Image5D and ij1.43p

[Mario Faretta]

I am experiencing a strange behavior with the Image5D plugin and the current
version of ImageJ (1.43p, Windows XP 64-bit java 1.6.0_12).
When I try to convert a stack to a 5D stack an exception occurs:
java.lang.NoSuchFieldError: sliceSelector
        at i5d.gui.Image5DWindow.<init>(Image5DWindow.java:57)
        at i5d.gui.Image5DWindow.<init>(Image5DWindow.java:37)
        at Stack_to_Image5D.run(Stack_to_Image5D.java:148)
        at ij.IJ.runUserPlugIn(IJ.java:180)
        at ij.IJ.runPlugIn(IJ.java:147)
        at ij.Executer.runCommand(Executer.java:124)
        at ij.Executer.run(Executer.java:61)
        at java.lang.Thread.run(Unknown Source)
I am not a programmer but I have the feeling that maybe a newly defined term
is producing a compatibility problem (no problem till version 1.43o).
Any suggestion?
Thanks
Mario

--
Mario Faretta
Department of Experimental Oncology
European Institute of Oncology
c/o IFOM-IEO Campus for Oncogenomics
via Adamello 16
20139 Milan
Italy
Phone: ++39-02574303054
email: [hidden email]
http://www.ifom-ieo-campus.it



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[dscho]

Hi,

On Fri, 12 Feb 2010, Mario Faretta wrote:

> I am experiencing a strange behavior with the Image5D plugin and the current
> version of ImageJ (1.43p, Windows XP 64-bit java 1.6.0_12).
> When I try to convert a stack to a 5D stack an exception occurs:
> java.lang.NoSuchFieldError: sliceSelector
> at i5d.gui.Image5DWindow.<init>(Image5DWindow.java:57)
> at i5d.gui.Image5DWindow.<init>(Image5DWindow.java:37)
> at Stack_to_Image5D.run(Stack_to_Image5D.java:148)
> at ij.IJ.runUserPlugIn(IJ.java:180)
> at ij.IJ.runPlugIn(IJ.java:147)
> at ij.Executer.runCommand(Executer.java:124)
> at ij.Executer.run(Executer.java:61)
> at java.lang.Thread.run(Unknown Source)
> I am not a programmer but I have the feeling that maybe a newly defined term
> is producing a compatibility problem (no problem till version 1.43o).

Indeed. The "Scrollbar sliceSelector" was replaced by a
"ScrollbarWithLabel sliceSelector" without prior warning. The bad part is
that "ScrollbarWithLabel" has a Scrollbar as member, but extends the Panel
class, thereby breaking backwards-compatibility.

I only see two ways out:

1) adjust Image5D (which means, however, that everybody has to upgrade to
a new Image5D when upgrading ImageJ)

2) reverting the change in ImageJ, or at least adjusting it.

I'll let Wayne make the call.

Ciao,
Dscho

[Rasband, Wayne (NIH/NIMH) [E]]

On Feb 12, 2010, at 4:38 AM, Johannes Schindelin wrote:

> Hi,
>
> On Fri, 12 Feb 2010, Mario Faretta wrote:
>
>> I am experiencing a strange behavior with the Image5D plugin and the current
>> version of ImageJ (1.43p, Windows XP 64-bit java 1.6.0_12).
>> When I try to convert a stack to a 5D stack an exception occurs:
>> java.lang.NoSuchFieldError: sliceSelector
>> at i5d.gui.Image5DWindow.<init>(Image5DWindow.java:57)
>> at i5d.gui.Image5DWindow.<init>(Image5DWindow.java:37)
>> at Stack_to_Image5D.run(Stack_to_Image5D.java:148)
>> at ij.IJ.runUserPlugIn(IJ.java:180)
>> at ij.IJ.runPlugIn(IJ.java:147)
>> at ij.Executer.runCommand(Executer.java:124)
>> at ij.Executer.run(Executer.java:61)
>> at java.lang.Thread.run(Unknown Source)
>> I am not a programmer but I have the feeling that maybe a newly defined term
>> is producing a compatibility problem (no problem till version 1.43o).
>
> Indeed. The "Scrollbar sliceSelector" was replaced by a
> "ScrollbarWithLabel sliceSelector" without prior warning. The bad part is
> that "ScrollbarWithLabel" has a Scrollbar as member, but extends the Panel
> class, thereby breaking backwards-compatibility.
>
> I only see two ways out:
>
> 1) adjust Image5D (which means, however, that everybody has to upgrade to
> a new Image5D when upgrading ImageJ)
>
> 2) reverting the change in ImageJ, or at least adjusting it.
>
> I'll let Wayne make the call.

