[ImageJ-devel] [ImageJ] #1104: Cannot open XML files for TrakEM2

[Curtis Rueden]

Hi Albert et. al,

Barry wrote:
> I have heard nothing back. Albert, I am closing this ticket as invalid. If
> you have more details then reopen this ticket and provide them. Thanks.

The reason Barry heard nothing back is because Albert replied to the
trac at imagej.net email address, which is *not* a shortcut for updating the
Trac ticket, but only goes to me. So I saw his reply months ago (in April)
where it sat in my "to-do" queue until Barry closed the ticket. So sorry
for that, Albert.

Ideally we would set up that email address to update the Trac tickets
intelligently, but it is a technical challenge that would take a
non-trivial amount of time to achieve. So instead I'll ask that if you want
to update a ticket, you either log in to Trac to do it, or just send an
email to imagej-devel about it. Further, I'll try to be better about
handling incoming mail to trac at imagej.net in a prompt fashion.

Albert wrote:
> Regarding ImageJ-2s opener: it is unclear to me if the policy will be
> to be able to open anything from "File - Open" like in ImageJ-1. If
> not, that's fine: TrakEM2 would open from "File - Import - TrakEM2" or
> another appropriate entry point.

The plan is for "File > Open" and "File > Save" to be extensible with I/O
plugins, a particular type of ImageJ plugin. There is a ticket for this:

    http://trac.imagej.net/ticket/9

Unfortunately, it has been repeatedly pushed back. It is something I am
hoping to finish for beta4 or beta5, though difficult to say for sure at
this point whether it will make it in. It is definitely an important
feature of ImageJ2 we need to complete before the 2.0.0 release version.

Regards,
Curtis


On Wed, Jul 18, 2012 at 12:30 AM, Albert Cardona <sapristi at gmail.com> wrote:

> 2012/7/18 Johannes Schindelin <Johannes.Schindelin at gmx.de>:
> > Hi Albert,
> >
> > On Wed, 18 Jul 2012, Albert Cardona wrote:
> >
> >> 2012/7/17 ImageJ <trac at imagej.net>:
> >> > #1104: Cannot open XML files for TrakEM2
> >> > ----------------------+---------------------------------
> >> >  Reporter:  bdezonia  |       Owner:  bdezonia
> >> >      Type:  defect    |      Status:  closed
> >> >  Priority:  major     |   Milestone:  imagej-2.0.0-beta4
> >> > Component:  other     |     Version:
> >> >  Severity:  serious   |  Resolution:  invalid
> >> >  Keywords:            |  Blocked By:
> >> >  Blocking:            |
> >> > ----------------------+---------------------------------
> >> > Changes (by bdezonia):
> >> >
> >> >  * status:  new => closed
> >> >  * resolution:   => invalid
> >> >
> >> >
> >> > Comment:
> >> >
> >> >  I have heard nothing back. Albert, I am closing this ticket as
> invalid. If
> >> >  you have more details then reopen this ticket and provide them.
> Thanks.
> >>
> >> "create  trakem2 project, push s to save it into an xml file, them run
> >> imagej2 file open."
> >>
> >> You will see that it does not open as TrakEM2, but the LOCI dialog
> opens.
> >
> > As sad as it makes me, Barry does not have Fiji installed. The best way
> to
> > let him reproduce, therefore, is to provide a minimal TrakEM2 project,
> > maybe zipped up.
> >
> > If you do not expect plain ImageJ to work without TrakEM2 installed as a
> > plugin, please say so and zip up a minimal installation. Using the Fiji
> > Package Manager, this is easy.
> >
> > Ciao,
> > Johannes
>
>
> There are several TrakEM2 XML online, here is one:
>
>   http://www.ini.uzh.ch/~acardona/data/Seg.tar.bz2
>
> (Used in the EM segmentation challenge:
> http://www.ini.uzh.ch/~acardona/data.html )
>
>
> Regarding ImageJ-2s opener: it is unclear to me if the policy will be
> to be able to open anything from "File - Open" like in ImageJ-1. If
> not, that's fine: TrakEM2 would open from "File - Import - TrakEM2" or
> another appropriate entry point.
>
> Albert
>
>
>
> --
> http://albert.rierol.net
> http://www.ini.uzh.ch/~acardona/
>
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