Package com.gitblit.manager

Source Code of com.gitblit.manager.RepositoryManager

/*
* Copyright 2013 gitblit.com.
*
* 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.gitblit.manager;

import java.io.File;
import java.io.FileFilter;
import java.io.IOException;
import java.lang.reflect.Field;
import java.net.URI;
import java.net.URISyntaxException;
import java.text.MessageFormat;
import java.text.SimpleDateFormat;
import java.util.ArrayList;
import java.util.Arrays;
import java.util.Calendar;
import java.util.Collection;
import java.util.Collections;
import java.util.Date;
import java.util.HashSet;
import java.util.LinkedHashMap;
import java.util.LinkedHashSet;
import java.util.List;
import java.util.Map;
import java.util.Map.Entry;
import java.util.Set;
import java.util.TreeSet;
import java.util.concurrent.ConcurrentHashMap;
import java.util.concurrent.Executors;
import java.util.concurrent.ScheduledExecutorService;
import java.util.concurrent.TimeUnit;
import java.util.concurrent.atomic.AtomicInteger;
import java.util.concurrent.atomic.AtomicReference;

import org.eclipse.jgit.lib.Repository;
import org.eclipse.jgit.lib.RepositoryCache;
import org.eclipse.jgit.lib.RepositoryCache.FileKey;
import org.eclipse.jgit.lib.StoredConfig;
import org.eclipse.jgit.storage.file.FileBasedConfig;
import org.eclipse.jgit.storage.file.WindowCacheConfig;
import org.eclipse.jgit.util.FS;
import org.eclipse.jgit.util.FileUtils;
import org.slf4j.Logger;
import org.slf4j.LoggerFactory;

import com.gitblit.Constants;
import com.gitblit.Constants.AccessPermission;
import com.gitblit.Constants.AccessRestrictionType;
import com.gitblit.Constants.AuthorizationControl;
import com.gitblit.Constants.CommitMessageRenderer;
import com.gitblit.Constants.FederationStrategy;
import com.gitblit.Constants.PermissionType;
import com.gitblit.Constants.RegistrantType;
import com.gitblit.GitBlitException;
import com.gitblit.IStoredSettings;
import com.gitblit.Keys;
import com.gitblit.models.ForkModel;
import com.gitblit.models.Metric;
import com.gitblit.models.RefModel;
import com.gitblit.models.RegistrantAccessPermission;
import com.gitblit.models.RepositoryModel;
import com.gitblit.models.SearchResult;
import com.gitblit.models.TeamModel;
import com.gitblit.models.UserModel;
import com.gitblit.service.GarbageCollectorService;
import com.gitblit.service.LuceneService;
import com.gitblit.service.MirrorService;
import com.gitblit.utils.ArrayUtils;
import com.gitblit.utils.ByteFormat;
import com.gitblit.utils.CommitCache;
import com.gitblit.utils.DeepCopier;
import com.gitblit.utils.JGitUtils;
import com.gitblit.utils.JGitUtils.LastChange;
import com.gitblit.utils.MetricUtils;
import com.gitblit.utils.ModelUtils;
import com.gitblit.utils.ObjectCache;
import com.gitblit.utils.StringUtils;
import com.gitblit.utils.TimeUtils;

/**
* Repository manager creates, updates, deletes and caches git repositories.  It
* also starts services to mirror, index, and cleanup repositories.
*
* @author James Moger
*
*/
public class RepositoryManager implements IRepositoryManager {

  private final Logger logger = LoggerFactory.getLogger(getClass());

  private final ScheduledExecutorService scheduledExecutor = Executors.newScheduledThreadPool(5);

  private final ObjectCache<Long> repositorySizeCache = new ObjectCache<Long>();

  private final ObjectCache<List<Metric>> repositoryMetricsCache = new ObjectCache<List<Metric>>();

  private final Map<String, RepositoryModel> repositoryListCache = new ConcurrentHashMap<String, RepositoryModel>();

  private final AtomicReference<String> repositoryListSettingsChecksum = new AtomicReference<String>("");

  private final IStoredSettings settings;

  private final IRuntimeManager runtimeManager;

  private final IUserManager userManager;

  private final File repositoriesFolder;

  private LuceneService luceneExecutor;

  private GarbageCollectorService gcExecutor;

  private MirrorService mirrorExecutor;

  public RepositoryManager(
      IRuntimeManager runtimeManager,
      IUserManager userManager) {

    this.settings = runtimeManager.getSettings();
    this.runtimeManager = runtimeManager;
    this.userManager = userManager;
    this.repositoriesFolder = runtimeManager.getFileOrFolder(Keys.git.repositoriesFolder, "${baseFolder}/git");
  }

  @Override
  public RepositoryManager start() {
    logger.info("Repositories folder : {}", repositoriesFolder.getAbsolutePath());

    // initialize utilities
    String prefix = settings.getString(Keys.git.userRepositoryPrefix, "~");
    ModelUtils.setUserRepoPrefix(prefix);

    // calculate repository list settings checksum for future config changes
    repositoryListSettingsChecksum.set(getRepositoryListSettingsChecksum());

    // build initial repository list
    if (settings.getBoolean(Keys.git.cacheRepositoryList,  true)) {
      logger.info("Identifying repositories...");
      getRepositoryList();
    }

    configureLuceneIndexing();
    configureGarbageCollector();
    configureMirrorExecutor();
    configureJGit();
    configureCommitCache();

    confirmWriteAccess();

    return this;
  }

  @Override
  public RepositoryManager stop() {
    scheduledExecutor.shutdownNow();
    luceneExecutor.close();
    gcExecutor.close();
    mirrorExecutor.close();

    closeAll();
    return this;
  }

  /**
   * Returns the most recent change date of any repository served by Gitblit.
   *
   * @return a date
   */
  @Override
  public Date getLastActivityDate() {
    Date date = null;
    for (String name : getRepositoryList()) {
      Repository r = getRepository(name);
      Date lastChange = JGitUtils.getLastChange(r).when;
      r.close();
      if (lastChange != null && (date == null || lastChange.after(date))) {
        date = lastChange;
      }
    }
    return date;
  }

  /**
   * Returns the path of the repositories folder. This method checks to see if
   * Gitblit is running on a cloud service and may return an adjusted path.
   *
   * @return the repositories folder path
   */
  @Override
  public File getRepositoriesFolder() {
    return repositoriesFolder;
  }

  /**
   * Returns the path of the Groovy folder. This method checks to see if
   * Gitblit is running on a cloud service and may return an adjusted path.
   *
   * @return the Groovy scripts folder path
   */
  @Override
  public File getHooksFolder() {
    return runtimeManager.getFileOrFolder(Keys.groovy.scriptsFolder, "${baseFolder}/groovy");
  }

  /**
   * Returns the path of the Groovy Grape folder. This method checks to see if
   * Gitblit is running on a cloud service and may return an adjusted path.
   *
   * @return the Groovy Grape folder path
   */
  @Override
  public File getGrapesFolder() {
    return runtimeManager.getFileOrFolder(Keys.groovy.grapeFolder, "${baseFolder}/groovy/grape");
  }

  /**
   *
   * @return true if we are running the gc executor
   */
  @Override
  public boolean isCollectingGarbage() {
    return gcExecutor != null && gcExecutor.isRunning();
  }

  /**
   * Returns true if Gitblit is actively collecting garbage in this repository.
   *
   * @param repositoryName
   * @return true if actively collecting garbage
   */
  @Override
  public boolean isCollectingGarbage(String repositoryName) {
    return gcExecutor != null && gcExecutor.isCollectingGarbage(repositoryName);
  }

  /**
   * Returns the effective list of permissions for this user, taking into account
   * team memberships, ownerships.
   *
   * @param user
   * @return the effective list of permissions for the user
   */
  @Override
  public List<RegistrantAccessPermission> getUserAccessPermissions(UserModel user) {
    if (StringUtils.isEmpty(user.username)) {
      // new user
      return new ArrayList<RegistrantAccessPermission>();
    }
    Set<RegistrantAccessPermission> set = new LinkedHashSet<RegistrantAccessPermission>();
    set.addAll(user.getRepositoryPermissions());
    // Flag missing repositories
    for (RegistrantAccessPermission permission : set) {
      if (permission.mutable && PermissionType.EXPLICIT.equals(permission.permissionType)) {
        RepositoryModel rm = getRepositoryModel(permission.registrant);
        if (rm == null) {
          permission.permissionType = PermissionType.MISSING;
          permission.mutable = false;
          continue;
        }
      }
    }

