Posted by
Prashant-2-3 on
Sep 30, 2008; 5:28am
URL: http://imagej.273.s1.nabble.com/how-integrate-bioFormat-with-imagej-tp3694911p3694913.html
Thanks for your reply,
It will be very grateful if you can give me some code example.
I am using the following code for opening the compressed image from
bioFormat.jar.
String id = directory + name;
ImageReader red = new ImageReader();
red.setId(id);
width = red.getSizeX();
height = red.getSizeY();
int num = noOfFrames = red.getImageCount();
//for reading the metadata of image
mdr = new MetaDataReader(red);
bimg = new BufferedImage[num];
for (int i = 0; i < num; i++)
{
bimg[i] = red.openImage(i);
}
red.close(true);
It is giving me image in BufferedImage object form.
thanks
----- Original Message -----
From: "Curtis Rueden" <
[hidden email]>
To: <
[hidden email]>
Sent: Monday, September 29, 2008 9:35 PM
Subject: Re: how integrate bioFormat with imagej
> Hi Prashant,
>
> Images opened using the Bio-Formats plugin should function the same as any
> other images. You can process them with plugins and macros the same way.
> The
> only thing to watch out for is to avoid opening images as virtual stacks,
> because while that option will save you a large amount of memory and is
> good
> for browsing, you will not be able to perform image manipulation
> operations
> unless you first convert to a normal stack using Image>Duplicate, as
> described in this thread from the archive: <
>
https://list.nih.gov/cgi-bin/wa?A2=ind0809&L=imagej&H=1&P=15187>.
>
> -Curtis
>
> On Sun, Sep 28, 2008 at 11:46 PM, prashant <
>
[hidden email]> wrote:
>
>> Hi everyOne,
>>
>> I am opening my multiframe compressed dicom image through
>> bio-format.jar
>> and Uncompressed images through Imagej.jar.
>>
>> I want to apply rotate,flip,invert option with images those are
>> open
>> with bio-Format.jar.
>> How can i integrate i.e. how can i perform such operation with
>> images
>> those are opened with bio-Format.jar.
>>
>> It is same as when you open images in
>> imagej--->plugIns---->LOCI---->bioFormat importer
>> Option.And you perform all operation with those image in Imagej.
>>
>> Thanks
>>
>> With Warm Regards
>> --------------------------------------------------------------------
>>
>> Prashant Chandrakar
>> Software Developer
>> MedSynaptic Pvt Ltd
>> 9270710943
>>
[hidden email]
>>
>> "If the facts don't fit the theory, change the facts."
>>
>