http://imagej.273.s1.nabble.com/Adding-keyboard-shortcut-to-toggle-visibility-of-patches-in-TrakEM2-tp5016099p5016171.html
microscopy images. To this aim I have now defenetly abandoned Reconstruct
> Dear Federico,
>
> Glad to hear that it works for you, and sorry to hear about the error.
> While the error seems puzzling given the code that you wrote, perhaps it
> has to do with the fact that the thread context within which your code
> executes is different, to which perhaps the older versions of jython have
> trouble with (just speculating here). Something to try: either import the
> java.awt.KeyEvent within your function call (it is a split second
> operation, only performed when there is a key event anyway), or rewrite it
> in another language like beanshell, clojure, ruby. Another, perhaps easier
> workaround would be to declare a variable within the MyKeyListener
> constructor and refer to the KeyEvent in that way, like:
>
> class MyKeyListener(KeyAdapter):
> def __init__(self, *args, **kwargs):
> super(MyKeyListener, self).__init__(*args, **kwargs)
> self.KeyEvent = KeyEvent
> def keyPressed(self, event):
> # rest of the code here
> # Use self.KeyEvent instead of KeyEvent
>
>
> Best,
>
> Albert
>
> 2016-04-11 23:34 GMT-04:00 Federico Luzzati <
[hidden email]>:
>
>> Dear Albert,
>> thank you very much for your answer, the code works fine (you'll see it at
>> the bottom of this mail)!
>> unfortunately however while scrolling back and forth through the sections
>> it suddenly and randomly stop working; the System Log shows this message
>>
>> if KeyEvent.VK_1 == keyCode:
>> NameError: global name 'KeyEvent' is not defined
>>
>> Running again the script is ineffective, closing and re-opening the canvas
>> is the only way, but this is very annoying!
>>
>> Thank you very much for your help, and for your work.
>>
>> Federico
>>
>>
>> from java.awt.event import KeyEvent, KeyAdapter
>> from ini.trakem2.display import Display, Patch
>>
>> class MyKeyListener(KeyAdapter):
>> def keyPressed(self, event):
>> keyCode = event.getKeyCode()
>> if KeyEvent.VK_1 == keyCode:
>> for layer in Display.getFront().getLayerSet().getLayers():
>> patches = layer.getDisplayables(Patch)
>> for patch in patches:
>> if "NFL" in patch.title:
>> if patch.visible == True:
>> patch.visible = False
>> else:
>> patch.visible = True
>> elif KeyEvent.VK_2 == keyCode:
>> for layer in Display.getFront().getLayerSet().getLayers():
>> patches = layer.getDisplayables(Patch)
>> for patch in patches:
>> if "GFP" in patch.title:
>> if patch.visible == True:
>> patch.visible = False
>> else:
>> patch.visible = True
>>
>> elif KeyEvent.VK_3 == keyCode:
>> for layer in Display.getFront().getLayerSet().getLayers():
>> patches = layer.getDisplayables(Patch)
>> for patch in patches:
>> if "Ki67" in patch.title:
>> if patch.visible == True:
>> patch.visible = False
>> else:
>> patch.visible = True
>>
>> elif KeyEvent.VK_4 == keyCode:
>> for layer in Display.getFront().getLayerSet().getLayers():
>> patches = layer.getDisplayables(Patch)
>> for patch in patches:
>> if "DCX" in patch.title:
>> if patch.visible == True:
>> patch.visible = False
>> else:
>> patch.visible = True
>>
>>
>> Display.getFront().getCanvas().addKeyListener(MyKeyListener())
>>
>>
>>
>>
>>
>>
>> 2016-04-11 21:31 GMT-04:00 Albert Cardona <
[hidden email]>:
>>
>> > Hi Federico,
>> >
>> > Basically, you can create your own KeyListener and attach it to the
>> TrakEM2
>> > window canvas, and react upon its keyPressed KeyEvent.
>> >
>> > The canvas element you can get from Display.getFront().getCanvas().
>> >
>> > Would be something like this:
>> >
>> > from java.awt import KeyAdapter
>> >
>> > class MyKeyListener(KeyAdapter):
>> > def keyPressed(self, event):
>> > # Run your code here
>> > ...
