[ome-users] Assistance for batch downloading files from OMERO

[Balaji Ramalingam (Staff)]

Hi Shruthi,


Thank you for reporting your issue.


Testing the same with a 4.4.10 server locally, we were unable to reproduce the issue.

I was running the “batch_image_export.py” script on a couple of images and the export (as *.ome.tiff or *.tiff) went through without any issues.


But we have seen similar cases in 2014 when restarting the processor has solved the issue. Please follow the suggestions in the following link,

https://www.openmicroscopy.org/community/viewtopic.php?f=5&t=7441#p13543

Please let us know if this does not fix your issue.

It would also help if you could share the workflow that you had followed. This would help us troubleshoot the issue in better detail.


Points to consider:


  1.  Generally the help.openmicroscopy links contain workflows which are streamlined towards the latest release version of OMERO (i.e. OMERO 5.2.7 in this case). Thus you might not find a few features in older versions.
  2.  It would always help to use the latest version of the software (given the support, features, security and stability improvements). The release notes for all versions of OMERO are highlighted in the following link,
     *   http://www.openmicroscopy.org/site/support/omero5.2/users/history.html


Hope that helps.


Best,

Balaji


__________________

Mr Balaji Ramalingam

Software Developer

OME Team

School of Life Sciences

University of Dundee

From: ome-users <ome-users-bounces at lists.openmicroscopy.org.uk<mailto:ome-users-bounces at lists.openmicroscopy.org.uk>> on behalf of Shruthi Balachandra <sbalacha at stanford.edu<mailto:sbalacha at stanford.edu>>
Reply-To: OME User Support List <ome-users at lists.openmicroscopy.org.uk<mailto:ome-users at lists.openmicroscopy.org.uk>>
Date: Thursday, 9 February 2017 at 03:36
To: "ome-users at lists.openmicroscopy.org.uk<mailto:ome-users at lists.openmicroscopy.org.uk>" <ome-users at lists.openmicroscopy.org.uk<mailto:ome-users at lists.openmicroscopy.org.uk>>
Subject: [ome-users] Assistance for batch downloading files from OMERO


Hi,


I'm Shruthi working with Lucy Erin O'Brien Stanford School of Medicine, USA. We have been using OMERO (Version 4.4.10) for organizing our data. Now we are having trouble batch downloading files. We can download individual images but not in batches. It gives a error message saying that processor is not available. Please could you let me know how to batch download the files? ( I followed the instructions given from http://help.openmicroscopy.org/export.html). Also,  I want to know  whether batch downloading would work if we upgrade the software? I would like to mention that we could upgrade the program but we will be happy to have what we have now.


Looking for hearing from you

Thanks

Shruthi


Shruthi Balachandra

Lucy O'Brien Lab

Molecular and Cellular Physiology

Stanford School of Medicine

Stanford

Exporting Images - Open Microscopy Environment<http://help.openmicroscopy.org/export.html>
help.openmicroscopy.org
How to export any image as an OME-TIFF file, save it as a JPEG, PNG or TIFF or if it was archived at import, download it in the original image format.




Thanks

Shruthi


The University of Dundee is a registered Scottish Charity, No: SC015096
-------------- next part --------------
An HTML attachment was scrubbed...
URL: <http://lists.openmicroscopy.org.uk/pipermail/ome-users/attachments/20170210/05a7c7ba/attachment.html>