Hi

I am a developer for a group.  I am having a problem with local installation of 
galaxy.  The platform I am using is:
  $ uname -o
  GNU/Linux

  $ uname -i
  x86_64

  $ uname -v
  #1 SMP Tue Jul 22 18:01:05 EDT 2008

  $ uname -r
  2.6.9-78.0.1.ELsmp

Here’s what I did:

  $ hg clone http://www.bx.psu.edu/hg/galaxy galaxy_dist
  grep: http://www.bx.psu.edu/hg/galaxy: No such file or directory
  grep: galaxy_dist: No such file or directory

I cut and pasted from your wiki page, and I assume there is no typo...

  $ tar xzf galaxy-dist-tip.tar.gz
  gzip: stdin: unexpected end of file
  tar: Unexpected EOF in archive
  tar: Unexpected EOF in archive
  tar: Error is not recoverable: exiting now

  $ gunzip galaxy-dist-tip.tar.gz
  gunzip: galaxy-dist-tip.tar.gz: unexpected end of file

I guess there is something wrong with this gzipped tar file...

  $ rm galaxy-dist-tip.tar.gz
  $ /bin/rm -rf galaxy-dist

Try it with bz2 file...

  $ bunzip2 galaxy-dist-tip.tar.bz2
  $ tar xf galaxy-dist-tip.tar
  $ echo $?
  0

  $ 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?

Many thanks.

Regards,

Tena Sakai
tsa...@gallo.ucsf.edu


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

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

Reply via email to