        getParams.putSingle("search", "after:2010 before:2040-08 tag:super shared:yes lang:eng title description full:uranium");
-        response = documentResource.queryParams(getParams).get(ClientResponse.class);
-        json = response.getEntity(JSONObject.class);
-        Assert.assertEquals(Status.OK, Status.fromStatusCode(response.getStatus()));
-        documents = json.getJSONArray("documents");
-        Assert.assertTrue(documents.length() == 1);
-        Assert.assertEquals(document1Id, documents.getJSONObject(0).getString("id"));
+        // Search documents
+        Assert.assertEquals(1, searchDocuments("full:uranium full:einstein", document1Token));
+        Assert.assertEquals(1, searchDocuments("full:title", document1Token));
+        Assert.assertEquals(1, searchDocuments("title", document1Token));
+        Assert.assertEquals(1, searchDocuments("super description", document1Token));
+        Assert.assertEquals(1, searchDocuments("at:" + DateTimeFormat.forPattern("yyyy").print(new Date().getTime()), document1Token));
+        Assert.assertEquals(1, searchDocuments("at:" + DateTimeFormat.forPattern("yyyy-MM").print(new Date().getTime()), document1Token));
+        Assert.assertEquals(1, searchDocuments("at:" + DateTimeFormat.forPattern("yyyy-MM-dd").print(new Date().getTime()), document1Token));
+        Assert.assertEquals(1, searchDocuments("after:2010 before:2040-08", document1Token));
+        Assert.assertEquals(1, searchDocuments("tag:super", document1Token));
+        Assert.assertEquals(1, searchDocuments("shared:yes", document1Token));
+        Assert.assertEquals(1, searchDocuments("lang:eng", document1Token));
+        Assert.assertEquals(1, searchDocuments("after:2010 before:2040-08 tag:super shared:yes lang:eng title description full:uranium", document1Token));
 
         // Search documents (nothing)
-        documentResource = resource().path("/document/list");
-        documentResource.addFilter(new CookieAuthenticationFilter(document1Token));
-        getParams = new MultivaluedMapImpl();
-        getParams.putSingle("search", "random");
-        response = documentResource.queryParams(getParams).get(ClientResponse.class);
-        json = response.getEntity(JSONObject.class);
-        Assert.assertEquals(Status.OK, Status.fromStatusCode(response.getStatus()));
-        documents = json.getJSONArray("documents");
-        Assert.assertTrue(documents.length() == 0);
-        
-        // Search documents (nothing)
-        documentResource = resource().path("/document/list");
-        documentResource.addFilter(new CookieAuthenticationFilter(document1Token));
-        getParams = new MultivaluedMapImpl();
-        getParams.putSingle("search", "full:random");
-        response = documentResource.queryParams(getParams).get(ClientResponse.class);
-        json = response.getEntity(JSONObject.class);
-        Assert.assertEquals(Status.OK, Status.fromStatusCode(response.getStatus()));
-        documents = json.getJSONArray("documents");
-        Assert.assertTrue(documents.length() == 0);
-        
-        // Search documents (nothing)
-        documentResource = resource().path("/document/list");
-        documentResource.addFilter(new CookieAuthenticationFilter(document1Token));
-        getParams = new MultivaluedMapImpl();
-        getParams.putSingle("search", "after:2010 before:2011-05-20");
-        response = documentResource.queryParams(getParams).get(ClientResponse.class);
-        json = response.getEntity(JSONObject.class);
-        Assert.assertEquals(Status.OK, Status.fromStatusCode(response.getStatus()));
-        documents = json.getJSONArray("documents");
-        Assert.assertTrue(documents.length() == 0);
-        
-        // Search documents (nothing)
-        documentResource = resource().path("/document/list");
-        documentResource.addFilter(new CookieAuthenticationFilter(document1Token));
-        getParams = new MultivaluedMapImpl();
-        getParams.putSingle("search", "tag:Nop");
-        response = documentResource.queryParams(getParams).get(ClientResponse.class);
-        json = response.getEntity(JSONObject.class);
-        Assert.assertEquals(Status.OK, Status.fromStatusCode(response.getStatus()));
-        documents = json.getJSONArray("documents");
-        Assert.assertTrue(documents.length() == 0);
-        
-        // Search documents (nothing)
-        documentResource = resource().path("/document/list");
-        documentResource.addFilter(new CookieAuthenticationFilter(document1Token));
-        getParams = new MultivaluedMapImpl();
-        getParams.putSingle("search", "lang:fra");
-        response = documentResource.queryParams(getParams).get(ClientResponse.class);
-        json = response.getEntity(JSONObject.class);
-        Assert.assertEquals(Status.OK, Status.fromStatusCode(response.getStatus()));
-        documents = json.getJSONArray("documents");
-        Assert.assertTrue(documents.length() == 0);
+        Assert.assertEquals(0, searchDocuments("random", document1Token));
+        Assert.assertEquals(0, searchDocuments("full:random", document1Token));
+        Assert.assertEquals(0, searchDocuments("after:2010 before:2011-05-20", document1Token));
+        Assert.assertEquals(0, searchDocuments("at:2040-05-35", document1Token));
+        Assert.assertEquals(0, searchDocuments("after:2010-18 before:2040-05-38", document1Token));
+        Assert.assertEquals(0, searchDocuments("after:2010-18", document1Token));
+        Assert.assertEquals(0, searchDocuments("before:2040-05-38", document1Token));
+        Assert.assertEquals(0, searchDocuments("tag:Nop", document1Token));
+        Assert.assertEquals(0, searchDocuments("lang:fra", document1Token));
 
