[ome-users] Batch import of images AND attachments

[Josh Moore]

Hi Graeme,

On Dec 10, 2013, at 3:32 PM, Graeme Ball wrote:

> The biggest problem is that the importer does not seem to return the ID of
> the image after completing the upload, and you need this ID to add your
> attachments etc.

The stdout from the CLI importer is the ID of the Pixels objects (as opposed
to the Image objects). You can also pipe these values to a file for later
consumption.


> we wanted to do the same thing, and ended up writing a python script that
> performs the upload in 2 steps:-
> 1. upload the images using the command line importer (you can invoke it
> from python)
> 2. use the Blitz gateway to add attachments and annotations


Would you be up for sharing the script?

Cheers,
~Josh


> Regards,
> 
> Graeme
> 
> 
> On Tue, Dec 10, 2013 at 10:26 AM, John Webber (NBI)
> <John.Webber at nbi.ac.uk>wrote:
> 
>> Hi all,
>> 
>> 
>> 
>> I have been using the command line importer to import images into an Omero
>> instance as follows:
>> 
>> 
>> 
>> bin/omero -s $RemoteHost -u "$User" -w "$Password" -p $Port import -d
>> $Dataset $File
>> 
>> 
>> 
>> Can anyone let me know if I can also use this format of command to import
>> ATTACHMENTS to specific images and, if so, please can you advise me of the
>> correct syntax?
>> 
>> 
>> 
>> If it is not possible to import attachments to specific images, is anyone
>> able to recommend how we can do a batch upload of images AND their
>> attachments, into Omero?
>> 
>> 
>> Thanks
>> 
>> John
>>