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Opening avi files

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Horowitz, Arie

Opening avi files

Hello,
I have tried to open in ImageJ avi files generated by the PerkinElmer UltraVox spinning disk confocal microscope software. The response is an error message: Unsupported compression: 4d415234 ‘CRAM’

Based on a suggestion on the ImageJ website, I opened the file with QuickTime and saved it as a mov file. When I tried to open that file with ImageJ, the Bio-Formats Import Options menu opened up. I clicked open without changing the default settings, but simply nothing happens or appears on the screen. I have repeated this after selecting <use virtual stack> and/or <open all series> (intelligent (?) guesses) but nothing happened again.

I would appreciate your advice.

Thank you,
Arie

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mg_info.txt (1K) Download Attachment

Michael Schmid

Re: Opening avi files

Hi Arie,

some alternative ways for converting:

- Use FFMPEG (free video conversion software, command-line based) to
convert to a format readable by ImageJ. E.g.
ffmpeg -i infile.avi -pix_fmt nv12 -f avi -vcodec rawvideo outfile.avi

- The icy video importer plugin should also read the CRAM file (I have
never tried it, however):
http://icy.bioimageanalysis.org/plugin/Video_Importer

By the way, CRAM is Microsoft Video 1, an early lossy compression.

Concerning the Quicktime file, obviously the first thing to check is
whether it works in Quicktime player or VLC; if it does, it might be worth
sending it with a bug report to the Bio-Formats team.

Michael
_____________________________________________________________

On Fri, April 10, 2015 21:49, Horowitz, Arie wrote:

> Hello,
> I have tried to open in ImageJ avi files generated by the PerkinElmer
> UltraVox spinning disk confocal microscope software. The response is an
> error message: Unsupported compression: 4d415234 CRAM
>
> Based on a suggestion on the ImageJ website, I opened the file with
> QuickTime and saved it as a mov file. When I tried to open that file with
> ImageJ, the Bio-Formats Import Options menu opened up. I clicked open
> without changing the default settings, but simply nothing happens or
> appears on the screen. I have repeated this after selecting <use virtual
> stack> and/or <open all series> (intelligent (?) guesses) but nothing
> happened again.
>
> I would appreciate your advice.
>
> Thank you,
> Arie

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ctrueden

Re: Opening avi files

Another really nice media converter I discovered recently is Macroplant's
Adapter. It is a super easy to use front end for FFMPEG and VLC.

Regards,
Curtis
On Apr 12, 2015 9:32 AM, "Michael Schmid" <[hidden email]> wrote:

> Hi Arie,
>
> some alternative ways for converting:
>
> - Use FFMPEG (free video conversion software, command-line based) to
> convert to a format readable by ImageJ. E.g.
> ffmpeg -i infile.avi -pix_fmt nv12 -f avi -vcodec rawvideo outfile.avi
>
> - The icy video importer plugin should also read the CRAM file (I have
> never tried it, however):
> http://icy.bioimageanalysis.org/plugin/Video_Importer
>
> By the way, CRAM is Microsoft Video 1, an early lossy compression.
>
>
> Concerning the Quicktime file, obviously the first thing to check is
> whether it works in Quicktime player or VLC; if it does, it might be worth
> sending it with a bug report to the Bio-Formats team.
>
>
> Michael
> _____________________________________________________________
>
> On Fri, April 10, 2015 21:49, Horowitz, Arie wrote:
> > Hello,
> > I have tried to open in ImageJ avi files generated by the PerkinElmer
> > UltraVox spinning disk confocal microscope software. The response is an
> > error message: Unsupported compression: 4d415234 ‘CRAM’
> >
> > Based on a suggestion on the ImageJ website, I opened the file with
> > QuickTime and saved it as a mov file. When I tried to open that file with
> > ImageJ, the Bio-Formats Import Options menu opened up. I clicked open
> > without changing the default settings, but simply nothing happens or
> > appears on the screen. I have repeated this after selecting <use virtual
> > stack> and/or <open all series> (intelligent (?) guesses) but nothing
> > happened again.
> >
> > I would appreciate your advice.
> >
> > Thank you,
> > Arie
>
> --
> ImageJ mailing list: http://imagej.nih.gov/ij/list.html
>

