http://imagej.273.s1.nabble.com/Extracting-tif-Metadata-from-SEM-image-tp5018744p5018755.html
ImageJ does not read. ImageJ takes the info from its private tag
> Hello, Kees.
>
> Thanks for the help. The code using "split" will be helpful to isolate
> the numerical value once I have the raw data. However,
> "print(getMetadata("Info"));" only returns an empty Log window. I am not
> sure what is the difference between "getMetadata("Info")" and "run("Show
> Info...");" , which works but does only show general information about
> image resolution and file size.
>
> Reading through the Builtin Macro Functions, I discovered "indexOf" and
> "substring" which could be useful to find the data in the bulk text.
> However, I would still need a way to parse the image as a text string.
> Actually, is that really a good idea to try and parse a 10MB image file
> as text?
>
> Greetings.
> Silas
>
>
>
>
>
> On 18/05/2017 10:50, Straatman, Kees (Dr.) wrote:
>> Dear Silas,
>>
>> In general I think you can get the header info via
>> getMetadata("Info") or maybe via getImageInfo()
>>
>> I don't know the format of your header but to start with try for
>> example:
>>
>> print(getMetadata("Info")); find the line with the data you want to
>> extract and put it into the code below where you replace the 1 in N =
>> lines[1] with the line number -1 you want to extract.
>>
>> print(getMetadata("Info")); selectWindow("Log"); lines =
>> split(getInfo(),"\n"); N = lines[1]; print(N);
>>
>>
>> Best wishes
>>
>> Kees
>>
>>
>> Dr Ir K.R. Straatman Senior Experimental Officer Advanced Imaging
>> Facility Centre for Core Biotechnology Services University of
>> Leicester
>>
http://www2.le.ac.uk/colleges/medbiopsych/facilities-and-services/cbs/lite/aif>>
>>
>> ImageJ workshops 1 and 2 June:
>>
http://www2.le.ac.uk/colleges/medbiopsych/facilities-and-services/cbs/AIF/workshops/imagej-workshops-June-2017>>
>>
>>
>>
>> -----Original Message----- From: Silas Kraus
>> [mailto:
[hidden email]] Sent: 17 May 2017 23:16 To:
>>
[hidden email] Subject: Extracting .tif Metadata from SEM
>> image?
>>
>> Greetings.
>>
>> I am using Fiji to analyse images taken with a Scanning Electron
>> Microscope (FEI Quanta 250). I want to analyse particle density and
>> therefore need the magnification or Pixel size. The SEM stores this
>> data as text in the .tif file together with many other metadata, but
>> Fiji's "Show Info..." function does not show this data. Debug mode
>> won't do the trick either.
>>
>> I managed to fetch the information with the simple bash-command:
>>> "grep --text -e Pixel -i <image.tif>"
>> But my goal is to write a single ImageJ macro that I can give to my
>> colleagues who are working on Windows, with just Fiji and maybe a few
>> plugins installed.
>>
>> So, my question is: How can I find a text line in a .tif file that
>> reads something like "PixelSize = 1.4681e-008" and process the
>> number, all in a simple ImageJ macro?
>>
>> I've been searching the Internet for a few days now. There seem to be
>> a few similar discussions online, but I didn't manage to make use of
>> them, mostly because they often involve Java programming, which I
>> understand nothing about. Any help would be greatly appreciated.
>>
>> Silas Kraus
>>
>>
>> -- ImageJ mailing list:
http://imagej.nih.gov/ij/list.html>>
>> -- ImageJ mailing list:
http://imagej.nih.gov/ij/list.html>>
>
> --
> ImageJ mailing list:
http://imagej.nih.gov/ij/list.html