    // TODO reconsider ownership as a user property
    // manually specify personal repository ownerships
    for (RepositoryModel rm : repositoryListCache.values()) {
      if (rm.isUsersPersonalRepository(user.username) || rm.isOwner(user.username)) {
        RegistrantAccessPermission rp = new RegistrantAccessPermission(rm.name, AccessPermission.REWIND,
            PermissionType.OWNER, RegistrantType.REPOSITORY, null, false);
        // user may be owner of a repository to which they've inherited
        // a team permission, replace any existing perm with owner perm
        set.remove(rp);
        set.add(rp);
      }
    }

    List<RegistrantAccessPermission> list = new ArrayList<RegistrantAccessPermission>(set);
    Collections.sort(list);
    return list;
  }

  /**
   * Returns the list of users and their access permissions for the specified
   * repository including permission source information such as the team or
   * regular expression which sets the permission.
   *
   * @param repository
   * @return a list of RegistrantAccessPermissions
   */
  @Override
  public List<RegistrantAccessPermission> getUserAccessPermissions(RepositoryModel repository) {
    List<RegistrantAccessPermission> list = new ArrayList<RegistrantAccessPermission>();
    if (AccessRestrictionType.NONE.equals(repository.accessRestriction)) {
      // no permissions needed, REWIND for everyone!
      return list;
    }
    if (AuthorizationControl.AUTHENTICATED.equals(repository.authorizationControl)) {
      // no permissions needed, REWIND for authenticated!
      return list;
    }
    // NAMED users and teams
    for (UserModel user : userManager.getAllUsers()) {
      RegistrantAccessPermission ap = user.getRepositoryPermission(repository);
      if (ap.permission.exceeds(AccessPermission.NONE)) {
        list.add(ap);
      }
    }
    return list;
  }

  /**
   * Sets the access permissions to the specified repository for the specified users.
   *
   * @param repository
   * @param permissions
   * @return true if the user models have been updated
   */
  @Override
  public boolean setUserAccessPermissions(RepositoryModel repository, Collection<RegistrantAccessPermission> permissions) {
    List<UserModel> users = new ArrayList<UserModel>();
    for (RegistrantAccessPermission up : permissions) {
      if (up.mutable) {
        // only set editable defined permissions
        UserModel user = userManager.getUserModel(up.registrant);
        user.setRepositoryPermission(repository.name, up.permission);
        users.add(user);
      }
    }
    return userManager.updateUserModels(users);
  }

  /**
   * Returns the list of all users who have an explicit access permission
   * for the specified repository.
   *
   * @see IUserService.getUsernamesForRepositoryRole(String)
   * @param repository
   * @return list of all usernames that have an access permission for the repository
   */
  @Override
  public List<String> getRepositoryUsers(RepositoryModel repository) {
    return userManager.getUsernamesForRepositoryRole(repository.name);
  }

  /**
   * Returns the list of teams and their access permissions for the specified
   * repository including the source of the permission such as the admin flag
   * or a regular expression.
   *
   * @param repository
   * @return a list of RegistrantAccessPermissions
   */
  @Override
  public List<RegistrantAccessPermission> getTeamAccessPermissions(RepositoryModel repository) {
    List<RegistrantAccessPermission> list = new ArrayList<RegistrantAccessPermission>();
    for (TeamModel team : userManager.getAllTeams()) {
      RegistrantAccessPermission ap = team.getRepositoryPermission(repository);
      if (ap.permission.exceeds(AccessPermission.NONE)) {
        list.add(ap);
      }
    }
    Collections.sort(list);
    return list;
  }

  /**
   * Sets the access permissions to the specified repository for the specified teams.
   *
   * @param repository
   * @param permissions
   * @return true if the team models have been updated
   */
  @Override
  public boolean setTeamAccessPermissions(RepositoryModel repository, Collection<RegistrantAccessPermission> permissions) {
    List<TeamModel> teams = new ArrayList<TeamModel>();
    for (RegistrantAccessPermission tp : permissions) {
      if (tp.mutable) {
        // only set explicitly defined access permissions
        TeamModel team = userManager.getTeamModel(tp.registrant);
        team.setRepositoryPermission(repository.name, tp.permission);
        teams.add(team);
      }
    }
    return userManager.updateTeamModels(teams);
  }

  /**
   * Returns the list of all teams who have an explicit access permission for
   * the specified repository.
   *
   * @see IUserService.getTeamnamesForRepositoryRole(String)
   * @param repository
   * @return list of all teamnames with explicit access permissions to the repository
   */
  @Override
  public List<String> getRepositoryTeams(RepositoryModel repository) {
    return userManager.getTeamNamesForRepositoryRole(repository.name);
  }

  /**
   * Adds the repository to the list of cached repositories if Gitblit is
   * configured to cache the repository list.
   *
   * @param model
   */
  @Override
  public void addToCachedRepositoryList(RepositoryModel model) {
    if (settings.getBoolean(Keys.git.cacheRepositoryList, true)) {
      repositoryListCache.put(model.name.toLowerCase(), model);

      // update the fork origin repository with this repository clone
      if (!StringUtils.isEmpty(model.originRepository)) {
        String originKey = model.originRepository.toLowerCase();
        if (repositoryListCache.containsKey(originKey)) {
          RepositoryModel origin = repositoryListCache.get(originKey);
          origin.addFork(model.name);
        }
      }
    }
  }

  /**
   * Removes the repository from the list of cached repositories.
   *
   * @param name
   * @return the model being removed
   */
  private RepositoryModel removeFromCachedRepositoryList(String name) {
    if (StringUtils.isEmpty(name)) {
      return null;
    }
    return repositoryListCache.remove(name.toLowerCase());
  }

  /**
   * Clears all the cached metadata for the specified repository.
   *
   * @param repositoryName
   */
  private void clearRepositoryMetadataCache(String repositoryName) {
    repositorySizeCache.remove(repositoryName);
    repositoryMetricsCache.remove(repositoryName);
    CommitCache.instance().clear(repositoryName);
  }

  /**
   * Reset all caches for this repository.
   *
   * @param repositoryName
   * @since 1.5.1
   */
  @Override
  public void resetRepositoryCache(String repositoryName) {
    removeFromCachedRepositoryList(repositoryName);
    clearRepositoryMetadataCache(repositoryName);
  }

  /**
   * Resets the repository list cache.
   *
   */
  @Override
  public void resetRepositoryListCache() {
    logger.info("Repository cache manually reset");
    repositoryListCache.clear();
    repositorySizeCache.clear();
    repositoryMetricsCache.clear();
    CommitCache.instance().clear();
  }

  /**
   * Calculate the checksum of settings that affect the repository list cache.
   * @return a checksum
   */
  private String getRepositoryListSettingsChecksum() {
    StringBuilder ns = new StringBuilder();
    ns.append(settings.getString(Keys.git.cacheRepositoryList, "")).append('\n');
    ns.append(settings.getString(Keys.git.onlyAccessBareRepositories, "")).append('\n');
    ns.append(settings.getString(Keys.git.searchRepositoriesSubfolders, "")).append('\n');
    ns.append(settings.getString(Keys.git.searchRecursionDepth, "")).append('\n');
    ns.append(settings.getString(Keys.git.searchExclusions, "")).append('\n');
    String checksum = StringUtils.getSHA1(ns.toString());
    return checksum;
  }

  /**
   * Compare the last repository list setting checksum to the current checksum.
   * If different then clear the cache so that it may be rebuilt.
   *
   * @return true if the cached repository list is valid since the last check
   */
  private boolean isValidRepositoryList() {
    String newChecksum = getRepositoryListSettingsChecksum();
    boolean valid = newChecksum.equals(repositoryListSettingsChecksum.get());
    repositoryListSettingsChecksum.set(newChecksum);
    if (!valid && settings.getBoolean(Keys.git.cacheRepositoryList,  true)) {
      logger.info("Repository list settings have changed. Clearing repository list cache.");
      repositoryListCache.clear();
    }
    return valid;
  }

