[ome-users] LOCI bioformats importer

[Curtis Rueden]

Hi Michael,

> Actually, this is why I stay away from FIJI; too many things change
> too fast and get auto-updated before I have a chance to QC them.

Two comments about that:

1) We now ship stable releases of Bio-Formats with Fiji by default. If you
want the daily builds, you have to explicitly enable them as described at
http://fiji.sc/Bio-Formats#Daily_builds

2) You can of course turn off updating in Fiji, and only update when you
need a new feature.

What is missing is the ability to "roll back" to a previous known-to-work
state. We plan to add this to ImageJ2/Fiji in the future.

Regards,
Curtis


On Thu, Sep 19, 2013 at 11:36 AM, Cammer, Michael <
Michael.Cammer at med.nyu.edu> wrote:

>  Dear Curtis,****
>
> ** **
>
> Thank you for getting back to Chase so quickly while I was out to an early
> lunch.****
>
> ** **
>
> I sent him rev 750b4ab, built 2 May 2013 and he emailed me he thinks it's
> working.****
>
> ** **
>
> Let's see.  If all is working fine now, I guess there was a change since
> then.  ****
>
> ** **
>
> Actually, this is why I stay away from FIJI; too many things change too
> fast and get auto-updated before I have a chance to QC them.****
>
> ** **
>
> Regards,****
>
> ** **
>
> Michael****
>
> ** **
>
> ________________________________________________________****
>
> Michael Cammer, Assistant Research Scientist****
>
> Microscopy Core, NYU Langone Medical Center & Skirball Institute of
> Biomolecular Medicine****
>
> Cell: (914) 309-3270   Microscopy Lab: (212) 263-7099   Dustin Lab: (212)
> 263-3208  ****
>
> ** **
>
> ** **
>
> ** **
>
> *From:* ctrueden.wisc at gmail.com [mailto:ctrueden.wisc at gmail.com] *On
> Behalf Of *Curtis Rueden
> *Sent:* Thursday, September 19, 2013 12:02 PM
> *To:* Demarest, Chase
> *Cc:* melissa at GLENCOESOFTWARE.COM; Cammer, Michael; OME-users mailing list
> *Subject:* Re: LOCI bioformats importer****
>
> ** **
>
> Hi Chase,****
>
> ** **
>
> > I would like to reach the prompt where I can select distinct series.****
>
> ** **
>
> The Series Options dialog will appear if:****
>
> A) The dataset has multiple series; and****
>
> B) The "Open all series" box is not checked.****
>
> ** **
>
> Are you and your colleague both using the same .scn file?****
>
> ** **
>
> If so, double check the version of Bio-Formats on each machine:****
>
> Help > About Plugins > LOCI Plugins****
>
> ** **
>
> Do you both have the same "revision" code and build date?****
>
> ** **
>
> I suggest using Fiji with the latest Bio-Formats daily build, as described
> at:****
>
> http://fiji.sc/Bio-Formats#Daily_builds****
>
> ** **
>
> Regards,****
>
> Curtis****
>
> ** **
>
> On Thu, Sep 19, 2013 at 10:51 AM, Demarest, Chase <
> Chase.Demarest at med.nyu.edu> wrote:****
>
> Hello Melissa and Curtis, ****
>
> ** **
>
> I am attempting to import an .scn image file into imageJ using the LOCI
> bioformats importer plugin. I would like to reach the prompt where I can
> select distinct series. Attached are two screenshots, one is the import
> options screen that I reach when I select a file to import - when I click
> OK it loads the image without prompting for series options. The second
> screenshot is the series option prompt (from a colleague's PC) that I would
> like to reach. I am working on a macbook pro laptop. Windowless is not
> checked in LOCI plugins preferences.****
>
> ** **
>
> Can you tell me if I am missing a step to reach the series options prompt?
> ****
>
> ** **
>
> Thank you,****
>
> ** **
>
> Chase Demarest****
>
> Blaser Lab****
>
> NYU****
>
> ** **
>
-------------- next part --------------
An HTML attachment was scrubbed...
URL: <http://lists.openmicroscopy.org.uk/pipermail/ome-users/attachments/20130919/53cc19bb/attachment.html>