The bug in v1.43p that caused Image5D to crash is fixed in v1.43q.

-wayne

[Mario Faretta]

Just thanks to Wayne for its precious help
Mario

Rasband, Wayne (NIH/NIMH) [E] ([hidden email]) wrote:

>
> On Feb 12, 2010, at 4:38 AM, Johannes Schindelin wrote:
>
> > Hi,
> >
> > On Fri, 12 Feb 2010, Mario Faretta wrote:
> >
> >> I am experiencing a strange behavior with the Image5D plugin and the current
> >> version of ImageJ (1.43p, Windows XP 64-bit java 1.6.0_12).
> >> When I try to convert a stack to a 5D stack an exception occurs:
> >> java.lang.NoSuchFieldError: sliceSelector
> >> at i5d.gui.Image5DWindow.<init>(Image5DWindow.java:57)
> >> at i5d.gui.Image5DWindow.<init>(Image5DWindow.java:37)
> >> at Stack_to_Image5D.run(Stack_to_Image5D.java:148)
> >> at ij.IJ.runUserPlugIn(IJ.java:180)
> >> at ij.IJ.runPlugIn(IJ.java:147)
> >> at ij.Executer.runCommand(Executer.java:124)
> >> at ij.Executer.run(Executer.java:61)
> >> at java.lang.Thread.run(Unknown Source)
> >> I am not a programmer but I have the feeling that maybe a newly defined term
> >> is producing a compatibility problem (no problem till version 1.43o).
> >
> > Indeed. The "Scrollbar sliceSelector" was replaced by a
> > "ScrollbarWithLabel sliceSelector" without prior warning. The bad part is
> > that "ScrollbarWithLabel" has a Scrollbar as member, but extends the Panel
> > class, thereby breaking backwards-compatibility.
> >
> > I only see two ways out:
> >
> > 1) adjust Image5D (which means, however, that everybody has to upgrade to
> > a new Image5D when upgrading ImageJ)
> >
> > 2) reverting the change in ImageJ, or at least adjusting it.
> >
> > I'll let Wayne make the call.
>
> The bug in v1.43p that caused Image5D to crash is fixed in v1.43q.
>
> -wayne
>

--
Mario Faretta
Department of Experimental Oncology
European Institute of Oncology
c/o IFOM-IEO Campus for Oncogenomics
via Adamello 16
20139 Milan
Italy
Phone: ++39-02574303054
email: [hidden email]
http://www.ifom-ieo-campus.it



[- Il Tuo 5 per Mille a favore della Ricerca dell'Istituto Europeo di
Oncologia

Tutti coloro che presentano il modello Unico, il modello 730 o più
semplicemente che ricevono dal proprio datore di lavoro il modello CUD, hanno
la facoltà di scegliere la destinazione del proprio 5 per mille.

