Task #11916 (closed)
Opened 10 years ago
Closed 10 years ago
BUG: Kymograph script & python on Nighshade
| Reported by: | pwalczysko | Owned by: | |
|---|---|---|---|
| Priority: | critical | Milestone: | 5.0.0 |
| Component: | Scripting | Version: | 5.0.0-rc1 |
| Keywords: | n.a. | Cc: | ux@…, spli |
| Resources: | n.a. | Referenced By: | n.a. |
| References: | n.a. | Remaining Time: | n.a. |
| Sprint: | n.a. |
Description
During the OMERO drop-in session, working on Nightshade, it was found that the Kymograph script produces scrambled images when executed. This was previously ok.
See screenshot.
The problem is there also on Trout.
See screenshot.
Trout has the same version of PIL (though a different version of numpy) installed,
[spli@nightshade2 ~]$ rpm -q python-imaging numpy
python-imaging-1.1.6-19.el6.x86_64
numpy-1.3.0-6.2.el6.x86_64
[spli@ome-c6100-3 ~]$ pip freeze
...
PIL==1.1.6
numpy==1.4.1
numexpr==1.4.2
tables==2.4.0
scipy==0.7.2
…
If that doesn't work then I think we'll need to redo the python dependencies on Nightshade, which could be non-trivial. For instance it's also also missing pytables (which has other dependencies, with particular version requirements), so it might be worth setting up a virtualenv incorporating (or not) the system packages. I've just tried installing tables from scratch in a CentOS VM (verifying the OMERO.searcher install instructions) and it's a bit of a pain at the moment. Or rebuild and push out our own RPMs (I've got some).
Simon
Attachments (3)
Change History (4)
Changed 10 years ago by pwalczysko
Changed 10 years ago by pwalczysko
Changed 10 years ago by pwalczysko
comment:1 Changed 10 years ago by spli
- Resolution set to duplicate
- Status changed from new to closed
Will beat you to it: #11912