  /**
   * Returns the list of all repositories available to Gitblit. This method
   * does not consider user access permissions.
   *
   * @return list of all repositories
   */
  @Override
  public List<String> getRepositoryList() {
    if (repositoryListCache.size() == 0 || !isValidRepositoryList()) {
      // we are not caching OR we have not yet cached OR the cached list is invalid
      long startTime = System.currentTimeMillis();
      List<String> repositories = JGitUtils.getRepositoryList(repositoriesFolder,
          settings.getBoolean(Keys.git.onlyAccessBareRepositories, false),
          settings.getBoolean(Keys.git.searchRepositoriesSubfolders, true),
          settings.getInteger(Keys.git.searchRecursionDepth, -1),
          settings.getStrings(Keys.git.searchExclusions));

      if (!settings.getBoolean(Keys.git.cacheRepositoryList,  true)) {
        // we are not caching
        StringUtils.sortRepositorynames(repositories);
        return repositories;
      } else {
        // we are caching this list
        String msg = "{0} repositories identified in {1} msecs";
        if (settings.getBoolean(Keys.web.showRepositorySizes, true)) {
          // optionally (re)calculate repository sizes
          msg = "{0} repositories identified with calculated folder sizes in {1} msecs";
        }

        for (String repository : repositories) {
          getRepositoryModel(repository);
        }

        // rebuild fork networks
        for (RepositoryModel model : repositoryListCache.values()) {
          if (!StringUtils.isEmpty(model.originRepository)) {
            String originKey = model.originRepository.toLowerCase();
            if (repositoryListCache.containsKey(originKey)) {
              RepositoryModel origin = repositoryListCache.get(originKey);
              origin.addFork(model.name);
            }
          }
        }

        long duration = System.currentTimeMillis() - startTime;
        logger.info(MessageFormat.format(msg, repositoryListCache.size(), duration));
      }
    }

    // return sorted copy of cached list
    List<String> list = new ArrayList<String>();
    for (RepositoryModel model : repositoryListCache.values()) {
      list.add(model.name);
    }
    StringUtils.sortRepositorynames(list);
    return list;
  }

  /**
   * Returns the JGit repository for the specified name.
   *
   * @param repositoryName
   * @return repository or null
   */
  @Override
  public Repository getRepository(String repositoryName) {
    return getRepository(repositoryName, true);
  }

  /**
   * Returns the JGit repository for the specified name.
   *
   * @param repositoryName
   * @param logError
   * @return repository or null
   */
  @Override
  public Repository getRepository(String repositoryName, boolean logError) {
    // Decode url-encoded repository name (issue-278)
    // http://stackoverflow.com/questions/17183110
    repositoryName = repositoryName.replace("%7E", "~").replace("%7e", "~");

    if (isCollectingGarbage(repositoryName)) {
      logger.warn(MessageFormat.format("Rejecting request for {0}, busy collecting garbage!", repositoryName));
      return null;
    }

    File dir = FileKey.resolve(new File(repositoriesFolder, repositoryName), FS.DETECTED);
    if (dir == null)
      return null;

    Repository r = null;
    try {
      FileKey key = FileKey.exact(dir, FS.DETECTED);
      r = RepositoryCache.open(key, true);
    } catch (IOException e) {
      if (logError) {
        logger.error("GitBlit.getRepository(String) failed to find "
            + new File(repositoriesFolder, repositoryName).getAbsolutePath());
      }
    }
    return r;
  }

  /**
   * Returns the list of repository models that are accessible to the user.
   *
   * @param user
   * @return list of repository models accessible to user
   */
  @Override
  public List<RepositoryModel> getRepositoryModels(UserModel user) {
    long methodStart = System.currentTimeMillis();
    List<String> list = getRepositoryList();
    List<RepositoryModel> repositories = new ArrayList<RepositoryModel>();
    for (String repo : list) {
      RepositoryModel model = getRepositoryModel(user, repo);
      if (model != null) {
        if (!model.hasCommits) {
          // only add empty repositories that user can push to
          if (UserModel.ANONYMOUS.canPush(model)
              || user != null && user.canPush(model)) {
            repositories.add(model);
          }
        } else {
          repositories.add(model);
        }
      }
    }
    long duration = System.currentTimeMillis() - methodStart;
    logger.info(MessageFormat.format("{0} repository models loaded for {1} in {2} msecs",
        repositories.size(), user == null ? "anonymous" : user.username, duration));
    return repositories;
  }

  /**
   * Returns a repository model if the repository exists and the user may
   * access the repository.
   *
   * @param user
   * @param repositoryName
   * @return repository model or null
   */
  @Override
  public RepositoryModel getRepositoryModel(UserModel user, String repositoryName) {
    RepositoryModel model = getRepositoryModel(repositoryName);
    if (model == null) {
      return null;
    }
    if (user == null) {
      user = UserModel.ANONYMOUS;
    }
    if (user.canView(model)) {
      return model;
    }
    return null;
  }

  /**
   * Returns the repository model for the specified repository. This method
   * does not consider user access permissions.
   *
   * @param repositoryName
   * @return repository model or null
   */
  @Override
  public RepositoryModel getRepositoryModel(String repositoryName) {
    // Decode url-encoded repository name (issue-278)
    // http://stackoverflow.com/questions/17183110
    repositoryName = repositoryName.replace("%7E", "~").replace("%7e", "~");

    if (!repositoryListCache.containsKey(repositoryName)) {
      RepositoryModel model = loadRepositoryModel(repositoryName);
      if (model == null) {
        return null;
      }
      addToCachedRepositoryList(model);
      return DeepCopier.copy(model);
    }

    // cached model
    RepositoryModel model = repositoryListCache.get(repositoryName.toLowerCase());

    if (gcExecutor.isCollectingGarbage(model.name)) {
      // Gitblit is busy collecting garbage, use our cached model
      RepositoryModel rm = DeepCopier.copy(model);
      rm.isCollectingGarbage = true;
      return rm;
    }

    // check for updates
    Repository r = getRepository(model.name);
    if (r == null) {
      // repository is missing
      removeFromCachedRepositoryList(repositoryName);
      logger.error(MessageFormat.format("Repository \"{0}\" is missing! Removing from cache.", repositoryName));
      return null;
    }

    FileBasedConfig config = (FileBasedConfig) getRepositoryConfig(r);
    if (config.isOutdated()) {
      // reload model
      logger.debug(MessageFormat.format("Config for \"{0}\" has changed. Reloading model and updating cache.", repositoryName));
      model = loadRepositoryModel(model.name);
      removeFromCachedRepositoryList(model.name);
      addToCachedRepositoryList(model);
    } else {
      // update a few repository parameters
      if (!model.hasCommits) {
        // update hasCommits, assume a repository only gains commits :)
        model.hasCommits = JGitUtils.hasCommits(r);
      }

      updateLastChangeFields(r, model);
    }
    r.close();

    // return a copy of the cached model
    return DeepCopier.copy(model);
  }

  /**
   * Returns the star count of the repository.
   *
   * @param repository
   * @return the star count
   */
  @Override
  public long getStarCount(RepositoryModel repository) {
    long count = 0;
    for (UserModel user : userManager.getAllUsers()) {
      if (user.getPreferences().isStarredRepository(repository.name)) {
        count++;
      }
    }
    return count;
  }

  /**
   * Workaround JGit.  I need to access the raw config object directly in order
   * to see if the config is dirty so that I can reload a repository model.
   * If I use the stock JGit method to get the config it already reloads the
   * config.  If the config changes are made within Gitblit this is fine as
   * the returned config will still be flagged as dirty.  BUT... if the config
   * is manipulated outside Gitblit then it fails to recognize this as dirty.
   *
   * @param r
   * @return a config
   */
  private StoredConfig getRepositoryConfig(Repository r) {
    try {
      Field f = r.getClass().getDeclaredField("repoConfig");
      f.setAccessible(true);
      StoredConfig config = (StoredConfig) f.get(r);
      return config;
    } catch (Exception e) {
      logger.error("Failed to retrieve \"repoConfig\" via reflection", e);
    }
    return r.getConfig();
  }

  /**
   * Create a repository model from the configuration and repository data.
   *
   * @param repositoryName
   * @return a repositoryModel or null if the repository does not exist
   */
  private RepositoryModel loadRepositoryModel(String repositoryName) {
    Repository r = getRepository(repositoryName);
    if (r == null) {
      return null;
    }
    RepositoryModel model = new RepositoryModel();
    model.isBare = r.isBare();
    File basePath = getRepositoriesFolder();
    if (model.isBare) {
      model.name = com.gitblit.utils.FileUtils.getRelativePath(basePath, r.getDirectory());
    } else {
      model.name = com.gitblit.utils.FileUtils.getRelativePath(basePath, r.getDirectory().getParentFile());
    }
    if (StringUtils.isEmpty(model.name)) {
      // Repository is NOT located relative to the base folder because it
      // is symlinked.  Use the provided repository name.
      model.name = repositoryName;
    }
    model.projectPath = StringUtils.getFirstPathElement(repositoryName);

