Hi Nate,

I am still not there, though I am getting closer...

I changed the port to 8888 in universe_wsgi.ini and
Here's what appears on my screen:
  galaxy.web.buildapp DEBUG 2011-02-17 13:42:08,285 Enabling 'eval
  exceptions' middleware
  galaxy.web.buildapp DEBUG 2011-02-17 13:42:08,286 Enabling 'trans logger'
  middleware
  galaxy.web.buildapp DEBUG 2011-02-17 13:42:08,286 Enabling 'config'
  middleware
  galaxy.web.buildapp DEBUG 2011-02-17 13:42:08,287 Enabling
  'x-forwarded-host' middleware
  Starting server in PID 28721.
  serving on http://127.0.0.1:8888

When I try to go there on my browser, the complaint from browser
(I used both safari and firefox) is:
  Firefox can't establish a connection to the server at vixen:8888.
Or
  Safari can¹t open the page ³http://vixen:8888/² because Safari can¹t
  connect to the server ³vixen².
But when I change 8888 to 8080, I do get a page from tomcat.

I see that the process is running:
  $ ps axl | grep 28721
  0  1026 28721 28588  15   0 390520 83456 finish Tl pts/9      0:14 python
  ./scripts/paster.py serve universe_wsgi.ini
  0  1026 28781 27316  16   0 51116  668 pipe_w S+   pts/9      0:00 grep
  28721

Any clue, why I can't get there by browser?

Thank you.

Regards,

Tena Sakai



On 2/17/11 12:57 PM, "Nate Coraor" <n...@bx.psu.edu> wrote:

> Tena Sakai wrote:
>> Hi Nate,
>> 
>> Thank you for your reply.
>> 
>> I am getting there, but I need a bit more help.
>> 
>> Firstly, yes, I had an alias hg (which was "history | grep $1").
>> I got rid of it and hg is working fine.
>> 
>> Secondly, I installed the latest version of zlib (1.2.5) and
>> I can go further with "sh run.sh", but it hangs after it tells
>> me:
>>     File "/usr/local/lib/python2.5/SocketServer.py", line 341, in
>>     server_bind
>>     self.socket.bind(self.server_address)
>>     File "<string>", line 1, in bind
>>     socket.error: (98, 'Address already in use')
>> 
>> When I point my browser to http://vixen:8080 (vixen is the very
>> machine on which I am implementing galaxy), a tomcat page comes
>> up (telling me that tomcat is running fine).
>> 
>> Here's my question: Is there a way to run galaxy on ports other
>> than 8080?
> 
> Yes, in the file universe_wsgi.ini in the root of the Galaxy directory,
> one of the options near the top of the file is 'port ='.  This can be
> changed to whatever you prefer.
> 
> --nate
> 
>> 
>> Thank you!
>> 
>> Regards,
>> 
>> Tena Sakai
>> 
>> PS: Thank you for updating the link on wiki page.
>> 
>> On 2/17/11 9:57 AM, "Nate Coraor" <n...@bx.psu.edu> wrote:
>> 
>>> Nate Coraor wrote:
>>>>> 
>>>>>   $ uname -v
>>>>>   #1 SMP Tue Jul 22 18:01:05 EDT 2008
>>>>> 
>>>>>   $ uname -r
>>>>>   2.6.9-78.0.1.ELsmp
>>> 
>>> RHEL 4, I believe?
>>> 
>>>>>   $ cd galaxy-dist
>>>>>   $ sh run.sh
>>>>>    <...lots of lines here...>
>>>>>    Fetch successful.
>>>>>    <...more lines here...>
>>>>>   ysam/csamtools.py", line 6, in __bootstrap__
>>>>>   ImportError:
>>>>> /home/tsakai/.python-eggs/pysam-0.1.1_kanwei_90e03180969d-py2.5-linux-x86_
>>>>> 64
>>>>> -ucs2.egg-tmp/pysam/csamtools.so: undefined symbol: deflateSetHeader
>>>>> 
>>>>>   $ echo $?
>>>>>   1
>>>>> 
>>>>> So, I am lost now.  Can somebody please give me a tip as to how to
>>>>> proceed?
>>>> 
>>>> I'll dig in to this last bit and get back to you ASAP.
>>> 
>>> It would appear that your zlib does not contain deflateSetHeader, which
>>> was added to zlib in version 1.2.2.1, released in 2004.  RHEL 4.X
>>> apparently ships with zlib 1.2.1.2.  If you have a newer zlib installed
>>> somewhere, you can work around this problem by setting $LD_LIBRARY_PATH
>>> to point to the directory with the newer libz.so.1.  LD_LIBRARY_PATH is
>>> a hack so this is not ideal, but you may not want to override libz
>>> globally by changing something like /etc/ld.so.conf.
>>> 
>>> --nate
>> 
>> 


_______________________________________________
To manage your subscriptions to this and other Galaxy lists, please use the 
interface at:

  http://lists.bx.psu.edu/

Reply via email to