[ome-users] PYTHONPATH

[John Wallach]

I can't speak to whether you can upgrade directly but you should be able to
make sure your pythonpath is set correctly pretty easily. Edit the .bashrc
with whatever edit you are comfortable with (nano or pico are good choices
if you are not familiar with any) with the command:
nano .bashrc
then add:
export PYTHONPATH=$PYTHONPATH:/home/omero_user/omero_path/lib/python/
to the file.

jmw

On Sat, Dec 12, 2009 at 5:15 AM, Gordon W. Laurie <glaurie at virginia.edu>wrote:

> We are having an apparent PYTHONPATH issue (see thread below) and have the
> suggestion from Ruben to edit our /home/@user/.bashrc file then add an
> export PYTHONPATH line.
>
> Two questions:
> 1. Having a limited working knowledge of Unix, how do we edit this file?
> 2. Since we are running OMERO 4.0.3 and Python 2.5.1, should be first do
> upgrades on both, then work out problems later.  Can we upgrade directly
> from OMERO 4.0.3 to 4.1.1?
>
> Gordon.
>
>
>
> Begin forwarded message:
>
> From: Ruben Bernardo Alves <rubenalves at fm.ul.pt>
> Date: December 11, 2009 8:36:05 PM EST
> To: "Gordon W. Laurie" <glaurie at virginia.edu>
> Subject: Re: [ome-users] ImportError: No module name Ice2
>
> I don't know, try to post this question on the OMERO forum.
>
> Cheers
>
> -----"Gordon W. Laurie" <glaurie at virginia.edu> wrote: -----
>
> To: » Ruben Alves <rubenalves at fm.ul.pt>
> From: "Gordon W. Laurie" <glaurie at virginia.edu>
> Date: 12/11/2009 08:05PM
> Subject: Re: [ome-users] ImportError: No module name Ice2
>
> Dear Ruben:
>
> I note that you are using Python2.6.  Would it make sense to upgrade now to
> the latest Python (Python 2.6.4), and to Omero 4.1.1?  Then work out any
> problems later.  Can I go upgrade to the latter directly from 4.0.3?
>
> Gordon.
>
>
>
> On Fri, 11 Dec 2009 10:20:17 +0000
>  » Ruben Alves <rubenalves at fm.ul.pt> wrote:
>
>> OK, try to edit your /home/@user/.bashrc, and at the end add the following
>> line:
>> export
>> PYTHONPATH=/usr/lib/pymodules/python2.6/:/opt/Ice-3.3/python/:/@your_OMERO_path/lib/python/:/usr/local/lib/python2.6/:/usr/lib/python2.6/
>>
>> There are severals path for python lib, I was able to run "something" only
>> with long path.
>>
>> note: I'm running Omero 4.1.1
>>
>> Cheers
>>
>>
>>
>>
>> Gordon W. Laurie wrote:
>>
>>> Thanks, I ran echo $PYTHONPATH and got '/opt/Ice-3.3/python:'.  I assume
>>> this indicates an okay path. Below is the Python info.
>>>
>>> Gordon.
>>>
>>> Python 2.5.1 (r251:54863, Feb  6 2009, 19:02:12)
>>> [GCC 4.0.1 (Apple Inc. build 5465)] on darwin
>>>
>>>
>>>
>>>
>>> On Thu, 10 Dec 2009 19:21:11 +0000
>>>  Ruben Bernardo Alves <rubenalves at fm.ul.pt> wrote:
>>>
>>>> Hi Gordon,
>>>> Did you check your $PYTHONPATH ?
>>>> ex: echo $PYTHONPATH
>>>>
>>>> note: maybe a python update could break the links or the path.
>>>>
>>>> Cheers
>>>>
>>>>
>>>> -----ome-users-bounces at lists.openmicroscopy.org.uk wrote: -----
>>>>
>>>> To: ome-users at lists.openmicroscopy.org.uk
>>>> From: "Gordon W. Laurie" <glaurie at virginia.edu>
>>>> Sent by: ome-users-bounces at lists.openmicroscopy.org.uk
>>>> Date: 12/10/2009 07:15PM
>>>> Subject: [ome-users] ImportError: No module name Ice
>>>>
>>>>  Upon restarting OMERO, I am encountering 'ImportError: No module named
>>>> Ice'.  Have OMERO 4.0.3 running and Ice 3.3.1.
>>>>
>>>> Any suggestions?
>>>>
>>>> Gordon.
>>>>
>>>>
>>>>
>>>> Gordon W. Laurie, PhD
>>>> Associate Professor
>>>> Department of Cell Biology
>>>> Director, Biotechnology Training Program
>>>> University of Virginia
>>>> _______________________________________________
>>>> ome-users mailing list
>>>> ome-users at lists.openmicroscopy.org.uk
>>>> http://lists.openmicroscopy.org.uk/mailman/listinfo/ome-users
>>>>
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>>>
>>>
>>> Gordon W. Laurie, PhD
>>> Associate Professor
>>> Department of Cell Biology
>>> Director, Biotechnology Training Program
>>> University of Virginia
>>>
>>>
>>
>> --
>> Ruben Alves System Analyst USI @ Instituto de Medicina Molecular
>> Edifício Egas Moniz Av. Prof. Egas Moniz 1649-028 Lisboa Portugal tel:
>> 217999411 ext 47026
>> rubenalves at fm.ul.pt
>>
>>
>>
>
>
>
> Gordon W. Laurie, PhD
> Associate Professor
> Department of Cell Biology
> Director, Biotechnology Training Program
> University of Virginia
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> ome-users at lists.openmicroscopy.org.uk
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