[ome-users] How to get timestamp when using bfconvert

[FangfeiLi]

Hi, Moore,

I think you got my idea.
I mean when you take the photo using the microscopy, you got a nd2 file. The nd2 file should record the actual time each image was taken.
The nd2 file is a video consists of all images. Therefore, each image in the nd2 file should contain the information of the 
actual time that the image is taken. when I use bfconvert to convert the nd2 file to tiff file, I want to save that information also.

Using %A may give me the actual time the first image was taken in the nd2 file. However, it could not give the actual time all 
the other images was taken in the same nd2 file. Due to there might be something wrong that the image was not taken as the the time I set. So I need to get the information of the actual time the image was taken. 

So my question is that the actual time the image was taken is still conserved when I use bfconvert to convert nd2 to tiff, and how can I get that information (actual time)?

Thank you so much and best regards!
Fangfei

> On Dec 16, 2014, at 11:19 AM, Melissa Linkert <melissa at glencoesoftware.com> wrote:
> 
> Hi Fangfei,
> 
>>>> When I use bfconvert to convert a nd2 file into a number of tiff files,
>>>> is there a way to extract the timestamp of each image, i.e., the time
>>>> each image is taken by microscope camera?
> 
>> It seems like Fangfei wanted to know the timestamp of each tiff,
>> E.g. timepoint 0 is 0 seconds
>> 	timepoint 1 is 10.5 seconds
> 
> If you are indeed hoping to record the timestamp, the only way to do so
> now is by using the %A option in the output file name, for example:
> 
>  bfconvert file.nd2 output-file_%A.tiff
> 
> %A gives the full timestamp of the first image stored in the output
> file.  So if the start of the acquisition was 2014-12-16T10:15:00 and
> the first image was acquired 5 seconds later, the output file name would
> be output-file_2014-12-16T10:15:05.tiff.  There is not currently a
> built-in way of recording just the timestamp from the beginning of the
> acquisition, but it could be added if that would be useful.
> 
> Regards,
> -Melissa
> 
> On Tue, Dec 16, 2014 at 12:11:23PM +0000, William Moore wrote:
>> It seems like Fangfei wanted to know the timestamp of each tiff,
>> E.g. timepoint 0 is 0 seconds
>> 	timepoint 1 is 10.5 seconds
>> 		etc.
>> 
>> Am I right?
>> 
>> On 16 Dec 2014, at 11:48, "Balaji Ramalingam (Staff)" <b.ramalingam at dundee.ac.uk> wrote:
>> 
>>> Hi,
>>> 
>>> If the question is about converting each time point into an image,
>>> The following example should help,
>>> 
>>> bfconvert -timepoint 0 /path/to/input output-first-timepoint.tiff
>>> 
>>> 
>>> The above example converts the first time point alone (-timepoint 0).
>>> 
>>> For more information on bfconvert, please follow the following link,
>>> http://www.openmicroscopy.org/site/support/bio-formats5/users/comlinetools/
>>> conversion.html
>>> 
>>> Hope that helps.
>>> 
>>> Best,
>>> Balaji
>>> 
>>> __________________
>>> Mr Balaji Ramalingam
>>> Software Developer
>>> 
>>> OME Team
>>> College of Life Sciences
>>> University of Dundee
>>> 
>>> 
>>> 
>>> 
>>> 
>>> 
>>> On 15/12/2014 18:59, "FangfeiLi" <lifangfei at hotmail.com> wrote:
>>> 
>>>> Hello,
>>>> 
>>>> May I ask a question?
>>>> 
>>>> When I use bfconvert to convert a nd2 file into a number of tiff files,
>>>> is there a way to extract the timestamp of each image, i.e., the time
>>>> each image is taken by microscope camera?
>>>> 
>>>> Thank you very much and best regards!
>>>> Fangfei
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>>> 
>>> 
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