[ome-users] export ics 1.0

[Andrew Patterson]

Hi Barna,

Thanks for your private reply to say that it did work after all.

Glad we could help,

Andrew

On 3 Jul 2014, at 13:02, Dudok Barna <dudok at koki.hu> wrote:

> Dear Andrew,
> Thanks for your fast and kind reply!
> Indeed, form ImageJ, calling with '.ids' filename just creates the same ics v2 file with .ids extension in the filename.
> I've tried the workaround, but it didn't work. In your shell output it's also apparent that the resulting .ics is small and the .ids is large. I've renamed the 2 files to swap the extensions, but they can't be opened by any software (imagej just does nothing, NIS Elements crahes).
> Yours,
> Barna
> 
> ----- Original Message -----
> From: "Andrew Patterson" <ajpatterson at lifesci.dundee.ac.uk>
> To: "ome-users at lists.openmicroscopy.org.uk OME-Users" <ome-users at lists.openmicroscopy.org.uk>
> Sent: Thursday, July 3, 2014 12:38:52 PM
> Subject: Re: [ome-users] export ics 1.0
> 
> Hello Barna,
> 
> The ics writer code chooses which version of the file to write based on the file extension chosen for the output filename.
> 
> If you save as filename.ics a single V2 file is produced "filename.ics".
> If you save as filename.ids a two V1 files are produced "filename.ids" & "filename.ics".
> 
> Having said that when we tested this using bio-formats from within imagej we could not get the ids version to work.
> 
> There is however a workaround.
> 
> If you download the bftools package you can perform the conversion with `bfconvert`
> https://www.openmicroscopy.org/site/support/bio-formats5/users/comlinetools/index.html
> 
> If you run
> ./bfconvert yourInputFile outputFile.ics
> You get:
> -rw-r--r--  1 andrew  andrew  1539962  3 Jul 11:17 outputFile.ics
> 
> If you run
> ./bfconvert yourInputFile outputFile.ids
> You get:
> -rw-r--r--  1 andrew  andrew      389  3 Jul 11:17 outputFile.ics
> -rw-r--r--  1 andrew  andrew  1539573  3 Jul 11:17 outputFile.ids
> 
> Hope this helps,
> 
> Andrew
> 
> On 3 Jul 2014, at 10:34, Dudok Barna <dudok at koki.hu> wrote:
> 
>> Hi All, 
>> 
>> Sorry if this should be obvious, but I searched in vain, I hope I can get some help here...
>> I'd like to save images from imagej macro using the Bio-Formats Exporter plugin.
>> The output file is in ics 2.0 format, which cannot be read by the software i need to open it with.
>> The LOCI Bio-Formats documentation says that ics 1.0 and 2.0 are both supported. How can I save the file in ics 1.0 (.ics, .ids file pair) format?
>> Thanks for your help!
>> Barna
>> 
>> Barna Dudok
>> Institute of Experimental Medicine
>> Hungarian Academy of Sciences
>> 43 Szigony str.
>> H-1083
>> Budapest
>> HUNGARY
>> _______________________________________________
>> ome-users mailing list
>> ome-users at lists.openmicroscopy.org.uk
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> 
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