         // Get a document
         documentResource = resource().path("/document/" + document1Id);
@@ -348,6 +204,14 @@ public class TestDocumentResource extends BaseJerseyTest {
         json = response.getEntity(JSONObject.class);
         Assert.assertEquals("ok", json.getString("status"));
         
+        // Check that the associated files are deleted from FS
+        java.io.File storedFile = Paths.get(DirectoryUtil.getStorageDirectory().getPath(), file1Id).toFile();
+        java.io.File webFile = Paths.get(DirectoryUtil.getStorageDirectory().getPath(), file1Id + "_web").toFile();
+        java.io.File thumbnailFile = Paths.get(DirectoryUtil.getStorageDirectory().getPath(), file1Id + "_thumb").toFile();
+        Assert.assertFalse(storedFile.exists());
+        Assert.assertFalse(webFile.exists());
+        Assert.assertFalse(thumbnailFile.exists());
+        
         // Get a document (KO)
         documentResource = resource().path("/document/" + document1Id);
         documentResource.addFilter(new CookieAuthenticationFilter(document1Token));
@@ -356,6 +220,25 @@ public class TestDocumentResource extends BaseJerseyTest {
         Assert.assertEquals(Status.BAD_REQUEST, Status.fromStatusCode(response.getStatus()));
     }
     
+    /**
+     * Search documents and returns the number found.
+     * 
+     * @param query Search query
+     * @param token Authentication token
+     * @return Number of documents found
+     * @throws Exception
+     */
+    private int searchDocuments(String query, String token) throws Exception {
+        WebResource documentResource = resource().path("/document/list");
+        documentResource.addFilter(new CookieAuthenticationFilter(token));
+        MultivaluedMapImpl getParams = new MultivaluedMapImpl();
+        getParams.putSingle("search", query);
+        ClientResponse response = documentResource.queryParams(getParams).get(ClientResponse.class);
+        JSONObject json = response.getEntity(JSONObject.class);
+        Assert.assertEquals(Status.OK, Status.fromStatusCode(response.getStatus()));
+        return json.getJSONArray("documents").length();
+    }
+    
     /**
      * Test PDF extraction.
      * 
@@ -416,6 +299,7 @@ public class TestDocumentResource extends BaseJerseyTest {
         Assert.assertEquals(Status.OK, Status.fromStatusCode(response.getStatus()));
         InputStream is = response.getEntityInputStream();
         byte[] fileBytes = ByteStreams.toByteArray(is);
-        Assert.assertEquals(33691, fileBytes.length);
+        Assert.assertTrue(fileBytes.length > 0); // Images rendered from PDF differ in size from OS to OS due to font issues
+        Assert.assertEquals(MimeType.IMAGE_JPEG, MimeTypeUtil.guessMimeType(fileBytes));
     }
 }

docs-web/src/test/java/com/sismics/docs/rest/TestFileResource.java

@@ -1,6 +1,7 @@
 package com.sismics.docs.rest;
 
 import java.io.BufferedInputStream;
+import java.io.FileInputStream;
 import java.io.InputStream;
 import java.nio.file.Paths;
 
@@ -15,6 +16,8 @@ import org.junit.Test;
 import com.google.common.io.ByteStreams;
 import com.sismics.docs.core.util.DirectoryUtil;
 import com.sismics.docs.rest.filter.CookieAuthenticationFilter;
+import com.sismics.util.mime.MimeType;
+import com.sismics.util.mime.MimeTypeUtil;
 import com.sun.jersey.api.client.ClientResponse;
 import com.sun.jersey.api.client.ClientResponse.Status;
 import com.sun.jersey.api.client.WebResource;
@@ -88,6 +91,7 @@ public class TestFileResource extends BaseJerseyTest {
         Assert.assertEquals(Status.OK, Status.fromStatusCode(response.getStatus()));
         InputStream is = response.getEntityInputStream();
         byte[] fileBytes = ByteStreams.toByteArray(is);
+        Assert.assertEquals(MimeType.IMAGE_JPEG, MimeTypeUtil.guessMimeType(fileBytes));
         Assert.assertEquals(163510, fileBytes.length);
         