    StoredConfig config = r.getConfig();
    boolean hasOrigin = false;

    if (config != null) {
      // Initialize description from description file
      hasOrigin = !StringUtils.isEmpty(config.getString("remote", "origin", "url"));
      if (getConfig(config,"description", null) == null) {
        File descFile = new File(r.getDirectory(), "description");
        if (descFile.exists()) {
          String desc = com.gitblit.utils.FileUtils.readContent(descFile, System.getProperty("line.separator"));
          if (!desc.toLowerCase().startsWith("unnamed repository")) {
            config.setString(Constants.CONFIG_GITBLIT, null, "description", desc);
          }
        }
      }
      model.description = getConfig(config, "description", "");
      model.originRepository = getConfig(config, "originRepository", null);
      model.addOwners(ArrayUtils.fromString(getConfig(config, "owner", "")));
      model.acceptNewPatchsets = getConfig(config, "acceptNewPatchsets", true);
      model.acceptNewTickets = getConfig(config, "acceptNewTickets", true);
      model.requireApproval = getConfig(config, "requireApproval", settings.getBoolean(Keys.tickets.requireApproval, false));
      model.mergeTo = getConfig(config, "mergeTo", null);
      model.useIncrementalPushTags = getConfig(config, "useIncrementalPushTags", false);
      model.incrementalPushTagPrefix = getConfig(config, "incrementalPushTagPrefix", null);
      model.allowForks = getConfig(config, "allowForks", true);
      model.accessRestriction = AccessRestrictionType.fromName(getConfig(config,
          "accessRestriction", settings.getString(Keys.git.defaultAccessRestriction, "PUSH")));
      model.authorizationControl = AuthorizationControl.fromName(getConfig(config,
          "authorizationControl", settings.getString(Keys.git.defaultAuthorizationControl, null)));
      model.verifyCommitter = getConfig(config, "verifyCommitter", false);
      model.showRemoteBranches = getConfig(config, "showRemoteBranches", hasOrigin);
      model.isFrozen = getConfig(config, "isFrozen", false);
      model.skipSizeCalculation = getConfig(config, "skipSizeCalculation", false);
      model.skipSummaryMetrics = getConfig(config, "skipSummaryMetrics", false);
      model.commitMessageRenderer = CommitMessageRenderer.fromName(getConfig(config, "commitMessageRenderer",
          settings.getString(Keys.web.commitMessageRenderer, null)));
      model.federationStrategy = FederationStrategy.fromName(getConfig(config,
          "federationStrategy", null));
      model.federationSets = new ArrayList<String>(Arrays.asList(config.getStringList(
          Constants.CONFIG_GITBLIT, null, "federationSets")));
      model.isFederated = getConfig(config, "isFederated", false);
      model.gcThreshold = getConfig(config, "gcThreshold", settings.getString(Keys.git.defaultGarbageCollectionThreshold, "500KB"));
      model.gcPeriod = getConfig(config, "gcPeriod", settings.getInteger(Keys.git.defaultGarbageCollectionPeriod, 7));
      try {
        model.lastGC = new SimpleDateFormat(Constants.ISO8601).parse(getConfig(config, "lastGC", "1970-01-01'T'00:00:00Z"));
      } catch (Exception e) {
        model.lastGC = new Date(0);
      }
      model.maxActivityCommits = getConfig(config, "maxActivityCommits", settings.getInteger(Keys.web.maxActivityCommits, 0));
      model.origin = config.getString("remote", "origin", "url");
      if (model.origin != null) {
        model.origin = model.origin.replace('\\', '/');
        model.isMirror = config.getBoolean("remote", "origin", "mirror", false);
      }
      model.preReceiveScripts = new ArrayList<String>(Arrays.asList(config.getStringList(
          Constants.CONFIG_GITBLIT, null, "preReceiveScript")));
      model.postReceiveScripts = new ArrayList<String>(Arrays.asList(config.getStringList(
          Constants.CONFIG_GITBLIT, null, "postReceiveScript")));
      model.mailingLists = new ArrayList<String>(Arrays.asList(config.getStringList(
          Constants.CONFIG_GITBLIT, null, "mailingList")));
      model.indexedBranches = new ArrayList<String>(Arrays.asList(config.getStringList(
          Constants.CONFIG_GITBLIT, null, "indexBranch")));
      model.metricAuthorExclusions = new ArrayList<String>(Arrays.asList(config.getStringList(
          Constants.CONFIG_GITBLIT, null, "metricAuthorExclusions")));

      // Custom defined properties
      model.customFields = new LinkedHashMap<String, String>();
      for (String aProperty : config.getNames(Constants.CONFIG_GITBLIT, Constants.CONFIG_CUSTOM_FIELDS)) {
        model.customFields.put(aProperty, config.getString(Constants.CONFIG_GITBLIT, Constants.CONFIG_CUSTOM_FIELDS, aProperty));
      }
    }
    model.HEAD = JGitUtils.getHEADRef(r);
    if (StringUtils.isEmpty(model.mergeTo)) {
      model.mergeTo = model.HEAD;
    }
    model.availableRefs = JGitUtils.getAvailableHeadTargets(r);
    model.sparkleshareId = JGitUtils.getSparkleshareId(r);
    model.hasCommits = JGitUtils.hasCommits(r);
    updateLastChangeFields(r, model);
    r.close();

    if (StringUtils.isEmpty(model.originRepository) && model.origin != null && model.origin.startsWith("file://")) {
      // repository was cloned locally... perhaps as a fork
      try {
        File folder = new File(new URI(model.origin));
        String originRepo = com.gitblit.utils.FileUtils.getRelativePath(getRepositoriesFolder(), folder);
        if (!StringUtils.isEmpty(originRepo)) {
          // ensure origin still exists
          File repoFolder = new File(getRepositoriesFolder(), originRepo);
          if (repoFolder.exists()) {
            model.originRepository = originRepo.toLowerCase();

            // persist the fork origin
            updateConfiguration(r, model);
          }
        }
      } catch (URISyntaxException e) {
        logger.error("Failed to determine fork for " + model, e);
      }
    }
    return model;
  }

  /**
   * Determines if this server has the requested repository.
   *
   * @param n
   * @return true if the repository exists
   */
  @Override
  public boolean hasRepository(String repositoryName) {
    return hasRepository(repositoryName, false);
  }

  /**
   * Determines if this server has the requested repository.
   *
   * @param n
   * @param caseInsensitive
   * @return true if the repository exists
   */
  @Override
  public boolean hasRepository(String repositoryName, boolean caseSensitiveCheck) {
    if (!caseSensitiveCheck && settings.getBoolean(Keys.git.cacheRepositoryList, true)) {
      // if we are caching use the cache to determine availability
      // otherwise we end up adding a phantom repository to the cache
      return repositoryListCache.containsKey(repositoryName.toLowerCase());
    }
    Repository r = getRepository(repositoryName, false);
    if (r == null) {
      return false;
    }
    r.close();
    return true;
  }

  /**
   * Determines if the specified user has a fork of the specified origin
   * repository.
   *
   * @param username
   * @param origin
   * @return true the if the user has a fork
   */
  @Override
  public boolean hasFork(String username, String origin) {
    return getFork(username, origin) != null;
  }

  /**
   * Gets the name of a user's fork of the specified origin
   * repository.
   *
   * @param username
   * @param origin
   * @return the name of the user's fork, null otherwise
   */
  @Override
  public String getFork(String username, String origin) {
    if (StringUtils.isEmpty(origin)) {
      return null;
    }
    String userProject = ModelUtils.getPersonalPath(username);
    if (settings.getBoolean(Keys.git.cacheRepositoryList, true)) {
      String originKey = origin.toLowerCase();
      String userPath = userProject + "/";

