Potential conflict between BioVoxxel and BoneJ plugins

[Jason Miller]

Hi all-

This is probably most relevant to the BoneJ and BioVoxxel folks, but I just
installed BoneJ (to take advantage of the 3d particle analyzer in this
package) and when I restarted, found the following error:

Plugin configuration error: (path to BoneJ jar)
Duplicate command: "Distribution Analysis",
org.double.bonej.pqct.Distribution_Analysis (already in
Biovoxxel_Plugins.jar)

Indeed, both plugins have a selectable feature called "distribution
analysis." I am guessing (as an ImageJ newbie) that this type of conflict
between plugin names may be pretty common, so this type of thing might just
be ignored? Not sure if either plugin could have the name slightly changed
to avoid conflict when calling form a macro.

Best
-Jason
------------

Jason Miller, MD, PhD

University of Michigan Kellogg Eye Center


Home address:

117 Worden Ave

Ann Arbor, MI 48103

Cell: [phone]

E-mail: *[hidden email] <[hidden email]>*


"When I was 5 years old, my mother always told me that happiness was the
key to life. When I went to school, they asked me what I wanted to be when
I grew up. I wrote down, 'Happy.' They told me I didn't understand the
assignment. I told them they didn't understand life." - John Lennon

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[gankaku]

Hi Jason, hi all,

thanks for reporting. This was brought up already beforehand and just not
detected by me because I didn't have BoneJ installed in my version.
Finally, I found some time to fix it.

This issue should be solved right now after updating to the newest version
of the BioVoxxel toolbox from the Fiji update sites.

I changed the distribution analysis name to "Particle Distribution (2D)" to
avoid the name collision with BoneJ and exchanged the old macro for a
plugin doing basically the same but giving the option to also analyze the
particle distribution independent of the particle shape and size (this can
be done by choosing "average NND" from the setup). This function is more
cost intensive and for images with many particles it might take some time.
So, if you have particles of roundish and isotropic shape and very similar
size, you still can go for the "centroid NND" option.

Kind regards,
Jan

2015-09-29 23:45 GMT+02:00 Jason Miller <[hidden email]>:

> Hi all-
>
> This is probably most relevant to the BoneJ and BioVoxxel folks, but I just
> installed BoneJ (to take advantage of the 3d particle analyzer in this
> package) and when I restarted, found the following error:
>
> Plugin configuration error: (path to BoneJ jar)
> Duplicate command: "Distribution Analysis",
> org.double.bonej.pqct.Distribution_Analysis (already in
> Biovoxxel_Plugins.jar)
>
> Indeed, both plugins have a selectable feature called "distribution
> analysis." I am guessing (as an ImageJ newbie) that this type of conflict
> between plugin names may be pretty common, so this type of thing might just
> be ignored? Not sure if either plugin could have the name slightly changed
> to avoid conflict when calling form a macro.
>
> Best
> -Jason
> ------------
>
> Jason Miller, MD, PhD
>
> University of Michigan Kellogg Eye Center
>
>
> Home address:
>
> 117 Worden Ave
>
> Ann Arbor, MI 48103
>
> Cell: [phone]
>
> E-mail: *[hidden email] <[hidden email]
> >*
>
>
> "When I was 5 years old, my mother always told me that happiness was the
> key to life. When I went to school, they asked me what I wanted to be when
> I grew up. I wrote down, 'Happy.' They told me I didn't understand the
> assignment. I told them they didn't understand life." - John Lennon
>
> --
> ImageJ mailing list: http://imagej.nih.gov/ij/list.html
>

--

CEO: Dr. rer. nat. Jan Brocher
phone:  [phone]
mobile: [phone]
e-mail: [hidden email]
info: [hidden email]
inquiries: [hidden email]
web: www.biovoxxel.de

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[Michael Doube-4]

Thanks for sorting it Jan!

Michael

On 30/09/15 08:40, BioVoxxel wrote:

> Hi Jason, hi all,
>
> thanks for reporting. This was brought up already beforehand and just not
> detected by me because I didn't have BoneJ installed in my version.
> Finally, I found some time to fix it.
>
> This issue should be solved right now after updating to the newest version
> of the BioVoxxel toolbox from the Fiji update sites.
>
> I changed the distribution analysis name to "Particle Distribution (2D)" to
> avoid the name collision with BoneJ and exchanged the old macro for a
> plugin doing basically the same but giving the option to also analyze the
> particle distribution independent of the particle shape and size (this can
> be done by choosing "average NND" from the setup). This function is more
> cost intensive and for images with many particles it might take some time.
> So, if you have particles of roundish and isotropic shape and very similar
> size, you still can go for the "centroid NND" option.
>
> Kind regards,
> Jan
>
> 2015-09-29 23:45 GMT+02:00 Jason Miller <[hidden email]>:
>
>> Hi all-
>>
>> This is probably most relevant to the BoneJ and BioVoxxel folks, but I just
>> installed BoneJ (to take advantage of the 3d particle analyzer in this
>> package) and when I restarted, found the following error:
>>
>> Plugin configuration error: (path to BoneJ jar)
>> Duplicate command: "Distribution Analysis",
>> org.double.bonej.pqct.Distribution_Analysis (already in
>> Biovoxxel_Plugins.jar)
>>
>> Indeed, both plugins have a selectable feature called "distribution
>> analysis." I am guessing (as an ImageJ newbie) that this type of conflict
>> between plugin names may be pretty common, so this type of thing might just
>> be ignored? Not sure if either plugin could have the name slightly changed
>> to avoid conflict when calling form a macro.
>>
>> Best
>> -Jason
>> ------------
>>
>> Jason Miller, MD, PhD
>>
>> University of Michigan Kellogg Eye Center
>>
>>
>> Home address:
>>
>> 117 Worden Ave
>>
>> Ann Arbor, MI 48103
>>
>> Cell: [phone]
>>
>> E-mail: *[hidden email] <[hidden email]
>>> *
>>
>>
>> "When I was 5 years old, my mother always told me that happiness was the
>> key to life. When I went to school, they asked me what I wanted to be when
>> I grew up. I wrote down, 'Happy.' They told me I didn't understand the
>> assignment. I told them they didn't understand life." - John Lennon
>>
>> --
>> ImageJ mailing list: http://imagej.nih.gov/ij/list.html

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