         // Get the thumbnail data
@@ -99,6 +103,7 @@ public class TestFileResource extends BaseJerseyTest {
         Assert.assertEquals(Status.OK, Status.fromStatusCode(response.getStatus()));
         is = response.getEntityInputStream();
         fileBytes = ByteStreams.toByteArray(is);
+        Assert.assertEquals(MimeType.IMAGE_JPEG, MimeTypeUtil.guessMimeType(fileBytes));
         Assert.assertEquals(41935, fileBytes.length);
         
         // Get the web data
@@ -110,45 +115,14 @@ public class TestFileResource extends BaseJerseyTest {
         Assert.assertEquals(Status.OK, Status.fromStatusCode(response.getStatus()));
         is = response.getEntityInputStream();
         fileBytes = ByteStreams.toByteArray(is);
+        Assert.assertEquals(MimeType.IMAGE_JPEG, MimeTypeUtil.guessMimeType(fileBytes));
         Assert.assertEquals(551084, fileBytes.length);
         
-        // Regenerate file variations
-        String adminAuthenticationToken = clientUtil.login("admin", "admin", false);
-        WebResource appResource = resource().path("/app/batch/file_variations");
-        appResource.addFilter(new CookieAuthenticationFilter(adminAuthenticationToken));
-        response = appResource.post(ClientResponse.class);
-        Assert.assertEquals(Status.OK, Status.fromStatusCode(response.getStatus()));
-        
-        // Get the file data
-        fileResource = resource().path("/file/" + file1Id + "/data");
-        fileResource.addFilter(new CookieAuthenticationFilter(file1AuthenticationToken));
-        response = fileResource.get(ClientResponse.class);
-        Assert.assertEquals(Status.OK, Status.fromStatusCode(response.getStatus()));
-        is = response.getEntityInputStream();
-        fileBytes = ByteStreams.toByteArray(is);
-        Assert.assertEquals(163510, fileBytes.length);
-        
-        // Get the thumbnail data
-        fileResource = resource().path("/file/" + file1Id + "/data");
-        fileResource.addFilter(new CookieAuthenticationFilter(file1AuthenticationToken));
-        getParams = new MultivaluedMapImpl();
-        getParams.putSingle("size", "thumb");
-        response = fileResource.queryParams(getParams).get(ClientResponse.class);
-        Assert.assertEquals(Status.OK, Status.fromStatusCode(response.getStatus()));
-        is = response.getEntityInputStream();
-        fileBytes = ByteStreams.toByteArray(is);
-        Assert.assertEquals(41935, fileBytes.length);
-        
-        // Get the web data
-        fileResource = resource().path("/file/" + file1Id + "/data");
-        fileResource.addFilter(new CookieAuthenticationFilter(file1AuthenticationToken));
-        getParams = new MultivaluedMapImpl();
-        getParams.putSingle("size", "web");
-        response = fileResource.queryParams(getParams).get(ClientResponse.class);
-        Assert.assertEquals(Status.OK, Status.fromStatusCode(response.getStatus()));
-        is = response.getEntityInputStream();
-        fileBytes = ByteStreams.toByteArray(is);
-        Assert.assertEquals(551084, fileBytes.length);
+        // Check that the files are not readable directly from FS
+        java.io.File storedFile = Paths.get(DirectoryUtil.getStorageDirectory().getPath(), file1Id).toFile();
+        InputStream storedFileInputStream = new BufferedInputStream(new FileInputStream(storedFile));
+        Assert.assertNull(MimeTypeUtil.guessMimeType(storedFileInputStream));
+        storedFileInputStream.close();
         
         // Get all files from a document
         fileResource = resource().path("/file/list");
@@ -195,7 +169,7 @@ public class TestFileResource extends BaseJerseyTest {
         Assert.assertEquals("ok", json.getString("status"));
         
         // Check that files are deleted from FS
-        java.io.File storedFile = Paths.get(DirectoryUtil.getStorageDirectory().getPath(), file1Id).toFile();
+        storedFile = Paths.get(DirectoryUtil.getStorageDirectory().getPath(), file1Id).toFile();
         java.io.File webFile = Paths.get(DirectoryUtil.getStorageDirectory().getPath(), file1Id + "_web").toFile();
         java.io.File thumbnailFile = Paths.get(DirectoryUtil.getStorageDirectory().getPath(), file1Id + "_thumb").toFile();
         Assert.assertFalse(storedFile.exists());

docs-web/src/test/resources/log4j.properties

@@ -7,3 +7,4 @@ log4j.appender.MEMORY.size=1000
 
 log4j.logger.com.sismics=DEBUG
 log4j.logger.org.hibernate=INFO
+log4j.logger.org.apache.pdfbox=INFO