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Hi Kris,

Have you got stack buffering enabled in MetaMorph? A 2GB file on a system with 3GB of RAM is going to be pushing the limits a bit.

To enable stack buffering open MetaMorph, go to Edit--> Preferences and then go to the Stack buffering tab. You can then set the parameters as you need them so save RAM, the rest will be cached on the drive until needed.

Your other option would be to open as much as you can in ImageJ (or I recommend Fiji) and export each slice as a an individual tiff. Then you can rebuild it as a STK file in MetaMorph which will handle larger file sizes better. Then just repeat this for the other parts of the file (last 1000 frames or so) you couldn't open the first time.

Cheers

Cam


Cameron J. Nowell
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Centre for Advanced Microscopy 
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-----Original Message-----
From: Confocal Microscopy List [mailto:[log in to unmask]] On Behalf Of krisford
Sent: Thursday, 30 June 2011 6:39 AM
To: [log in to unmask]
Subject: Re: Files not opening in Metamorph?

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Christian

The file is 2.076 GB in size.  Rougly 80% of the file opens in ImageJ, and
we are trying to adjust the file size limit to match the size of the file. 
So we see 4000 of the roughly 5000 frames.  ImageJ isn't letting us go
beyond 1.6 GB, so we thought we'd go back and try Metamorph, but it
wouldn't open at all.  We will look at the download you sent, and see how
that goes.  If the problem persists I would definitely like to contact you
and send a sample .tif file.  Thanks for the assitance.

Kris


On Wed, 29 Jun 2011 21:35:02 +0200, Christian Götze
<[log in to unmask]> wrote:
> *****
> To join, leave or search the confocal microscopy listserv, go to:
> http://lists.umn.edu/cgi-bin/wa?A0=confocalmicroscopy
> *****
> 
> *** Commercial response ***
> 
> Hi Kris,
> 
> what does "about 2 gigabytes" mean? Is it below 2 GB or above? Although 
> the TIFF standard uses 32 Bit pointers and thus defines TIFFs up to 4 
> GB, several of the TIFF libraries available use "signed pointers" and 
> therefore can't open stacks larger than 2 GB.
> 
> But of course the file could be simply corrupted and therefore can't be 
> read by Metamorph.
> 
> Perhaps you should try to open it with other software (ImageJ,
Photoshop).
> 
> In our applications we use a special modded TIFF library to open large 
> TIFFs. You can download a trial at
> 
> http://www.arivis.com/en/arivis-Vision-4D
> 
> If your problems persist we could have a look on your data. Just write a 
> mail if interested.
> 
> Best,
> Christian
> 
> Am 29.06.2011 21:06, schrieb krisford:
>> *****
>> To join, leave or search the confocal microscopy listserv, go to:
>> http://lists.umn.edu/cgi-bin/wa?A0=confocalmicroscopy
>> *****
>>
>> Hi,
>>
>> I took a live streaming in Metamorph and saved it in a TIFF video file. 
>> I
>> tried to open it later in Metamorph and got the message unable to open.
>> The file was about 2 gigabytes and 5400 frames.  I'm using 64-Bit
Windows
>> and have about 3 gigs of RAM.  Can anyone help?  It would be sincerely
>> appreciated.
>>
>> Thanks,
>> Kris


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