private static void updateUntrackedFilesHolderOnFileAdd(
     @NotNull Project project,
     @NotNull VirtualFile root,
     @NotNull Collection<VirtualFile> addedFiles) {
   GitRepositoryManager manager = GitUtil.getRepositoryManager(project);
   if (manager == null) {
     return;
   }
   final GitRepository repository = manager.getRepositoryForRoot(root);
   if (repository != null) {
     repository.getUntrackedFilesHolder().remove(addedFiles);
   }
 }
  private static boolean performFirstCommitIfRequired(
      @NotNull final Project project,
      @NotNull VirtualFile root,
      @NotNull GitRepository repository,
      @NotNull ProgressIndicator indicator,
      @NotNull String name,
      @NotNull String url) {
    // check if there is no commits
    if (!repository.isFresh()) {
      return true;
    }

    LOG.info("Trying to commit");
    try {
      LOG.info("Adding files for commit");
      indicator.setText("Adding files to git...");

      // ask for files to add
      final List<VirtualFile> trackedFiles =
          ChangeListManager.getInstance(project).getAffectedFiles();
      final Collection<VirtualFile> untrackedFiles =
          filterOutIgnored(project, repository.getUntrackedFilesHolder().retrieveUntrackedFiles());
      trackedFiles.removeAll(untrackedFiles); // fix IDEA-119855

      final List<VirtualFile> allFiles = new ArrayList<VirtualFile>();
      allFiles.addAll(trackedFiles);
      allFiles.addAll(untrackedFiles);

      final Ref<GithubUntrackedFilesDialog> dialogRef = new Ref<GithubUntrackedFilesDialog>();
      ApplicationManager.getApplication()
          .invokeAndWait(
              new Runnable() {
                @Override
                public void run() {
                  GithubUntrackedFilesDialog dialog =
                      new GithubUntrackedFilesDialog(project, allFiles);
                  if (!trackedFiles.isEmpty()) {
                    dialog.setSelectedFiles(trackedFiles);
                  }
                  DialogManager.show(dialog);
                  dialogRef.set(dialog);
                }
              },
              indicator.getModalityState());
      final GithubUntrackedFilesDialog dialog = dialogRef.get();

      final Collection<VirtualFile> files2commit = dialog.getSelectedFiles();
      if (!dialog.isOK() || files2commit.isEmpty()) {
        GithubNotifications.showInfoURL(
            project, "Successfully created empty repository on GitHub", name, url);
        return false;
      }

      Collection<VirtualFile> files2add = ContainerUtil.intersection(untrackedFiles, files2commit);
      Collection<VirtualFile> files2rm = ContainerUtil.subtract(trackedFiles, files2commit);
      Collection<VirtualFile> modified = new HashSet<VirtualFile>(trackedFiles);
      modified.addAll(files2commit);

      GitFileUtils.addFiles(project, root, files2add);
      GitFileUtils.deleteFilesFromCache(project, root, files2rm);

      // commit
      LOG.info("Performing commit");
      indicator.setText("Performing commit...");
      GitSimpleHandler handler = new GitSimpleHandler(project, root, GitCommand.COMMIT);
      handler.addParameters("-m", dialog.getCommitMessage());
      handler.endOptions();
      handler.run();

      VcsFileUtil.refreshFiles(project, modified);
    } catch (VcsException e) {
      LOG.warn(e);
      GithubNotifications.showErrorURL(
          project,
          "Can't finish GitHub sharing process",
          "Successfully created project ",
          "'" + name + "'",
          " on GitHub, but initial commit failed:<br/>" + GithubUtil.getErrorTextFromException(e),
          url);
      return false;
    }
    LOG.info("Successfully created initial commit");
    return true;
  }