[ome-users] Web Interface for Omero Clients.
Jason Swedlow
jason at lifesci.dundee.ac.uk
Thu Apr 16 22:17:08 BST 2009
Hi Sriram-
I'm not sure if I understand your question.
If you're asking why are there no web interface-based clients for
OMERO-- there are!
For an overview of OMERO clients, see:
http://www.openmicroscopy.org/site/documents/data-management/omero4/clients
For pages about OMERO.web, see:
http://www.openmicroscopy.org/site/documents/data-management/omero4/clients/web
For more screenshots, see:
http://www.openmicroscopy.org/site/screenshots
And for instructions on how to get OMERO.web running, see:
http://www.openmicroscopy.org/site/documents/data-management/omero4/server/install-web
Note that we just released the first version of OMERO.web a few weeks
ago, and are working hard on expanding its functionality. Any ideas
about this, please do let us know.
Cheers,
Jason
On 16 Apr 2009, at 21:36, Nandakumar, Sriramkumar wrote:
> Hi Jason,
> I have doubt regarding Omero Clients.
> Why Omero clients are not accessible through web Interfaces?
> I am asking this because, the users should mandatory have Omero
> Insight and Importer to handle images.
> Do you have any idea about support for Omero Clients through web
> Interfaces in the future?
>
> Thanks in Advance.
>
> Thanks & Regards,
> Sriram.
> ________________________________________
> From: Jason Swedlow [jason at lifesci.dundee.ac.uk]
> Sent: Wednesday, April 15, 2009 2:48 PM
> To: Nandakumar, Sriramkumar
> Cc: ome-users at lists.openmicroscopy.org.uk
> Subject: Re: Regarding Handling of Large Size Images.
>
> Hi Sriram-
>
> Sorry for the omission.
>
> As always, see our Roadmaps:
>
> http://trac.openmicroscopy.org.uk/omero/roadmap
>
> Large images will come in September 2009, with Beta4.2.
>
> Cheers,
>
> Jason
>
> On 15 Apr 2009, at 18:57, Nandakumar, Sriramkumar wrote:
>
> Hi Jason,
> Yes it is aperio format. Do you have any idea of support for scan
> scope images in future omero releases?
>
> Thanks & Regards,
> Sriram.
> ________________________________
> From: Jason Swedlow [jason at lifesci.dundee.ac.uk<mailto:jason at lifesci.dundee.ac.uk
> >]
> Sent: Wednesday, April 15, 2009 4:29 AM
> To: Nandakumar, Sriramkumar
> Cc: ome-users at lists.openmicroscopy.org.uk<mailto:ome-users at lists.openmicroscopy.org.uk
> >
> Subject: Re: Regarding Handling of Large Size Images.
>
> Hi Sriram-
>
> On 14 Apr 2009, at 21:48, Nandakumar, Sriramkumar wrote:
>
> Hi Jason,
> Thanks for your email. I can help you out in providing use cases.
> And also I shall provide you test datas (Images with different
> dimensions) for your development.
>
> That's great-- contact us off-line for details for upload.
>
>
> We are dealing with scan scope images (.svs files) in our lab. Scan
> scope images are not supported in Omero as of now.
>
> I assume you mean the Aperio format? Aperio's format is not yet
> turned on within OMERO, as we don't yet have a very good mechanism
> for supporting images with large X,Y dimensions.
>
>
> Do you have any idea about the support for Bio formats in future
> Omero releases?
>
> OMERO uses Bio-Formats for its image import. We turn on files
> supported by Bio-Formats within OMERO once we know the file format
> works well, i.e., we have test data, have verified that metadata is
> properly handled, and that images are properly displayed. We have
> some Aperio sets, but more would help.
>
> Thanks again.
>
> Cheers,
>
> Jason
>
>
>
>
>
> ________________________________
> From: Jason Swedlow [jason at lifesci.dundee.ac.uk<mailto:jason at lifesci.dundee.ac.uk
> >]
> Sent: Tuesday, April 14, 2009 6:10 AM
> To: Nandakumar, Sriramkumar
> Cc: ome-users at lists.openmicroscopy.org.uk<mailto:ome-users at lists.openmicroscopy.org.uk
> >
> Subject: Re: Regarding Handling of Large Size Images.
>
> Hi Sriram-
>
> Thanks much for your email.
>
> Indeed, those large images aren't well-handled. Import might work,
> but might not, visualization will be very very slow.
>
> For large images, it is important to distinguish between X and Y
> dimensions and Z, C, T. OMERO handles large Z, C, and T well. Very
> large X, Y (larger than 2k x 2k) is not so great.
>
> You will see this targetted under Beta4.2:
>
> http://trac.openmicroscopy.org.uk/omero/milestone/OMERO-Beta4.2
>
> We are still gathering detailed use cases for this-- any help would
> be most appreciated. If you can let us know exactly what you are
> thinking and will require, would be great.
>
> Cheers,
>
> Jason
>
> On 13 Apr 2009, at 23:23, Nandakumar, Sriramkumar wrote:
>
> Hi Jason,
> Thanks for your email.
> I have a doubt regarding Image sizes.
> We have image sizes of dimension 40000x40000.
> Is it possible to upload large size images irrespective of the
> dimension in latest Omero?
> Could you please clarify this?
>
> Thanks in Advance.
>
> Thanks & Regards,
> Sriram.