Nella casella riservata al Finanziamento agli Enti della Ricerca Sanitaria
inserisci il codice fiscale dello IEO (08 69 14 40 153) ed apponi la Tua
firma.
Il Tuo 5 per Mille verrà destinato alla ricerca contro il cancro dell'Istituto
Europeo di Oncologia

NON COSTA NULLA E NON COMPORTA ALCUN AUMENTO DELLE IMPOSTE DA VERSARE
NON È UN'ALTERNATIVA ALL'8 PER MILLE
E' UN GESTO CONCRETO E DI GRANDE VALORE

Per saperne di più vai al sito dello IEO www.ieo.it < http://www.ieo.it >
oppure scrivi a [hidden email] < mailto:[hidden email]>

Segnala ad un amico questa opportunità

 -]

[dscho]

Hi,

On Fri, 12 Feb 2010, Rasband, Wayne (NIH/NIMH) [E] wrote:

> On Feb 12, 2010, at 4:38 AM, Johannes Schindelin wrote:
>
> > On Fri, 12 Feb 2010, Mario Faretta wrote:
> >
> >> I am experiencing a strange behavior with the Image5D plugin and the current
> >> version of ImageJ (1.43p, Windows XP 64-bit java 1.6.0_12).
> >> When I try to convert a stack to a 5D stack an exception occurs:
> >> java.lang.NoSuchFieldError: sliceSelector
> >> at i5d.gui.Image5DWindow.<init>(Image5DWindow.java:57)
> >> at i5d.gui.Image5DWindow.<init>(Image5DWindow.java:37)
> >> at Stack_to_Image5D.run(Stack_to_Image5D.java:148)
> >> at ij.IJ.runUserPlugIn(IJ.java:180)
> >> at ij.IJ.runPlugIn(IJ.java:147)
> >> at ij.Executer.runCommand(Executer.java:124)
> >> at ij.Executer.run(Executer.java:61)
> >> at java.lang.Thread.run(Unknown Source)
> >> I am not a programmer but I have the feeling that maybe a newly defined term
> >> is producing a compatibility problem (no problem till version 1.43o).
> >
> > Indeed. The "Scrollbar sliceSelector" was replaced by a
> > "ScrollbarWithLabel sliceSelector" without prior warning. The bad part is
> > that "ScrollbarWithLabel" has a Scrollbar as member, but extends the Panel
> > class, thereby breaking backwards-compatibility.
> >
> > I only see two ways out:
> >
> > 1) adjust Image5D (which means, however, that everybody has to upgrade to
> > a new Image5D when upgrading ImageJ)
> >
> > 2) reverting the change in ImageJ, or at least adjusting it.
> >
> > I'll let Wayne make the call.
>
> The bug in v1.43p that caused Image5D to crash is fixed in v1.43q.

Thanks, I merged the fix into ImageJA (including its Fiji's branch).

Ciao,
Dscho

[Bill Mohler]

FOI, what was the fix?  Was it the classes/methods that Dscho mentioned?

Thanks,
Bill

Johannes Schindelin wrote:

> Hi,
>
> On Fri, 12 Feb 2010, Rasband, Wayne (NIH/NIMH) [E] wrote:
>
>  
>> On Feb 12, 2010, at 4:38 AM, Johannes Schindelin wrote:
>>
>>    
>>> On Fri, 12 Feb 2010, Mario Faretta wrote:
>>>
>>>      
>>>> I am experiencing a strange behavior with the Image5D plugin and the current
>>>> version of ImageJ (1.43p, Windows XP 64-bit java 1.6.0_12).
>>>> When I try to convert a stack to a 5D stack an exception occurs:
>>>> java.lang.NoSuchFieldError: sliceSelector
>>>> at i5d.gui.Image5DWindow.<init>(Image5DWindow.java:57)
>>>> at i5d.gui.Image5DWindow.<init>(Image5DWindow.java:37)
>>>> at Stack_to_Image5D.run(Stack_to_Image5D.java:148)
>>>> at ij.IJ.runUserPlugIn(IJ.java:180)
>>>> at ij.IJ.runPlugIn(IJ.java:147)
>>>> at ij.Executer.runCommand(Executer.java:124)
>>>> at ij.Executer.run(Executer.java:61)
>>>> at java.lang.Thread.run(Unknown Source)
>>>> I am not a programmer but I have the feeling that maybe a newly defined term
>>>> is producing a compatibility problem (no problem till version 1.43o).
>>>>        
>>> Indeed. The "Scrollbar sliceSelector" was replaced by a
>>> "ScrollbarWithLabel sliceSelector" without prior warning. The bad part is
>>> that "ScrollbarWithLabel" has a Scrollbar as member, but extends the Panel
>>> class, thereby breaking backwards-compatibility.
>>>
>>> I only see two ways out:
>>>
>>> 1) adjust Image5D (which means, however, that everybody has to upgrade to
>>> a new Image5D when upgrading ImageJ)
>>>
>>> 2) reverting the change in ImageJ, or at least adjusting it.
>>>
>>> I'll let Wayne make the call.
>>>      
>> The bug in v1.43p that caused Image5D to crash is fixed in v1.43q.
>>    
>
> Thanks, I merged the fix into ImageJA (including its Fiji's branch).
>
> Ciao,
> Dscho
>
>  

