python path is: /hpcdata/galaxy-setup/galaxy-dist/eggs/pycrypto-2.0.1-py2.6-linux-x86_64-ucs4.egg, /hpcdata/galaxy-setup/galaxy-dist/eggs/python_lzo-1.08_2.03_static-py2.6-linux-x86_64-ucs4.egg, /hpcdata/galaxy-setup/galaxy-dist/eggs/bx_python-0.7.1_7b95ff194725-py2.6-linux-x86_64-ucs4.egg, /hpcdata/galaxy-setup/galaxy-dist/eggs/amqplib-0.6.1-py2.6.egg, /hpcdata/galaxy-setup/galaxy-dist/eggs/pexpect-2.4-py2.6.egg, /hpcdata/galaxy-setup/galaxy-dist/eggs/SQLAlchemy-0.5.6_dev_r6498-py2.6.egg, /hpcdata/galaxy-setup/galaxy-dist/eggs/Babel-0.9.4-py2.6.egg, /hpcdata/galaxy-setup/galaxy-dist/eggs/MarkupSafe-0.12-py2.6-linux-x86_64-ucs4.egg, /hpcdata/galaxy-setup/galaxy-dist/eggs/Mako-0.4.1-py2.6.egg, /hpcdata/galaxy-setup/galaxy-dist/eggs/WebHelpers-0.2-py2.6.egg, /hpcdata/galaxy-setup/galaxy-dist/eggs/simplejson-2.1.1-py2.6-linux-x86_64-ucs4.egg, /hpcdata/galaxy-setup/galaxy-dist/eggs/wchartype-0.1-py2.6.egg, /hpcdata/galaxy-setup/galaxy-dist/eggs/elementtree-1.2.6_20050316-py2.6.egg, /hpcdata/galaxy-setup/galaxy-dist/eggs/docutils-0.7-py2.6.egg, /hpcdata/galaxy-setup/galaxy-dist/eggs/WebOb-0.8.5-py2.6.egg, /hpcdata/galaxy-setup/galaxy-dist/eggs/Routes-1.12.3-py2.6.egg, /hpcdata/galaxy-setup/galaxy-dist/eggs/Cheetah-2.2.2-py2.6-linux-x86_64-ucs4.egg, /hpcdata/galaxy-setup/galaxy-dist/eggs/PasteDeploy-1.3.3-py2.6.egg, /hpcdata/galaxy-setup/galaxy-dist/eggs/PasteScript-1.7.3-py2.6.egg, /hpcdata/galaxy-setup/galaxy-dist/eggs/Paste-1.6-py2.6.egg, /hpcdata/galaxy-setup/galaxy-dist/lib, /usr/lib/python26.zip, /usr/lib64/python2.6, /usr/lib64/python2.6/plat-linux2, /usr/lib64/python2.6/lib-tk, /usr/lib64/python2.6/lib-old, /usr/lib64/python2.6/lib-dynload, /usr/lib64/python2.6/site-packages, /usr/lib64/python2.6/site-packages/Numeric, /usr/lib64/python2.6/site-packages/gtk-2.0, /usr/local/lib64/python2.6/site-packages

galaxy.model.custom_types DEBUG 2012-08-07 17:13:53,219 psycopg2 egg successfully loaded for postgres dialect

galaxy.web.framework.base DEBUG 2012-08-07 17:13:59,792 Enabling 'users' controller, class: Users

galaxy.web.framework.base DEBUG 2012-08-07 17:13:59,815 Enabling 'system' controller, class: System

galaxy.web.framework.base DEBUG 2012-08-07 17:13:59,909 Enabling 'sample_tracking' controller, class: SampleTracking

galaxy.web.framework.base DEBUG 2012-08-07 17:13:59,922 Enabling 'jobs' controller, class: Jobs

galaxy.web.framework.base DEBUG 2012-08-07 17:13:59,942 Enabling 'workflows' controller, class: Workflows

galaxy.web.framework.base DEBUG 2012-08-07 17:13:59,947 Enabling 'root' controller, class: Report

galaxy.webapps.reports.buildapp DEBUG 2012-08-07 17:13:59,950 Enabling 'httpexceptions' middleware

galaxy.webapps.reports.buildapp DEBUG 2012-08-07 17:13:59,971 Enabling 'recursive' middleware

/hpcdata/galaxy-setup/galaxy-dist/eggs/Paste-1.6-py2.6.egg/paste/exceptions/serial_number_generator.py:11: DeprecationWarning: the md5 module is deprecated; use hashlib instead

  import md5

galaxy.webapps.reports.buildapp DEBUG 2012-08-07 17:14:00,708 Enabling 'error' middleware

galaxy.webapps.reports.buildapp DEBUG 2012-08-07 17:14:00,749 Enabling 'trans logger' middleware

galaxy.webapps.reports.buildapp DEBUG 2012-08-07 17:14:00,750 Enabling 'config' middleware

galaxy.webapps.reports.buildapp DEBUG 2012-08-07 17:14:00,888 Enabling 'x-forwarded-host' middleware

Starting server in PID 6345.

