Hi Nate, Please ignore my previous post. I got it working. I changed an entry in universe_wsgi.ini file. >From "#host = 127.0.0.1" to "host = vixen.egcrc.org". It appears to be working.
Many thanks for your help. Regards, Tena Sakai On 2/17/11 1:48 PM, "Tena Sakai" <[email protected]> wrote: > 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" <[email protected]> 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" <[email protected]> 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/ _______________________________________________ To manage your subscriptions to this and other Galaxy lists, please use the interface at: http://lists.bx.psu.edu/