> ________________________________________
> From: Jason Swedlow [jason at lifesci.dundee.ac.uk<mailto:jason at lifesci.dundee.ac.uk
> >]
> Sent: Friday, April 10, 2009 7:58 PM
> To: Nandakumar, Sriramkumar
> Cc: Joshua Moore
> Subject: Re: [ome-users] Doubt regarding OMERO Server Installation.
>
> Hi Sriram-
>
> Our lists are down-- the UK registration agent messed us up pretty
> badly.
>
> We routinely import images of 2- 10 GB into OMERO-Beta4.
>
> Please let us know if you have problems.
>
> Cheers,
>
> Jason
>
> On 9 Apr 2009, at 16:22, Nandakumar, Sriramkumar wrote:
>
> Hi Josh,
> Thanks for your email. Now I could able to install Omero Server.
>
> We are having large size scan scope images >500 MB
> Will it be possible to upload those images in Omero Beta Version 4 ??
>
> Thanks & Regards,
> Sriram.
> ________________________________________
> From: josh.moore at gmx.de<mailto:josh.moore at gmx.de> [josh.moore at gmx.de<mailto:josh.moore at gmx.de
> >]
> Sent: Wednesday, April 08, 2009 2:49 PM
> To: Nandakumar, Sriramkumar
> Cc: ome-users at lists.openmicroscopy.org.uk<mailto:ome-users at lists.openmicroscopy.org.uk
> >
> Subject: [ome-users] Doubt regarding OMERO Server Installation.
>
> Nandakumar, Sriramkumar writes:
> Hi,
>
> Hello Sriram,
>
> I have a doubt in OMERO Server installation. Is it mandatory to use
> postgreSQL for OMERO? Will it work for other databases like mysql?
>
> At the moment it is necessary to use Postgres, yes. Porting it to
> mysql is possible, but would require a significant effort at this
> point. Hopefully that's not an undue burden.
>
> Thanks & Regards,
> Sriram.
>
> Best wishes,
> ~Josh.
> _______________________________________________
> ome-users mailing list
> ome-users at lists.openmicroscopy.org.uk<mailto:ome-users at lists.openmicroscopy.org.uk
> >
> http://lists.openmicroscopy.org.uk/mailman/listinfo/ome-users
>
>
>
> **************************
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> University of Dundee
> Dow Street
> Dundee DD1 5EH
> United Kingdom
>
> phone (01382) 385819
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> FAX (01382) 388072
> email: jason at lifesci.dundee.ac.uk<mailto:jason at lifesci.dundee.ac.uk>
>
> Lab Page: http://www.dundee.ac.uk/lifesciences/swedlow/
> Open Microscopy Environment: http://openmicroscopy.org
> **************************
>
> The University of Dundee is a Scottish Registered Charity, No.
> SC015096.
>
>
>
>
>
>
> **************************
> Wellcome Trust Centre for Gene Regulation & Expression
> College of Life Sciences
> MSI/WTB/JBC Complex
> University of Dundee
> Dow Street
> Dundee DD1 5EH
> United Kingdom
>
> phone (01382) 385819
> Intl phone: 44 1382 385819
> FAX (01382) 388072
> email: jason at lifesci.dundee.ac.uk<mailto:jason at lifesci.dundee.ac.uk>
>
> Lab Page: http://www.dundee.ac.uk/lifesciences/swedlow/
> Open Microscopy Environment: http://openmicroscopy.org
> **************************
>
> The University of Dundee is a Scottish Registered Charity, No.
> SC015096.
>
>
>
>
>
>
> **************************
> Wellcome Trust Centre for Gene Regulation & Expression
> College of Life Sciences
> MSI/WTB/JBC Complex
> University of Dundee
> Dow Street
> Dundee DD1 5EH
> United Kingdom
>
> phone (01382) 385819
> Intl phone: 44 1382 385819
> FAX (01382) 388072
> email: jason at lifesci.dundee.ac.uk<mailto:jason at lifesci.dundee.ac.uk>
>
> Lab Page: http://www.dundee.ac.uk/lifesciences/swedlow/
> Open Microscopy Environment: http://openmicroscopy.org
> **************************
>
> The University of Dundee is a Scottish Registered Charity, No.
> SC015096.
>
>
>
>
>
>
> **************************
> Wellcome Trust Centre for Gene Regulation & Expression
> College of Life Sciences
> MSI/WTB/JBC Complex
> University of Dundee
> Dow Street
> Dundee DD1 5EH
> United Kingdom
>
> phone (01382) 385819
> Intl phone: 44 1382 385819
> FAX (01382) 388072
> email: jason at lifesci.dundee.ac.uk<mailto:jason at lifesci.dundee.ac.uk>
>
> Lab Page: http://www.dundee.ac.uk/lifesciences/swedlow/
> Open Microscopy Environment: http://openmicroscopy.org
> **************************
>
> The University of Dundee is a Scottish Registered Charity, No.
> SC015096.
>
>
>
**************************
Wellcome Trust Centre for Gene Regulation & Expression
College of Life Sciences
MSI/WTB/JBC Complex
University of Dundee
Dow Street
Dundee DD1 5EH
United Kingdom
phone (01382) 385819
Intl phone: 44 1382 385819
FAX (01382) 388072
email: jason at lifesci.dundee.ac.uk
Lab Page: http://www.dundee.ac.uk/lifesciences/swedlow/
Open Microscopy Environment: http://openmicroscopy.org
**************************
The University of Dundee is a Scottish Registered Charity, No. SC015096.
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