      // collect all origin nodes in fork network
      Set<String> roots = new HashSet<String>();
      roots.add(originKey);
      RepositoryModel originModel = repositoryListCache.get(originKey);
      while (originModel != null) {
        if (!ArrayUtils.isEmpty(originModel.forks)) {
          for (String fork : originModel.forks) {
            if (!fork.startsWith(userPath)) {
              roots.add(fork.toLowerCase());
            }
          }
        }

        if (originModel.originRepository != null) {
          String ooKey = originModel.originRepository.toLowerCase();
          roots.add(ooKey);
          originModel = repositoryListCache.get(ooKey);
        } else {
          // break
          originModel = null;
        }
      }

      for (String repository : repositoryListCache.keySet()) {
        if (repository.startsWith(userPath)) {
          RepositoryModel model = repositoryListCache.get(repository);
          if (!StringUtils.isEmpty(model.originRepository)) {
            if (roots.contains(model.originRepository.toLowerCase())) {
              // user has a fork in this graph
              return model.name;
            }
          }
        }
      }
    } else {
      // not caching
      File subfolder = new File(getRepositoriesFolder(), userProject);
      List<String> repositories = JGitUtils.getRepositoryList(subfolder,
          settings.getBoolean(Keys.git.onlyAccessBareRepositories, false),
          settings.getBoolean(Keys.git.searchRepositoriesSubfolders, true),
          settings.getInteger(Keys.git.searchRecursionDepth, -1),
          settings.getStrings(Keys.git.searchExclusions));
      for (String repository : repositories) {
        RepositoryModel model = getRepositoryModel(userProject + "/" + repository);
        if (model.originRepository != null && model.originRepository.equalsIgnoreCase(origin)) {
          // user has a fork
          return model.name;
        }
      }
    }
    // user does not have a fork
    return null;
  }

  /**
   * Returns the fork network for a repository by traversing up the fork graph
   * to discover the root and then down through all children of the root node.
   *
   * @param repository
   * @return a ForkModel
   */
  @Override
  public ForkModel getForkNetwork(String repository) {
    if (settings.getBoolean(Keys.git.cacheRepositoryList, true)) {
      // find the root, cached
      RepositoryModel model = repositoryListCache.get(repository.toLowerCase());
      while (model.originRepository != null) {
        model = repositoryListCache.get(model.originRepository.toLowerCase());
      }
      ForkModel root = getForkModelFromCache(model.name);
      return root;
    } else {
      // find the root, non-cached
      RepositoryModel model = getRepositoryModel(repository.toLowerCase());
      while (model.originRepository != null) {
        model = getRepositoryModel(model.originRepository);
      }
      ForkModel root = getForkModel(model.name);
      return root;
    }
  }

  private ForkModel getForkModelFromCache(String repository) {
    RepositoryModel model = repositoryListCache.get(repository.toLowerCase());
    if (model == null) {
      return null;
    }
    ForkModel fork = new ForkModel(model);
    if (!ArrayUtils.isEmpty(model.forks)) {
      for (String aFork : model.forks) {
        ForkModel fm = getForkModelFromCache(aFork);
        if (fm != null) {
          fork.forks.add(fm);
        }
      }
    }
    return fork;
  }

  private ForkModel getForkModel(String repository) {
    RepositoryModel model = getRepositoryModel(repository.toLowerCase());
    if (model == null) {
      return null;
    }
    ForkModel fork = new ForkModel(model);
    if (!ArrayUtils.isEmpty(model.forks)) {
      for (String aFork : model.forks) {
        ForkModel fm = getForkModel(aFork);
        if (fm != null) {
          fork.forks.add(fm);
        }
      }
    }
    return fork;
  }

  /**
   * Updates the last changed fields and optionally calculates the size of the
   * repository.  Gitblit caches the repository sizes to reduce the performance
   * penalty of recursive calculation. The cache is updated if the repository
   * has been changed since the last calculation.
   *
   * @param model
   * @return size in bytes of the repository
   */
  @Override
  public long updateLastChangeFields(Repository r, RepositoryModel model) {
    LastChange lc = JGitUtils.getLastChange(r);
    model.lastChange = lc.when;
    model.lastChangeAuthor = lc.who;

    if (!settings.getBoolean(Keys.web.showRepositorySizes, true) || model.skipSizeCalculation) {
      model.size = null;
      return 0L;
    }
    if (!repositorySizeCache.hasCurrent(model.name, model.lastChange)) {
      File gitDir = r.getDirectory();
      long sz = com.gitblit.utils.FileUtils.folderSize(gitDir);
      repositorySizeCache.updateObject(model.name, model.lastChange, sz);
    }
    long size = repositorySizeCache.getObject(model.name);
    ByteFormat byteFormat = new ByteFormat();
    model.size = byteFormat.format(size);
    return size;
  }

  /**
   * Returns true if the repository is idle (not being accessed).
   *
   * @param repository
   * @return true if the repository is idle
   */
  @Override
  public boolean isIdle(Repository repository) {
    try {
      // Read the use count.
      // An idle use count is 2:
      // +1 for being in the cache
      // +1 for the repository parameter in this method
      Field useCnt = Repository.class.getDeclaredField("useCnt");
      useCnt.setAccessible(true);
      int useCount = ((AtomicInteger) useCnt.get(repository)).get();
      return useCount == 2;
    } catch (Exception e) {
      logger.warn(MessageFormat
          .format("Failed to reflectively determine use count for repository {0}",
              repository.getDirectory().getPath()), e);
    }
    return false;
  }

  /**
   * Ensures that all cached repository are completely closed and their resources
   * are properly released.
   */
  @Override
  public void closeAll() {
    for (String repository : getRepositoryList()) {
      close(repository);
    }
  }

  /**
   * Ensure that a cached repository is completely closed and its resources
   * are properly released.
   *
   * @param repositoryName
   */
  @Override
  public void close(String repositoryName) {
    Repository repository = getRepository(repositoryName);
    if (repository == null) {
      return;
    }
    RepositoryCache.close(repository);

    // assume 2 uses in case reflection fails
    int uses = 2;
    try {
      // The FileResolver caches repositories which is very useful
      // for performance until you want to delete a repository.
      // I have to use reflection to call close() the correct
      // number of times to ensure that the object and ref databases
      // are properly closed before I can delete the repository from
      // the filesystem.
      Field useCnt = Repository.class.getDeclaredField("useCnt");
      useCnt.setAccessible(true);
      uses = ((AtomicInteger) useCnt.get(repository)).get();
    } catch (Exception e) {
      logger.warn(MessageFormat
          .format("Failed to reflectively determine use count for repository {0}",
              repositoryName), e);
    }
    if (uses > 0) {
      logger.debug(MessageFormat
          .format("{0}.useCnt={1}, calling close() {2} time(s) to close object and ref databases",
              repositoryName, uses, uses));
      for (int i = 0; i < uses; i++) {
        repository.close();
      }
    }

    // close any open index writer/searcher in the Lucene executor
    luceneExecutor.close(repositoryName);
  }

  /**
   * Returns the metrics for the default branch of the specified repository.
   * This method builds a metrics cache. The cache is updated if the
   * repository is updated. A new copy of the metrics list is returned on each
   * call so that modifications to the list are non-destructive.
   *
   * @param model
   * @param repository
   * @return a new array list of metrics
   */
  @Override
  public List<Metric> getRepositoryDefaultMetrics(RepositoryModel model, Repository repository) {
    if (repositoryMetricsCache.hasCurrent(model.name, model.lastChange)) {
      return new ArrayList<Metric>(repositoryMetricsCache.getObject(model.name));
    }
    List<Metric> metrics = MetricUtils.getDateMetrics(repository, null, true, null, runtimeManager.getTimezone());
    repositoryMetricsCache.updateObject(model.name, model.lastChange, metrics);
    return new ArrayList<Metric>(metrics);
  }

  /**
   * Returns the gitblit string value for the specified key. If key is not
   * set, returns defaultValue.
   *
   * @param config
   * @param field
   * @param defaultValue
   * @return field value or defaultValue
   */
  private String getConfig(StoredConfig config, String field, String defaultValue) {
    String value = config.getString(Constants.CONFIG_GITBLIT, null, field);
    if (StringUtils.isEmpty(value)) {
      return defaultValue;
    }
    return value;
  }

  /**
   * Returns the gitblit boolean value for the specified key. If key is not
   * set, returns defaultValue.
   *
   * @param config
   * @param field
   * @param defaultValue
   * @return field value or defaultValue
   */
  private boolean getConfig(StoredConfig config, String field, boolean defaultValue) {
    return config.getBoolean(Constants.CONFIG_GITBLIT, field, defaultValue);
  }

