Coloc2 issues

[Tyagi, Ayushi]

Hello,

I have installed the coloc2 plugin into fiji however, if I try to use coloc 2 a window pops up that says

/Applications/Fiji.app/plugins/Colocalisation_Analysis-master/src/main/java/Coloc_2.java:1: package algorithms does not exist
import algorithms.Algorithm;

I have split the image into separate channels so I do not think that is the issue.

Please let me know what other information you need.

Best,

Ayushi



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[ctrueden]

Hi Ayushi,

> I have installed the coloc2 plugin into fiji

Fiji comes with the Coloc 2 plugin preinstalled; you should not have to
install anything else.

The plugin ostensibly works for me with an up-to-date Fiji.

Regards,
Curtis

On Fri, Jan 16, 2015 at 1:12 PM, Tyagi, Ayushi <
[hidden email]> wrote:

> Hello,
>
> I have installed the coloc2 plugin into fiji however, if I try to use
> coloc 2 a window pops up that says
>
> /Applications/Fiji.app/plugins/Colocalisation_Analysis-master/src/main/java/Coloc_2.java:1:
> package algorithms does not exist
> import algorithms.Algorithm;
>
> I have split the image into separate channels so I do not think that is
> the issue.
>
> Please let me know what other information you need.
>
> Best,
>
> Ayushi
>
>
>
> --
> ImageJ mailing list: http://imagej.nih.gov/ij/list.html
>

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[Tyagi, Ayushi]

Hey Curtis,

I have tried to update fiji many times and an error message pops up saying
the file was not found. Would it be easier to uninstall fiji and reinstall
an updated version?

Ayushi

On 1/16/15 3:54 PM, "Curtis Rueden" <[hidden email]> wrote:

>Hi Ayushi,
>
>> I have installed the coloc2 plugin into fiji
>
>Fiji comes with the Coloc 2 plugin preinstalled; you should not have to
>install anything else.
>
>The plugin ostensibly works for me with an up-to-date Fiji.
>
>Regards,
>Curtis
>
>On Fri, Jan 16, 2015 at 1:12 PM, Tyagi, Ayushi <
>[hidden email]> wrote:
>
>> Hello,
>>
>> I have installed the coloc2 plugin into fiji however, if I try to use
>> coloc 2 a window pops up that says
>>
>>
>>/Applications/Fiji.app/plugins/Colocalisation_Analysis-master/src/main/ja
>>va/Coloc_2.java:1:
>> package algorithms does not exist
>> import algorithms.Algorithm;
>>
>> I have split the image into separate channels so I do not think that is
>> the issue.
>>
>> Please let me know what other information you need.
>>
>> Best,
>>
>> Ayushi
>>
>>
>>
>> --
>> ImageJ mailing list: http://imagej.nih.gov/ij/list.html
>>
>
>--
>ImageJ mailing list: http://imagej.nih.gov/ij/list.html

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[ctrueden]

Hi Ayushi,

> Would it be easier to uninstall fiji and reinstall an updated version?

Yes. If you are having problems with the updater, downloading a new copy of
Fiji is the simplest workaround.

If the problem persists after that, definitely speak up.

Regards,
Curtis

On Tue, Jan 20, 2015 at 2:09 PM, Tyagi, Ayushi <
[hidden email]> wrote:

