Re: [Gofigure2-users] microscopy image analysis track at NAMIC

[Curtis R. <ctr...@wi...>]

Hi Arnaud,

Thanks for downloading and testing gofigure! In this version, and even the
> following one 0.4.2, we only supports couple of file type:
>

Thanks for the information and links; I tried a JPEG file and it works. I
have hit a very busy development period now but will try to find time to
play with GoFigure2 more later.

Soon, we would like to propose to gofigure's users the possibility to
> benefit from bio-format readers.
> Actually we would like to discuss with you about the best way to benefit
> from bioformat with the license constraints.
>

Good news on that front. We are planning to split Bio-Formats into two
parts: 1) a "bf-core" library which will be BSD-licensed, including the core
infrastructure, interfaces and OME-TIFF support; and 2) the full Bio-Formats
library, which will remain GPL, and contain support for all the life
sciences formats.

This change should allow the Bio-Formats ITK plugin code to be included in
ITK itself without any legal ambiguity. And the bf-core.jar could even be
distributed freely with ITK as well. Then, to add full support for life
sciences formats, all a GoFigure2 user would have to do is download the full
Bio-Formats JAR and drop it into a folder on the classpath somewhere. Not
too bad a compromise, I think.

Timeline on this work is later this summer—we'll make an announcement when
it happens.

Regards,
Curtis

On Thu, May 6, 2010 at 5:10 PM, Arnaud GELAS
<arn...@hm...>wrote:

>  [...]
>
>
>  P.S. I gave GoFigure2-0.4.1-Darwin-i386 a spin on my system, but it crashed
> loading a TIFF file. Do you know of any sample data available online for use
> with GoFigure2?
>
>
>
>
>
> Hi Curtis,
>
> Sorry for the late reply,
>
> I am happy to hear the good news of the upcoming +1 in your life!
>
> Thanks for downloading and testing gofigure! In this version, and even the
> following one 0.4.2, we only supports couple of file type:
>
>    - 2d: png, jpeg, bmp, Meta Image format, lsm, tiff
>     - 3d: Meta Image format, lsm
>    - 4d: lsm, megacapture
>
> Now regarding the problem with your tiff image, it might be a multipage
> tiff and the current version does not support it yet.
>
> We recently post some data on the sourceforge repository.
> Stay tuned, we are going pretty soon to release 0.4.3, with a "one-click
> segmentation" feature.
>
> I also invite you
>
>    - to join gofigure2 mailing list:
>    https://lists.sourceforge.net/lists/listinfo/gofigure2-users
>    where you can post such kind of questions, report bugs, problems, etc.
>    - to have a look at tutorials:
>    http://www.youtube.com/user/TheGoFigure2SF
>
>
> Soon, we would like to propose to gofigure's users the possibility to
> benefit from bio-format readers.
> Actually we would like to discuss with you about the best way to benefit
> from bioformat with the license constraints.
>
> Best,
> Arnaud
>