  /**
   * Returns the gitblit string value for the specified key. If key is not
   * set, returns defaultValue.
   *
   * @param config
   * @param field
   * @param defaultValue
   * @return field value or defaultValue
   */
  private int getConfig(StoredConfig config, String field, int defaultValue) {
    String value = config.getString(Constants.CONFIG_GITBLIT, null, field);
    if (StringUtils.isEmpty(value)) {
      return defaultValue;
    }
    try {
      return Integer.parseInt(value);
    } catch (Exception e) {
    }
    return defaultValue;
  }

  /**
   * Creates/updates the repository model keyed by reopsitoryName. Saves all
   * repository settings in .git/config. This method allows for renaming
   * repositories and will update user access permissions accordingly.
   *
   * All repositories created by this method are bare and automatically have
   * .git appended to their names, which is the standard convention for bare
   * repositories.
   *
   * @param repositoryName
   * @param repository
   * @param isCreate
   * @throws GitBlitException
   */
  @Override
  public void updateRepositoryModel(String repositoryName, RepositoryModel repository,
      boolean isCreate) throws GitBlitException {
    if (gcExecutor.isCollectingGarbage(repositoryName)) {
      throw new GitBlitException(MessageFormat.format("sorry, Gitblit is busy collecting garbage in {0}",
          repositoryName));
    }
    Repository r = null;
    String projectPath = StringUtils.getFirstPathElement(repository.name);
    if (!StringUtils.isEmpty(projectPath)) {
      if (projectPath.equalsIgnoreCase(settings.getString(Keys.web.repositoryRootGroupName, "main"))) {
        // strip leading group name
        repository.name = repository.name.substring(projectPath.length() + 1);
      }
    }
    if (isCreate) {
      // ensure created repository name ends with .git
      if (!repository.name.toLowerCase().endsWith(org.eclipse.jgit.lib.Constants.DOT_GIT_EXT)) {
        repository.name += org.eclipse.jgit.lib.Constants.DOT_GIT_EXT;
      }
      if (hasRepository(repository.name)) {
        throw new GitBlitException(MessageFormat.format(
            "Can not create repository ''{0}'' because it already exists.",
            repository.name));
      }
      // create repository
      logger.info("create repository " + repository.name);
      String shared = settings.getString(Keys.git.createRepositoriesShared, "FALSE");
      r = JGitUtils.createRepository(repositoriesFolder, repository.name, shared);
    } else {
      // rename repository
      if (!repositoryName.equalsIgnoreCase(repository.name)) {
        if (!repository.name.toLowerCase().endsWith(
            org.eclipse.jgit.lib.Constants.DOT_GIT_EXT)) {
          repository.name += org.eclipse.jgit.lib.Constants.DOT_GIT_EXT;
        }
        if (new File(repositoriesFolder, repository.name).exists()) {
          throw new GitBlitException(MessageFormat.format(
              "Failed to rename ''{0}'' because ''{1}'' already exists.",
              repositoryName, repository.name));
        }
        close(repositoryName);
        File folder = new File(repositoriesFolder, repositoryName);
        File destFolder = new File(repositoriesFolder, repository.name);
        if (destFolder.exists()) {
          throw new GitBlitException(
              MessageFormat
                  .format("Can not rename repository ''{0}'' to ''{1}'' because ''{1}'' already exists.",
                      repositoryName, repository.name));
        }
        File parentFile = destFolder.getParentFile();
        if (!parentFile.exists() && !parentFile.mkdirs()) {
          throw new GitBlitException(MessageFormat.format(
              "Failed to create folder ''{0}''", parentFile.getAbsolutePath()));
        }
        if (!folder.renameTo(destFolder)) {
          throw new GitBlitException(MessageFormat.format(
              "Failed to rename repository ''{0}'' to ''{1}''.", repositoryName,
              repository.name));
        }
        // rename the roles
        if (!userManager.renameRepositoryRole(repositoryName, repository.name)) {
          throw new GitBlitException(MessageFormat.format(
              "Failed to rename repository permissions ''{0}'' to ''{1}''.",
              repositoryName, repository.name));
        }

        // rename fork origins in their configs
        if (!ArrayUtils.isEmpty(repository.forks)) {
          for (String fork : repository.forks) {
            Repository rf = getRepository(fork);
            try {
              StoredConfig config = rf.getConfig();
              String origin = config.getString("remote", "origin", "url");
              origin = origin.replace(repositoryName, repository.name);
              config.setString("remote", "origin", "url", origin);
              config.setString(Constants.CONFIG_GITBLIT, null, "originRepository", repository.name);
              config.save();
            } catch (Exception e) {
              logger.error("Failed to update repository fork config for " + fork, e);
            }
            rf.close();
          }
        }

        // update this repository's origin's fork list
        if (!StringUtils.isEmpty(repository.originRepository)) {
          RepositoryModel origin = repositoryListCache.get(repository.originRepository.toLowerCase());
          if (origin != null && !ArrayUtils.isEmpty(origin.forks)) {
            origin.forks.remove(repositoryName);
            origin.forks.add(repository.name);
          }
        }

        // clear the cache
        clearRepositoryMetadataCache(repositoryName);
        repository.resetDisplayName();
      }

      // load repository
      logger.info("edit repository " + repository.name);
      r = getRepository(repository.name);
    }

    // update settings
    if (r != null) {
      updateConfiguration(r, repository);
      // Update the description file
      File descFile = new File(r.getDirectory(), "description");
      if (repository.description != null)
      {
        com.gitblit.utils.FileUtils.writeContent(descFile, repository.description);
      }
      else if (descFile.exists() && !descFile.isDirectory()) {
        descFile.delete();
      }
      // only update symbolic head if it changes
      String currentRef = JGitUtils.getHEADRef(r);
      if (!StringUtils.isEmpty(repository.HEAD) && !repository.HEAD.equals(currentRef)) {
        logger.info(MessageFormat.format("Relinking {0} HEAD from {1} to {2}",
            repository.name, currentRef, repository.HEAD));
        if (JGitUtils.setHEADtoRef(r, repository.HEAD)) {
          // clear the cache
          clearRepositoryMetadataCache(repository.name);
        }
      }

      // Adjust permissions in case we updated the config files
      JGitUtils.adjustSharedPerm(new File(r.getDirectory().getAbsolutePath(), "config"),
          settings.getString(Keys.git.createRepositoriesShared, "FALSE"));
      JGitUtils.adjustSharedPerm(new File(r.getDirectory().getAbsolutePath(), "HEAD"),
          settings.getString(Keys.git.createRepositoriesShared, "FALSE"));

      // close the repository object
      r.close();
    }

    // update repository cache
    removeFromCachedRepositoryList(repositoryName);
    // model will actually be replaced on next load because config is stale
    addToCachedRepositoryList(repository);
  }

