Re: any image database that can be integrated in ImageJ?

Posted by Tomas Karlsson-2 on Sep 12, 2011; 7:49pm
URL: http://imagej.273.s1.nabble.com/any-image-database-that-can-be-integrated-in-ImageJ-tp3683165p3683170.html

12 sep 2011 kl. 20:57 skrev Michael Schmid:

> Hi all,
>
> OME looks great, but I need something that runs also offline.
>
> Does 'downloading' mentioned mean that I will be able to have a local copy on my computer?
> Ideally, after some offline editing it would be nice if I could sync the annotations etc with the server.

Hi, theoretically by downloading and uploading images between the times you are offline, you could work with those images offline but then you have to have imagej/software running the whole time your offline and you would not be able to search the database etc while offline, this is not a good solution for most users.  Implementing offline replication in a image-database solution is not a easy thing to do, which is why you will find image-databasess either as personal editions (local to your machine) or shared with other users ( data and queries run on server, no offline replication). Do you have a requirement for being offline or off-site and working with the database? If its for working off-site would it not be a better solution to use a VPN when your off-site? It will solve the security questions and offer the biggest flexibility to your users since we live in a connected world.

best regards,

Tomas

>
> Michael
> ________________________________________________________________
>
> On 12 Sep 2011, at 17:29, Kevin W Eliceiri wrote:
>
>> There is currently a plugin for downloading images from the OME database into ImageJ. However we in the OME consortium are working to improve this plugin, including adding functionality for upload and download and taking advantage of the FIJI  (http://fiji.sc/) and ImageJ2 efforts (www.imagejdev.org).
>>
>> Please contact us if any questions.
>>
>>
>> best
>> kevin
>>
>> On 09/12/11, John Oreopoulos   wrote:
>>> It's not integrated with ImageJ, but you should take a look at the Open Microscopy Environment (OME).
>>>
>>> http://www.openmicroscopy.org/site
>>>
>>> John Oreopoulos
>>> Research Assistant
>>> Spectral Applied Research
>>> Richmond Hill, Ontario
>>> Canada
>>> www.spectral.ca
>>>
>>>
>>>
>>> Quoting Michael Schmid <[hidden email]>:
>>>
>>>> Hi everyone,
>>>>
>>>> before I start reinventing the wheel:
>>>>
>>>> Is anyone of you aware of an image database that can be integrated in ImageJ?
>>>>
>>>> Features that I would like:
>>>>
>>>> - Adding keywords, free text (annotations), quality rating to images
>>>> (and possibly more)
>>>> - Offline use, with possibility for syncing with central server (the
>>>> easiest would be WebDAV via the file system; setting up MySQL without
>>>> security problems seems more difficult). Syncing with several users
>>>> working on one database would probably be easiest with timestamps, the
>>>> last edit of each item replacing old edits.
>>>> - Image name (best without extension, with or without directory with
>>>> respect to some base path) as image identification
>>>> - Separate databases for different directories/sets of directories
>>>> - Should work on Windows and Mac OS X
>>>> - Of course open source, so I can modify it according to my needs.
>>>>
>>>>
>>>> Michael
>>
>> --
>> Kevin W. Eliceiri
>> Director and Principal Investigator
>> Laboratory for Optical and Computational Instrumentation (LOCI)
>> http://www.loci.wisc.edu
>> Departments of Molecular Biology and Biomedical Engineering
>> Affiliate Investigator, Morgridge Institute for Research (MIR)
>> Room 271 Animal Sciences
>> 1675 Observatory Drive
>> Madison, WI 53706
>> Phone: [phone]
>> Fax: [phone]