[Rasband, Wayne (NIH/NIMH) [E]]

On Feb 12, 2010, at 12:53 PM, Bill Mohler wrote:

> FOI, what was the fix?  Was it the classes/methods that Dscho mentioned?

You can see the fix be going to the ImageJ Git source code repository at

    http://pacific.mpi-cbg.de/cgi-bin/gitweb.cgi?p=imagej.git

clicking "commit" on the topmost line ("2010.02.12 (1.43q)" and then clicking "diff" on the "ij/gui/StackWindow.java" line.

-wayne

> Johannes Schindelin wrote:
>> Hi,
>>
>> On Fri, 12 Feb 2010, Rasband, Wayne (NIH/NIMH) [E] wrote:
>>
>>
>>> On Feb 12, 2010, at 4:38 AM, Johannes Schindelin wrote:
>>>
>>>
>>>> On Fri, 12 Feb 2010, Mario Faretta wrote:
>>>>
>>>>
>>>>> I am experiencing a strange behavior with the Image5D plugin and the current
>>>>> version of ImageJ (1.43p, Windows XP 64-bit java 1.6.0_12).
>>>>> When I try to convert a stack to a 5D stack an exception occurs:
>>>>> java.lang.NoSuchFieldError: sliceSelector
>>>>> at i5d.gui.Image5DWindow.<init>(Image5DWindow.java:57)
>>>>> at i5d.gui.Image5DWindow.<init>(Image5DWindow.java:37)
>>>>> at Stack_to_Image5D.run(Stack_to_Image5D.java:148)
>>>>> at ij.IJ.runUserPlugIn(IJ.java:180)
>>>>> at ij.IJ.runPlugIn(IJ.java:147)
>>>>> at ij.Executer.runCommand(Executer.java:124)
>>>>> at ij.Executer.run(Executer.java:61)
>>>>> at java.lang.Thread.run(Unknown Source)
>>>>> I am not a programmer but I have the feeling that maybe a newly defined term
>>>>> is producing a compatibility problem (no problem till version 1.43o).
>>>>>
>>>> Indeed. The "Scrollbar sliceSelector" was replaced by a
>>>> "ScrollbarWithLabel sliceSelector" without prior warning. The bad part is
>>>> that "ScrollbarWithLabel" has a Scrollbar as member, but extends the Panel
>>>> class, thereby breaking backwards-compatibility.
>>>>
>>>> I only see two ways out:
>>>>
>>>> 1) adjust Image5D (which means, however, that everybody has to upgrade to
>>>> a new Image5D when upgrading ImageJ)
>>>>
>>>> 2) reverting the change in ImageJ, or at least adjusting it.
>>>>
>>>> I'll let Wayne make the call.
>>>>
>>> The bug in v1.43p that caused Image5D to crash is fixed in v1.43q.
>>>
>>
>> Thanks, I merged the fix into ImageJA (including its Fiji's branch).
>>
>> Ciao,
>> Dscho
>>
>>