Hi Luciano,
I've moved this over to galaxy-dev since it concerns a local installation.
On Feb 26, 2012, at 6:19 PM, Luciano Cosme wrote:
I have python 2.7 and it seems to be the problem with it. Just formated the partition I had linux and fresh install everything and still have same problem. I did what is recommended here too.
We use Python 2.7 in development and on the public site. If there is a specific problem with 2.7, could you provide details on what it is?
Check your Python version
Galaxy's core functionality is compatible with Python versions 2.5, 2.6, and 2.7. (Version 2.4 support was last included in the November 18, 2011 Distribution). Before reporting bugs, please ensure that python --version reports one of these three versions. If this is not the case, a simple solution is to manipulate your shell's $PATH variable to place the correct version first. This can be done for only Python by creating a new directory at the front of $PATH and creating a symbolic link to python in that directory:
Toggle line numbers 1 % mkdir ~/galaxy-python 2 % ln -s /path/to/python2.5 ~/galaxy-python/python 3 % export PATH=~/galaxy-python:$PATH
On Sat, Feb 25, 2012 at 5:50 PM, Luciano Cosme cosme.simple@gmail.com wrote: Hi Everyone, I have been running a Local Galaxy instance for a long time, but now I am having some problems with uploading data. I am getting the following error: Can't create peek [Errno 2] No such file or directory: '/home/koala2/galaxy-dist/database/files/000/dataset_13.dat'
Can you make sure that you are starting with an empty /home/koala2/galaxy-dist/database/files/ directory? Is that directory writable by the user running Galaxy? The problem is that the tool runs and Galaxy does not detect failure (i.e. something output to STDERR) and yet the tool's output file does not exist.
--nate
and from the Terminal: 127.0.0.1 - - [25/Feb/2012:17:45:00 -0500] "POST /library_common/library_item_updates HTTP/1.1" 200 - "http://127.0.0.1:8080/library_common/browse_library?
sort=name&operation=browse&f-description=All&f-name=All&f-deleted=False&cntrller=library_admin&async=false&show_item_checkboxes=false&webapp=
galaxy&id=f2db41e1fa331b3e&page=1" "Mozilla/5.0 (X11; Ubuntu; Linux x86_64; rv:10.0.2) Gecko/20100101 Firefox/10.0.2"
I reinstalled Unbutu and still having the same issue. I also removed Postgresql 9.1 and reinstalled it. I that it might be an issue with postgresql and not Galaxy, but I am not an expert. Any suggestions will be appreciated.
Thank you.
Luciano
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