Traceback (most recent call last):

  File "./scripts/paster.py", line 34, in <module>

    command.run()

  File "/hpcdata/galaxy-setup/galaxy-dist/eggs/PasteScript-1.7.3-py2.6.egg/paste/script/command.py", line 84, in run

    invoke(command, command_name, options, args[1:])

  File "/hpcdata/galaxy-setup/galaxy-dist/eggs/PasteScript-1.7.3-py2.6.egg/paste/script/command.py", line 123, in invoke

    exit_code = runner.run(args)

  File "/hpcdata/galaxy-setup/galaxy-dist/eggs/PasteScript-1.7.3-py2.6.egg/paste/script/command.py", line 218, in run

    result = self.command()

  File "/hpcdata/galaxy-setup/galaxy-dist/eggs/PasteScript-1.7.3-py2.6.egg/paste/script/serve.py", line 303, in command

    serve()

  File "/hpcdata/galaxy-setup/galaxy-dist/eggs/PasteScript-1.7.3-py2.6.egg/paste/script/serve.py", line 287, in serve

    server(app)

  File "/hpcdata/galaxy-setup/galaxy-dist/eggs/PasteDeploy-1.3.3-py2.6.egg/paste/deploy/loadwsgi.py", line 151, in server_wrapper

    **context.local_conf)

  File "/hpcdata/galaxy-setup/galaxy-dist/eggs/PasteDeploy-1.3.3-py2.6.egg/paste/deploy/util/fixtypeerror.py", line 57, in fix_call

    val = callable(*args, **kw)

  File "/hpcdata/galaxy-setup/galaxy-dist/eggs/Paste-1.6-py2.6.egg/paste/httpserver.py", line 1314, in server_runner

    serve(wsgi_app, **kwargs)

  File "/hpcdata/galaxy-setup/galaxy-dist/eggs/Paste-1.6-py2.6.egg/paste/httpserver.py", line 1264, in serve

    threadpool_options=threadpool_options)

  File "/hpcdata/galaxy-setup/galaxy-dist/eggs/Paste-1.6-py2.6.egg/paste/httpserver.py", line 1114, in __init__

    RequestHandlerClass, ssl_context)

  File "/hpcdata/galaxy-setup/galaxy-dist/eggs/Paste-1.6-py2.6.egg/paste/httpserver.py", line 1094, in __init__

    RequestHandlerClass, ssl_context)

  File "/hpcdata/galaxy-setup/galaxy-dist/eggs/Paste-1.6-py2.6.egg/paste/httpserver.py", line 328, in __init__

    HTTPServer.__init__(self, server_address, RequestHandlerClass)

  File "/usr/lib64/python2.6/SocketServer.py", line 400, in __init__

    self.server_bind()

  File "/usr/lib64/python2.6/BaseHTTPServer.py", line 108, in server_bind

    SocketServer.TCPServer.server_bind(self)

  File "/usr/lib64/python2.6/SocketServer.py", line 411, in server_bind

    self.socket.bind(self.server_address)

  File "<string>", line 1, in bind

socket.error: [Errno 98] Address already in use

Removing PID file reports_webapp.pid

# ---- HTTP Server ----------------------------------------------------------

[server:main]

use = egg:Paste#http

port = 9001

host = 127.0.0.1

use_threadpool = true

threadpool_workers = 10

# ---- Galaxy Webapps Report Interface -------------------------------------------------

[app:main]

# Specifies the factory for the universe WSGI application

paste.app_factory = galaxy.webapps.reports.buildapp:app_factory

log_level = DEBUG

# Database connection

#database_file = database/universe.sqlite

# You may use a SQLAlchemy connection string to specify an external database instead

# database_connection = postgres:///galaxy_test?user=postgres&password=postgres 

database_connection = postgres:///galaxy_1?user=galaxy&password=galaxy

# Where dataset files are saved

file_path = database/files

# Temporary storage for additional datasets, this should be shared through the cluster

new_file_path = database/tmp

# Session support (beaker)

use_beaker_session = True

session_type = memory

session_data_dir = %(here)s/database/beaker_sessions

session_key = galaxysessions

session_secret = changethisinproduction

# Configuration for debugging middleware

# debug = true

use_lint = false

# NEVER enable this on a public site (even test or QA)

# use_interactive = true

# path to sendmail

#sendmail_path = /usr/sbin/sendmail

# Address to join mailing list

#mailing_join_addr = galaxy-user-join@bx.psu.edu

# Write thread status periodically to 'heartbeat.log' (careful, uses disk space rapidly!)

## use_heartbeat = True

# Profiling middleware (cProfile based)

## use_profile = True

# Mail

smtp_server = smtp.jax.org

error_email_to = cbr-help@jax.org

# Use the new iframe / javascript based layout

use_new_layout = true

# Serving static files (needed if running standalone)

static_enabled = True

static_cache_time = 360

static_dir = %(here)s/static/

static_images_dir = %(here)s/static/images

static_favicon_dir = %(here)s/static/favicon.ico

static_scripts_dir = %(here)s/static/scripts/

static_style_dir = %(here)s/static/june_2007_style/blue