passport.js passport.initialize() middleware not in use

Question

I am using node with express + mongoose and trying to use passport.js with restful api.
I keep getting this exception after authentication success (I see the callback url on the browser):

/Users/naorye/dev/naorye/myproj/node_modules/mongoose/lib/utils.js:419
        throw err;
              ^
Error: passport.initialize() middleware not in use
    at IncomingMessage.req.login.req.logIn (/Users/naorye/dev/naorye/myproj/node_modules/passport/lib/passport/http/request.js:30:30)
    at Context.module.exports.delegate.success (/Users/naorye/dev/naorye/myproj/node_modules/passport/lib/passport/middleware/authenticate.js:194:13)
    at Context.actions.success (/Users/naorye/dev/naorye/myproj/node_modules/passport/lib/passport/context/http/actions.js:21:25)
    at verified (/Users/naorye/dev/naorye/myproj/node_modules/passport-facebook/node_modules/passport-oauth/lib/passport-oauth/strategies/oauth2.js:133:18)
    at Promise.module.exports.passport.use.GitHubStrategy.clientID (/Users/naorye/dev/naorye/myproj/config/passport.js:91:24)
    at Promise.onResolve (/Users/naorye/dev/naorye/myproj/node_modules/mongoose/node_modules/mpromise/lib/promise.js:162:8)
    at Promise.EventEmitter.emit (events.js:96:17)
    at Promise.emit (/Users/naorye/dev/naorye/myproj/node_modules/mongoose/node_modules/mpromise/lib/promise.js:79:38)
    at Promise.fulfill (/Users/naorye/dev/naorye/myproj/node_modules/mongoose/node_modules/mpromise/lib/promise.js:92:20)
    at /Users/naorye/dev/naorye/myproj/node_modules/mongoose/lib/query.js:1822:13

I have read that I should put app.use(passport.initialize()); and app.use(passport.session()); before app.use(app.router); and this is what I did. Here is my express.js that registers the middlewares:

var express = require('express'),
    mongoStore = require('connect-mongo')(express),
    flash = require('connect-flash'),
    helpers = require('view-helpers');

module.exports = function (app, config, passport) {
    app.set('showStackError', true);
    // should be placed before express.static
    app.use(express.compress({
        filter: function (req, res) {
            return /json|text|javascript|css/.test(res.getHeader('Content-Type'));
        },
        level: 9
    }));
    app.use(express.favicon());
    app.use(express.static(config.root + '/public'));

    app.use(express.logger('dev'));

    // set views path, template engine and default layout
    app.set('views', config.root + '/app/views');
    app.set('view engine', 'jade');

    app.configure(function () {
        // use passport session
        app.use(passport.initialize());
        app.use(passport.session());

        // dynamic helpers
        app.use(helpers(config.app.name));

        // cookieParser should be above session
        app.use(express.cookieParser());

        // bodyParser should be above methodOverride
        app.use(express.bodyParser());
        app.use(express.methodOverride());

        // express/mongo session storage
        app.use(express.session({
            secret: 'linkit',
            store: new mongoStore({
                url: config.db,
                collection : 'sessions'
            })
        }));

        // connect flash for flash messages
        app.use(flash());

        // routes should be at the last
        app.use(app.router);

        // assume "not found" in the error msgs
        // is a 404. this is somewhat silly, but
        // valid, you can do whatever you like, set
        // properties, use instanceof etc.
        app.use(function(err, req, res, next){
            // treat as 404
            if (~err.message.indexOf('not found')) {
                return next();
            }

            // log it
            console.error(err.stack);

            // error page
            res.status(500).render('500', { error: err.stack });
        });

        // assume 404 since no middleware responded
        app.use(function(req, res, next){
            res.status(404).render('404', {
                url: req.originalUrl,
                error: 'Not found'
            });
        });
    });
};

What is wrong?

UPDATE According to @Peter Lyons I have changed the configurations order to the following, but I still got the same error:

var express = require('express'),
    mongoStore = require('connect-mongo')(express),
    flash = require('connect-flash'),
    helpers = require('view-helpers');

module.exports = function (app, config, passport) {
    app.set('showStackError', true);
    // should be placed before express.static
    app.use(express.compress({
        filter: function (req, res) {
            return /json|text|javascript|css/.test(res.getHeader('Content-Type'));
        },
        level: 9
    }));
    app.use(express.favicon());
    app.use(express.static(config.root + '/public'));

    app.use(express.logger('dev'));

    // set views path, template engine and default layout
    app.set('views', config.root + '/app/views');
    app.set('view engine', 'jade');

    app.configure(function () {

        // dynamic helpers
        app.use(helpers(config.app.name));

        // cookieParser should be above session
        app.use(express.cookieParser());

        // bodyParser should be above methodOverride
        app.use(express.bodyParser());
        app.use(express.methodOverride());

        // express/mongo session storage
        app.use(express.session({
            secret: 'linkit',
            store: new mongoStore({
                url: config.db,
                collection : 'sessions'
            })
        }));

        // connect flash for flash messages
        app.use(flash());

        // use passport session
        app.use(passport.initialize());
        app.use(passport.session());

        // routes should be at the last
        app.use(app.router);

        // assume "not found" in the error msgs
        // is a 404. this is somewhat silly, but
        // valid, you can do whatever you like, set
        // properties, use instanceof etc.
        app.use(function(err, req, res, next){
            // treat as 404
            if (~err.message.indexOf('not found')) {
                return next();
            }

            // log it
            console.error(err.stack);

            // error page
            res.status(500).render('500', { error: err.stack });
        });

        // assume 404 since no middleware responded
        app.use(function(req, res, next){
            res.status(404).render('404', {
                url: req.originalUrl,
                error: 'Not found'
            });
        });
    });
};

Answer 1

Follow the example to avoid the out-of-order middleware hell that express makes it so easy to enter. Straight from the docs. Note how yours does not match this exactly.

var app = express();
app.use(require('serve-static')(__dirname + '/../../public'));
app.use(require('cookie-parser')());
app.use(require('body-parser').urlencoded({ extended: true }));
app.use(require('express-session')({
  secret: 'keyboard cat',
  resave: true,
  saveUninitialized: true
}));
app.use(passport.initialize());
app.use(passport.session());

Docs

1. cookieParser
2. session
3. passport.initialize
4. passport.session
5. app.router

You

1. passport.initialize
2. passport.session
3. cookieParser
4. session
5. app.router