>> >
>> > Display.getFront().getCanvas().addKeyListener(MyKeyListener())
>> >
>> > Best,
>> >
>> > Albert
>> >
>> > 2016-04-11 17:05 GMT-04:00 Federico Luzzati <
[hidden email]
>> >:
>> >
>> > > Dear List,
>> > > I'm using TrakEM2 to analyze huge multi-channel confocal
>> reconstructions.
>> > > I'm
>> > > importing the channels as separate 8-bit patches with the antigen
>> > specified
>> > > within the patch name, apply a LUT with "adjust image filters" and set
>> > the
>> > > composite mode to Add.
>> > > To switch on and off a channel I'm using the "select all that match
>> > > function". Nonetheless, this method is very slow, and it would be much
>> > > better if one could define keyboard shortcuts for that.
>> > > I wrote this simple script to toggle visibility of patches based on
>> their
>> > > names, but I can't figure out how I could call it from a keyboard
>> > shortcut
>> > > inside TraKEM2.
>> > >
>> > > Any hint will be greatly appreciated
>> > > Thank you very much!
>> > >
>> > > Federico
>> > >
>> > > Here is an example of the script:
>> > >
>> > > from ini.trakem2.display import *
>> > >
>> > > for layer in Display.getFront().getLayerSet().getLayers():
>> > > patches = layer.getDisplayables(Patch)
>> > > for patch in patches:
>> > > if "DCX" in patch.title:
>> > > if patch.visible == True:
>> > > patch.visible = False
>> > > else:
>> > > patch.visible = True
>> > >
>> > >
>> > >
>> > > --
>> > > Federico Luzzati, PhD
>> > > Assistant Professor
>> > > University of Turin,
>> > > Dept. LIfe Sciences and Systems Biology (DBIOS)
>> > > Via Accademia Albertina, 13 - 10123 Torino - IT
>> > >
>> > > Researcher at
>> > > Neuroscience Institute Cavalieri Ottolenghi (NICO)
>> > > Regione Gonzole, 10 - 10043 Orbassano (To) - IT
>> > >
>> > > tel. +39-0116704683/ -6631
>> > >
http://www.nico.ottolenghi.unito.it/index.php/it/adult-neurogenesis>> > >
>> > > Sostieni con il tuo 5xmille il NICO e la ricerca sulle malattie
>> > > neurodegenerative
>> > > Firma nel riquadro "Finanziamento della ricerca scientifica e
>> > > dell'Università"
>> > > CF 97564560015
>> > >
>> > > --
>> > > ImageJ mailing list:
http://imagej.nih.gov/ij/list.html>> > >
>> >
>> >
>> >
>> > --
>> >
http://albert.rierol.net>> >
http://www.janelia.org/lab/cardona-lab>> >
http://www.ini.uzh.ch/~acardona/>> >
>> > --
>> > ImageJ mailing list:
http://imagej.nih.gov/ij/list.html>> >
>>
>>
>>
>> --
>> Federico Luzzati, PhD
>> Assistant Professor
>> University of Turin,
>> Dept. LIfe Sciences and Systems Biology (DBIOS)
>> Via Accademia Albertina, 13 - 10123 Torino - IT
>>
>> Researcher at
>> Neuroscience Institute Cavalieri Ottolenghi (NICO)
>> Regione Gonzole, 10 - 10043 Orbassano (To) - IT
>>
>> tel. +39-0116704683/ -6631
>>
http://www.nico.ottolenghi.unito.it/index.php/it/adult-neurogenesis>>
>> Sostieni con il tuo 5xmille il NICO e la ricerca sulle malattie
>> neurodegenerative
>> Firma nel riquadro "Finanziamento della ricerca scientifica e
>> dell'Università"
>> CF 97564560015
>>
>> --
>> ImageJ mailing list:
http://imagej.nih.gov/ij/list.html>>
>
>
>
> --
>
http://albert.rierol.net>
http://www.janelia.org/lab/cardona-lab>
http://www.ini.uzh.ch/~acardona/>
Dept. LIfe Sciences and Systems Biology (DBIOS)
tel. +39-0116704683/ -6631