  /**
   * Updates the Gitblit configuration for the specified repository.
   *
   * @param r
   *            the Git repository
   * @param repository
   *            the Gitblit repository model
   */
  @Override
  public void updateConfiguration(Repository r, RepositoryModel repository) {
    StoredConfig config = r.getConfig();
    config.setString(Constants.CONFIG_GITBLIT, null, "description", repository.description);
    config.setString(Constants.CONFIG_GITBLIT, null, "originRepository", repository.originRepository);
    config.setString(Constants.CONFIG_GITBLIT, null, "owner", ArrayUtils.toString(repository.owners));
    config.setBoolean(Constants.CONFIG_GITBLIT, null, "acceptNewPatchsets", repository.acceptNewPatchsets);
    config.setBoolean(Constants.CONFIG_GITBLIT, null, "acceptNewTickets", repository.acceptNewTickets);
    if (settings.getBoolean(Keys.tickets.requireApproval, false) == repository.requireApproval) {
      // use default
      config.unset(Constants.CONFIG_GITBLIT, null, "requireApproval");
    } else {
      // override default
      config.setBoolean(Constants.CONFIG_GITBLIT, null, "requireApproval", repository.requireApproval);
    }
    if (!StringUtils.isEmpty(repository.mergeTo)) {
      config.setString(Constants.CONFIG_GITBLIT, null, "mergeTo", repository.mergeTo);
    }
    config.setBoolean(Constants.CONFIG_GITBLIT, null, "useIncrementalPushTags", repository.useIncrementalPushTags);
    if (StringUtils.isEmpty(repository.incrementalPushTagPrefix) ||
        repository.incrementalPushTagPrefix.equals(settings.getString(Keys.git.defaultIncrementalPushTagPrefix, "r"))) {
      config.unset(Constants.CONFIG_GITBLIT, null, "incrementalPushTagPrefix");
    } else {
      config.setString(Constants.CONFIG_GITBLIT, null, "incrementalPushTagPrefix", repository.incrementalPushTagPrefix);
    }
    config.setBoolean(Constants.CONFIG_GITBLIT, null, "allowForks", repository.allowForks);
    config.setString(Constants.CONFIG_GITBLIT, null, "accessRestriction", repository.accessRestriction.name());
    config.setString(Constants.CONFIG_GITBLIT, null, "authorizationControl", repository.authorizationControl.name());
    config.setBoolean(Constants.CONFIG_GITBLIT, null, "verifyCommitter", repository.verifyCommitter);
    config.setBoolean(Constants.CONFIG_GITBLIT, null, "showRemoteBranches", repository.showRemoteBranches);
    config.setBoolean(Constants.CONFIG_GITBLIT, null, "isFrozen", repository.isFrozen);
    config.setBoolean(Constants.CONFIG_GITBLIT, null, "skipSizeCalculation", repository.skipSizeCalculation);
    config.setBoolean(Constants.CONFIG_GITBLIT, null, "skipSummaryMetrics", repository.skipSummaryMetrics);
    config.setString(Constants.CONFIG_GITBLIT, null, "federationStrategy",
        repository.federationStrategy.name());
    config.setBoolean(Constants.CONFIG_GITBLIT, null, "isFederated", repository.isFederated);
    config.setString(Constants.CONFIG_GITBLIT, null, "gcThreshold", repository.gcThreshold);
    if (repository.gcPeriod == settings.getInteger(Keys.git.defaultGarbageCollectionPeriod, 7)) {
      // use default from config
      config.unset(Constants.CONFIG_GITBLIT, null, "gcPeriod");
    } else {
      config.setInt(Constants.CONFIG_GITBLIT, null, "gcPeriod", repository.gcPeriod);
    }
    if (repository.lastGC != null) {
      config.setString(Constants.CONFIG_GITBLIT, null, "lastGC", new SimpleDateFormat(Constants.ISO8601).format(repository.lastGC));
    }
    if (repository.maxActivityCommits == settings.getInteger(Keys.web.maxActivityCommits, 0)) {
      // use default from config
      config.unset(Constants.CONFIG_GITBLIT, null, "maxActivityCommits");
    } else {
      config.setInt(Constants.CONFIG_GITBLIT, null, "maxActivityCommits", repository.maxActivityCommits);
    }

    CommitMessageRenderer defaultRenderer = CommitMessageRenderer.fromName(settings.getString(Keys.web.commitMessageRenderer, null));
    if (repository.commitMessageRenderer == null || repository.commitMessageRenderer == defaultRenderer) {
      // use default from config
      config.unset(Constants.CONFIG_GITBLIT, null, "commitMessageRenderer");
    } else {
      // repository overrides default
      config.setString(Constants.CONFIG_GITBLIT, null, "commitMessageRenderer",
          repository.commitMessageRenderer.name());
    }

    updateList(config, "federationSets", repository.federationSets);
    updateList(config, "preReceiveScript", repository.preReceiveScripts);
    updateList(config, "postReceiveScript", repository.postReceiveScripts);
    updateList(config, "mailingList", repository.mailingLists);
    updateList(config, "indexBranch", repository.indexedBranches);
    updateList(config, "metricAuthorExclusions", repository.metricAuthorExclusions);

    // User Defined Properties
    if (repository.customFields != null) {
      if (repository.customFields.size() == 0) {
        // clear section
        config.unsetSection(Constants.CONFIG_GITBLIT, Constants.CONFIG_CUSTOM_FIELDS);
      } else {
        for (Entry<String, String> property : repository.customFields.entrySet()) {
          // set field
          String key = property.getKey();
          String value = property.getValue();
          config.setString(Constants.CONFIG_GITBLIT, Constants.CONFIG_CUSTOM_FIELDS, key, value);
        }
      }
    }

    try {
      config.save();
    } catch (IOException e) {
      logger.error("Failed to save repository config!", e);
    }
  }

  private void updateList(StoredConfig config, String field, List<String> list) {
    // a null list is skipped, not cleared
    // this is for RPC administration where an older manager might be used
    if (list == null) {
      return;
    }
    if (ArrayUtils.isEmpty(list)) {
      config.unset(Constants.CONFIG_GITBLIT, null, field);
    } else {
      config.setStringList(Constants.CONFIG_GITBLIT, null, field, list);
    }
  }

  /**
   * Deletes the repository from the file system and removes the repository
   * permission from all repository users.
   *
   * @param model
   * @return true if successful
   */
  @Override
  public boolean deleteRepositoryModel(RepositoryModel model) {
    return deleteRepository(model.name);
  }

  /**
   * Deletes the repository from the file system and removes the repository
   * permission from all repository users.
   *
   * @param repositoryName
   * @return true if successful
   */
  @Override
  public boolean deleteRepository(String repositoryName) {
    try {
      close(repositoryName);
      // clear the repository cache
      clearRepositoryMetadataCache(repositoryName);

      RepositoryModel model = removeFromCachedRepositoryList(repositoryName);
      if (model != null && !ArrayUtils.isEmpty(model.forks)) {
        resetRepositoryListCache();
      }

      File folder = new File(repositoriesFolder, repositoryName);
      if (folder.exists() && folder.isDirectory()) {
        FileUtils.delete(folder, FileUtils.RECURSIVE | FileUtils.RETRY);
        if (userManager.deleteRepositoryRole(repositoryName)) {
          logger.info(MessageFormat.format("Repository \"{0}\" deleted", repositoryName));
          return true;
        }
      }
    } catch (Throwable t) {
      logger.error(MessageFormat.format("Failed to delete repository {0}", repositoryName), t);
    }
    return false;
  }

  /**
   * Returns the list of all Groovy push hook scripts. Script files must have
   * .groovy extension
   *
   * @return list of available hook scripts
   */
  @Override
  public List<String> getAllScripts() {
    File groovyFolder = getHooksFolder();
    File[] files = groovyFolder.listFiles(new FileFilter() {
      @Override
      public boolean accept(File pathname) {
        return pathname.isFile() && pathname.getName().endsWith(".groovy");
      }
    });
    List<String> scripts = new ArrayList<String>();
    if (files != null) {
      for (File file : files) {
        String script = file.getName().substring(0, file.getName().lastIndexOf('.'));
        scripts.add(script);
      }
    }
    return scripts;
  }

  /**
   * Returns the list of pre-receive scripts the repository inherited from the
   * global settings and team affiliations.
   *
   * @param repository
   *            if null only the globally specified scripts are returned
   * @return a list of scripts
   */
  @Override
  public List<String> getPreReceiveScriptsInherited(RepositoryModel repository) {
    Set<String> scripts = new LinkedHashSet<String>();
    // Globals
    for (String script : settings.getStrings(Keys.groovy.preReceiveScripts)) {
      if (script.endsWith(".groovy")) {
        scripts.add(script.substring(0, script.lastIndexOf('.')));
      } else {
        scripts.add(script);
      }
    }

    // Team Scripts
    if (repository != null) {
      for (String teamname : userManager.getTeamNamesForRepositoryRole(repository.name)) {
        TeamModel team = userManager.getTeamModel(teamname);
        if (!ArrayUtils.isEmpty(team.preReceiveScripts)) {
          scripts.addAll(team.preReceiveScripts);
        }
      }
    }
    return new ArrayList<String>(scripts);
  }

  /**
   * Returns the list of all available Groovy pre-receive push hook scripts
   * that are not already inherited by the repository. Script files must have
   * .groovy extension
   *
   * @param repository
   *            optional parameter
   * @return list of available hook scripts
   */
  @Override
  public List<String> getPreReceiveScriptsUnused(RepositoryModel repository) {
    Set<String> inherited = new TreeSet<String>(getPreReceiveScriptsInherited(repository));

    // create list of available scripts by excluding inherited scripts
    List<String> scripts = new ArrayList<String>();
    for (String script : getAllScripts()) {
      if (!inherited.contains(script)) {
        scripts.add(script);
      }
    }
    return scripts;
  }