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Horowitz, Arie

Re: Opening avi files

Thank you both, Curtis and Michael.
Macroplant¹s Adapter wasn¹t able to convert the file to any format
readable by ImageJ.
The video importer of Icy did it - I wasn¹t aware of its existence, and it
includes ImageJ.

Arie

On 4/12/15, 11:01 AM, "Curtis Rueden" <[hidden email]> wrote:

>Another really nice media converter I discovered recently is Macroplant's
>Adapter. It is a super easy to use front end for FFMPEG and VLC.
>
>Regards,
>Curtis
> On Apr 12, 2015 9:32 AM, "Michael Schmid" <[hidden email]>
>wrote:
>
>> Hi Arie,
>>
>> some alternative ways for converting:
>>
>> - Use FFMPEG (free video conversion software, command-line based) to
>> convert to a format readable by ImageJ. E.g.
>> ffmpeg -i infile.avi -pix_fmt nv12 -f avi -vcodec rawvideo outfile.avi
>>
>> - The icy video importer plugin should also read the CRAM file (I have
>> never tried it, however):
>> http://icy.bioimageanalysis.org/plugin/Video_Importer
>>
>> By the way, CRAM is Microsoft Video 1, an early lossy compression.
>>
>>
>> Concerning the Quicktime file, obviously the first thing to check is
>> whether it works in Quicktime player or VLC; if it does, it might be
>>worth
>> sending it with a bug report to the Bio-Formats team.
>>
>>
>> Michael
>> _____________________________________________________________
>>
>> On Fri, April 10, 2015 21:49, Horowitz, Arie wrote:
>> > Hello,
>> > I have tried to open in ImageJ avi files generated by the PerkinElmer
>> > UltraVox spinning disk confocal microscope software. The response is
>>an
>> > error message: Unsupported compression: 4d415234 ŒCRAM¹
>> >
>> > Based on a suggestion on the ImageJ website, I opened the file with
>> > QuickTime and saved it as a mov file. When I tried to open that file
>>with
>> > ImageJ, the Bio-Formats Import Options menu opened up. I clicked open
>> > without changing the default settings, but simply nothing happens or
>> > appears on the screen. I have repeated this after selecting <use
>>virtual
>> > stack> and/or <open all series> (intelligent (?) guesses) but nothing
>> > happened again.
>> >
>> > I would appreciate your advice.
>> >
>> > Thank you,
>> > Arie
>>
>> --
>> ImageJ mailing list: http://imagej.nih.gov/ij/list.html
>>
>
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>ImageJ mailing list: http://imagej.nih.gov/ij/list.html

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mg_info.txt (1K) Download Attachment

Cammer, Michael

Re: Opening avi files

If the file opens in Quicktime, I recommend the $30 for Quicktime Pro which will output in many formats including a folder full of jpgs or tifs.
_________________________________________
Michael Cammer, Optical Microscopy Specialist
http://ocs.med.nyu.edu/microscopy
http://microscopynotes.com/
Cell: (914) 309-3270

________________________________________
From: ImageJ Interest Group [[hidden email]] on behalf of Horowitz, Arie [[hidden email]]
Sent: Monday, April 13, 2015 10:34 AM
To: [hidden email]
Subject: Re: Opening avi files

Thank you both, Curtis and Michael.
Macroplant¹s Adapter wasn¹t able to convert the file to any format
readable by ImageJ.
The video importer of Icy did it - I wasn¹t aware of its existence, and it
includes ImageJ.

Arie

On 4/12/15, 11:01 AM, "Curtis Rueden" <[hidden email]> wrote:

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