Hi,

First of all I would like to appreciate the clean and neat documentation 
written for the Galaxy setup for Cluster.

I am attempting to install Galaxy on Penguin cluster with Torque PBS manager.
While following the steps I came across an error as below:

===========================================================================================================================================================
[user@server pbs_python]$ /galaxy/Python-2.4.6/python scramble.py

---------------------------------------------------------------------------
This script requires setuptools version 0.6c12 to run (even to display
help).  I will attempt to download it for you (from
http://pypi.python.org/packages/2.4/s/setuptools/), but
you may need to enable firewall access for this script first.
I will start the download in 8 seconds.

(Note: if this machine does not have network access, please obtain the file

   http://pypi.python.org/packages/2.4/s/setuptools/setuptools-0.6c12-py2.4.egg

and place it in this directory before rerunning this script.)
---------------------------------------------------------------------------
Downloading 
http://pypi.python.org/packages/2.4/s/setuptools/setuptools-0.6c12-py2.4.egg
Traceback (most recent call last):
  File "scramble.py", line 14, in ?
    from scramble_lib import *
  File "../../../lib/scramble_lib.py", line 150, in ?
    use_setuptools( download_delay=8, to_dir=os.path.dirname( __file__ ) )
  File 
"/galaxy/galaxy-dist/scripts/scramble/build/py2.4-linux-x86_64-ucs2/pbs_python/ez_setup.py",
 line 92, in use_setuptools
    return do_download()
  File 
"/galaxy/galaxy-dist/scripts/scramble/build/py2.4-linux-x86_64-ucs2/pbs_python/ez_setup.py",
 line 70, in do_download
    egg = download_setuptools(version, download_base, to_dir, download_delay)
  File 
"/galaxy/galaxy-dist/scripts/scramble/build/py2.4-linux-x86_64-ucs2/pbs_python/ez_setup.py",
 line 131, in download_setuptools
    src = urllib2.urlopen(url)
  File "/galaxy/Python-2.4.6/Lib/urllib2.py", line 130, in urlopen
    return _opener.open(url, data)
  File "/galaxy/Python-2.4.6/Lib/urllib2.py", line 364, in open
    response = meth(req, response)
  File "/galaxy/Python-2.4.6/Lib/urllib2.py", line 471, in http_response
    response = self.parent.error(
  File "/galaxy/Python-2.4.6/Lib/urllib2.py", line 402, in error
    return self._call_chain(*args)
  File "/galaxy/Python-2.4.6/Lib/urllib2.py", line 337, in _call_chain
    result = func(*args)
  File "/galaxy/Python-2.4.6/Lib/urllib2.py", line 480, in http_error_default
    raise HTTPError(req.get_full_url(), code, msg, hdrs, fp)
urllib2.HTTPError: HTTP Error 404: Not Found
===========================================================================================================================================================


The scramble script here is trying to download an egg which does not exist at 
the location (try opening the link it is trying to download in a browser - 
you'll get 404, then see the parent directory - 
http://pypi.python.org/packages/2.4/s/setuptools/ you'll see last version 
available i.e. 0.6c11).

If we try to download the last version of setuptools 0.6c11 and rename it to 
the latest version (desperate attempt to make it work), that doesn't work 
either.

===========================================================================================================================================================
[user@server pbs_python]$ mv setuptools-0.6c11-py2.4.egg 
setuptools-0.6c12-py2.4.egg

[user@server pbs_python]$ /galaxy/Python-2.4.6/python scramble.py
checking for pbs-config... /usr/lib64/../bin/pbs-config
Found torque version: 2.4.0-snap.200812091621
checking for python... /galaxy/Python-2.4.6/python
checking for python version... 2.4
checking for python platform... linux2
checking for python script directory... ${prefix}/lib/python2.4/site-packages
checking for python extension module directory... 
${exec_prefix}/lib/python2.4/site-packages
configure: creating ./config.status
config.status: creating Makefile
config.status: creating setup.py
scramble(): Patching setup.py
Traceback (most recent call last):
  File "scramble.py", line 49, in ?
    execfile( "setup.py", globals(), locals() )
  File "setup.py", line 32, in ?
    build_version = int(tmp[2])
ValueError: invalid literal for int(): 0-snap

===========================================================================================================================================================

Do let me know if anyone else has faced this issue of the scramble script 
trying to download a wrong version? Greatly appreciate your time.

Warm Regards,
Sonali Amonkar



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