> Hey Curtis,
>
> I have tried to update fiji many times and an error message pops up saying
> the file was not found. Would it be easier to uninstall fiji and reinstall
> an updated version?
>
> Ayushi
>
> On 1/16/15 3:54 PM, "Curtis Rueden" <[hidden email]> wrote:
>
> >Hi Ayushi,
> >
> >> I have installed the coloc2 plugin into fiji
> >
> >Fiji comes with the Coloc 2 plugin preinstalled; you should not have to
> >install anything else.
> >
> >The plugin ostensibly works for me with an up-to-date Fiji.
> >
> >Regards,
> >Curtis
> >
> >On Fri, Jan 16, 2015 at 1:12 PM, Tyagi, Ayushi <
> >[hidden email]> wrote:
> >
> >> Hello,
> >>
> >> I have installed the coloc2 plugin into fiji however, if I try to use
> >> coloc 2 a window pops up that says
> >>
> >>
> >>/Applications/Fiji.app/plugins/Colocalisation_Analysis-master/src/main/ja
> >>va/Coloc_2.java:1:
> >> package algorithms does not exist
> >> import algorithms.Algorithm;
> >>
> >> I have split the image into separate channels so I do not think that is
> >> the issue.
> >>
> >> Please let me know what other information you need.
> >>
> >> Best,
> >>
> >> Ayushi
> >>
> >>
> >>
> >> --
> >> ImageJ mailing list: http://imagej.nih.gov/ij/list.html
> >>
> >
> >--
> >ImageJ mailing list: http://imagej.nih.gov/ij/list.html
>
> --
> ImageJ mailing list: http://imagej.nih.gov/ij/list.html
>

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[Tyagi, Ayushi]

Hello Curtis,

I have successfully downloaded a new version of fiji that properly opens
up coloc 2. I am getting some warnings stating that the threshold for my
images is too high and that the y-intercept is high. There are some
suggestions on how to fix that issue but I have already selected an ROI
and it does not get rid of the warnings. I subtracted background for both
images before running coloc 2 as well.

Thank you for your help thus far,

Ayushi

On 1/21/15 12:47 PM, "Curtis Rueden" <[hidden email]> wrote:

>Hi Ayushi,
>
>> Would it be easier to uninstall fiji and reinstall an updated version?
>
>Yes. If you are having problems with the updater, downloading a new copy
>of
>Fiji is the simplest workaround.
>
>If the problem persists after that, definitely speak up.
>
>Regards,
>Curtis
>
>On Tue, Jan 20, 2015 at 2:09 PM, Tyagi, Ayushi <
>[hidden email]> wrote:
>
>> Hey Curtis,
>>
>> I have tried to update fiji many times and an error message pops up
>>saying
>> the file was not found. Would it be easier to uninstall fiji and
>>reinstall
>> an updated version?
>>
>> Ayushi
>>
>> On 1/16/15 3:54 PM, "Curtis Rueden" <[hidden email]> wrote:
>>
>> >Hi Ayushi,
>> >
>> >> I have installed the coloc2 plugin into fiji
>> >
>> >Fiji comes with the Coloc 2 plugin preinstalled; you should not have to
>> >install anything else.
>> >
>> >The plugin ostensibly works for me with an up-to-date Fiji.
>> >
>> >Regards,
>> >Curtis
>> >
>> >On Fri, Jan 16, 2015 at 1:12 PM, Tyagi, Ayushi <
>> >[hidden email]> wrote:
>> >
>> >> Hello,
>> >>
>> >> I have installed the coloc2 plugin into fiji however, if I try to use
>> >> coloc 2 a window pops up that says
>> >>
>> >>
>>
>>>>/Applications/Fiji.app/plugins/Colocalisation_Analysis-master/src/main/
>>>>ja
>> >>va/Coloc_2.java:1:
>> >> package algorithms does not exist
>> >> import algorithms.Algorithm;
>> >>
>> >> I have split the image into separate channels so I do not think that
>>is
>> >> the issue.
>> >>
>> >> Please let me know what other information you need.
>> >>
>> >> Best,
>> >>
>> >> Ayushi
>> >>
>> >>
>> >>
>> >> --
>> >> ImageJ mailing list: http://imagej.nih.gov/ij/list.html
>> >>
>> >
>> >--
>> >ImageJ mailing list: http://imagej.nih.gov/ij/list.html
>>
>> --
>> ImageJ mailing list: http://imagej.nih.gov/ij/list.html
>>
>
>--
>ImageJ mailing list: http://imagej.nih.gov/ij/list.html

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