On Mar 4, 2015, at 12:54 PM, Francis OBrien <
[hidden email]> wrote:
>
> Wayne,
>
> This could work but what if I have 16 channels to rearrange ImageJ seems to
> have a 9 channel limit for the hyperstack?
The Image>Color>Arrange Channels command is limited to 9 channels. Upgrade to the latest ImageJ daily build (1.49q4) and you can use the new ChannelArranger.run() method to rearrange any number of channels. It uses an array of integers to represent the channels rather than a string of digits. The following JavaScript example creates a 16 channel hyperstack and then uses ChannelArranger.run() to reverse the order of the channels.
-wayne
c=16; z=5; t=10;
img = IJ.createImage("HS", "8-bit grayscale-mode label",400,300,c,z,t);
order = new Array(c);
for (i=0; i<c; i++)
order[i] = c-i;
img2 = ChannelArranger.run(img, order);
img2.show();
> On Wed, Mar 4, 2015 at 12:34 AM, Rasband, Wayne (NIH/NIMH) [E] <
>
[hidden email]> wrote:
>
>> On Mar 2, 2015, at 9:56 PM, Francis OBrien <
[hidden email]>
>> wrote:
>>>
>>> Hi ,
>>>
>>> My hyperstack creates a stack that is alphabetical in order. Is there any
>>> way to rearrange the channels according to the number and can this
>> process
>>> be scripted?
>>
>> You can use the Image>Colors>Arrange Channels command to rearrange the
>> channels of a hyperstack, and this command is recordable. In this case, the
>> recorded macro code would be
>>
>> run("Arrange Channels...", “new=43521);
>>
>> -wayne
>>
>>> A100
>>> B20
>>> C12
>>> D2
>>> E17
>>>
>>> D2
>>> C12
>>> E17
>>> B20
>>> A100
>>>
>>> Any help would be really appreciated.
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