  /**
   * Returns the list of post-receive scripts the repository inherited from
   * the global settings and team affiliations.
   *
   * @param repository
   *            if null only the globally specified scripts are returned
   * @return a list of scripts
   */
  @Override
  public List<String> getPostReceiveScriptsInherited(RepositoryModel repository) {
    Set<String> scripts = new LinkedHashSet<String>();
    // Global Scripts
    for (String script : settings.getStrings(Keys.groovy.postReceiveScripts)) {
      if (script.endsWith(".groovy")) {
        scripts.add(script.substring(0, script.lastIndexOf('.')));
      } else {
        scripts.add(script);
      }
    }
    // Team Scripts
    if (repository != null) {
      for (String teamname : userManager.getTeamNamesForRepositoryRole(repository.name)) {
        TeamModel team = userManager.getTeamModel(teamname);
        if (!ArrayUtils.isEmpty(team.postReceiveScripts)) {
          scripts.addAll(team.postReceiveScripts);
        }
      }
    }
    return new ArrayList<String>(scripts);
  }

  /**
   * Returns the list of unused Groovy post-receive push hook scripts that are
   * not already inherited by the repository. Script files must have .groovy
   * extension
   *
   * @param repository
   *            optional parameter
   * @return list of available hook scripts
   */
  @Override
  public List<String> getPostReceiveScriptsUnused(RepositoryModel repository) {
    Set<String> inherited = new TreeSet<String>(getPostReceiveScriptsInherited(repository));

    // create list of available scripts by excluding inherited scripts
    List<String> scripts = new ArrayList<String>();
    for (String script : getAllScripts()) {
      if (!inherited.contains(script)) {
        scripts.add(script);
      }
    }
    return scripts;
  }

  /**
   * Search the specified repositories using the Lucene query.
   *
   * @param query
   * @param page
   * @param pageSize
   * @param repositories
   * @return
   */
  @Override
  public List<SearchResult> search(String query, int page, int pageSize, List<String> repositories) {
    List<SearchResult> srs = luceneExecutor.search(query, page, pageSize, repositories);
    return srs;
  }

  protected void configureLuceneIndexing() {
    luceneExecutor = new LuceneService(settings, this);
    int period = 2;
    scheduledExecutor.scheduleAtFixedRate(luceneExecutor, 1, period,  TimeUnit.MINUTES);
    logger.info("Lucene will process indexed branches every {} minutes.", period);
  }

  protected void configureGarbageCollector() {
    // schedule gc engine
    gcExecutor = new GarbageCollectorService(settings, this);
    if (gcExecutor.isReady()) {
      logger.info("Garbage Collector (GC) will scan repositories every 24 hours.");
      Calendar c = Calendar.getInstance();
      c.set(Calendar.HOUR_OF_DAY, settings.getInteger(Keys.git.garbageCollectionHour, 0));
      c.set(Calendar.MINUTE, 0);
      c.set(Calendar.SECOND, 0);
      c.set(Calendar.MILLISECOND, 0);
      Date cd = c.getTime();
      Date now = new Date();
      int delay = 0;
      if (cd.before(now)) {
        c.add(Calendar.DATE, 1);
        cd = c.getTime();
      }
      delay = (int) ((cd.getTime() - now.getTime())/TimeUtils.MIN);
      String when = delay + " mins";
      if (delay > 60) {
        when = MessageFormat.format("{0,number,0.0} hours", delay / 60f);
      }
      logger.info(MessageFormat.format("Next scheculed GC scan is in {0}", when));
      scheduledExecutor.scheduleAtFixedRate(gcExecutor, delay, 60 * 24, TimeUnit.MINUTES);
    } else {
      logger.info("Garbage Collector (GC) is disabled.");
    }
  }

  protected void configureMirrorExecutor() {
    mirrorExecutor = new MirrorService(settings, this);
    if (mirrorExecutor.isReady()) {
      int mins = TimeUtils.convertFrequencyToMinutes(settings.getString(Keys.git.mirrorPeriod, "30 mins"));
      if (mins < 5) {
        mins = 5;
      }
      int delay = 1;
      scheduledExecutor.scheduleAtFixedRate(mirrorExecutor, delay, mins,  TimeUnit.MINUTES);
      logger.info("Mirror service will fetch updates every {} minutes.", mins);
      logger.info("Next scheduled mirror fetch is in {} minutes", delay);
    } else {
      logger.info("Mirror service is disabled.");
    }
  }

  protected void configureJGit() {
    // Configure JGit
    WindowCacheConfig cfg = new WindowCacheConfig();

    cfg.setPackedGitWindowSize(settings.getFilesize(Keys.git.packedGitWindowSize, cfg.getPackedGitWindowSize()));
    cfg.setPackedGitLimit(settings.getFilesize(Keys.git.packedGitLimit, cfg.getPackedGitLimit()));
    cfg.setDeltaBaseCacheLimit(settings.getFilesize(Keys.git.deltaBaseCacheLimit, cfg.getDeltaBaseCacheLimit()));
    cfg.setPackedGitOpenFiles(settings.getFilesize(Keys.git.packedGitOpenFiles, cfg.getPackedGitOpenFiles()));
    cfg.setStreamFileThreshold(settings.getFilesize(Keys.git.streamFileThreshold, cfg.getStreamFileThreshold()));
    cfg.setPackedGitMMAP(settings.getBoolean(Keys.git.packedGitMmap, cfg.isPackedGitMMAP()));

    try {
      cfg.install();
      logger.debug(MessageFormat.format("{0} = {1,number,0}", Keys.git.packedGitWindowSize, cfg.getPackedGitWindowSize()));
      logger.debug(MessageFormat.format("{0} = {1,number,0}", Keys.git.packedGitLimit, cfg.getPackedGitLimit()));
      logger.debug(MessageFormat.format("{0} = {1,number,0}", Keys.git.deltaBaseCacheLimit, cfg.getDeltaBaseCacheLimit()));
      logger.debug(MessageFormat.format("{0} = {1,number,0}", Keys.git.packedGitOpenFiles, cfg.getPackedGitOpenFiles()));
      logger.debug(MessageFormat.format("{0} = {1,number,0}", Keys.git.streamFileThreshold, cfg.getStreamFileThreshold()));
      logger.debug(MessageFormat.format("{0} = {1}", Keys.git.packedGitMmap, cfg.isPackedGitMMAP()));
    } catch (IllegalArgumentException e) {
      logger.error("Failed to configure JGit parameters!", e);
    }
  }

  protected void configureCommitCache() {
    int daysToCache = settings.getInteger(Keys.web.activityCacheDays, 14);
    if (daysToCache <= 0) {
      logger.info("Commit cache is disabled");
    } else {
      long start = System.nanoTime();
      long repoCount = 0;
      long commitCount = 0;
      logger.info(MessageFormat.format("Preparing {0} day commit cache. please wait...", daysToCache));
      CommitCache.instance().setCacheDays(daysToCache);
      Date cutoff = CommitCache.instance().getCutoffDate();
      for (String repositoryName : getRepositoryList()) {
        RepositoryModel model = getRepositoryModel(repositoryName);
        if (model != null && model.hasCommits && model.lastChange.after(cutoff)) {
          repoCount++;
          Repository repository = getRepository(repositoryName);
          for (RefModel ref : JGitUtils.getLocalBranches(repository, true, -1)) {
            if (!ref.getDate().after(cutoff)) {
              // branch not recently updated
              continue;
            }
            List<?> commits = CommitCache.instance().getCommits(repositoryName, repository, ref.getName());
            if (commits.size() > 0) {
              logger.info(MessageFormat.format("  cached {0} commits for {1}:{2}",
                  commits.size(), repositoryName, ref.getName()));
              commitCount += commits.size();
            }
          }
          repository.close();
        }
      }
      logger.info(MessageFormat.format("built {0} day commit cache of {1} commits across {2} repositories in {3} msecs",
          daysToCache, commitCount, repoCount, TimeUnit.NANOSECONDS.toMillis(System.nanoTime() - start)));
    }
  }

  protected void confirmWriteAccess() {
    if (runtimeManager.isServingRepositories()) {
      try {
        if (!getRepositoriesFolder().exists()) {
          getRepositoriesFolder().mkdirs();
        }
        File file = File.createTempFile(".test-", ".txt", getRepositoriesFolder());
        file.delete();
      } catch (Exception e) {
        logger.error("");
        logger.error(Constants.BORDER2);
        logger.error("Please check filesystem permissions!");
        logger.error("FAILED TO WRITE TO REPOSITORIES FOLDER!!", e);
        logger.error(Constants.BORDER2);
        logger.error("");
      }
    }
  }
}
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