Image capture in Yoshsemite falls

[Paulo Acioly]

Hi  Guys,

I followed thee instructions indicated to use the sequence

File  - Import - video

in a  macbook pro mid 2012 under mac os x Yosemite.

I downloaded the appropriated plug-in for ImageJ and follow the instructions to put Quick time capabilities in Yosemite …

But the corresponding image window suddenly  crashs …

I am using the same firmware  camera,  a Sony   XCD SX 910  that works fine in older versions of mac  OS X ...

Thank you very much for any comment or suggestion !!!!

Paulo

Prof.Dr.Paulo Acioly Marques dos Santos
Laboratório de Óptica Não Linear & Aplicada
Instituto de Física - Universidade Federal Física
Av.Gal.Milton Tavares de Souza, Niterói,RJ..Brasil
Tel: [phone]

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

> On Oct 14, 2015, at 10:32 AM, Paulo Acioly <[hidden email]> wrote:
>
> Hi  Guys,
>
> I followed thee instructions indicated to use the sequence
>
> File  - Import - video
>
> in a  macbook pro mid 2012 under mac os x Yosemite.
>
> I downloaded the appropriated plug-in for ImageJ and follow the instructions to put Quick time capabilities in Yosemite …
>
> But the corresponding image window suddenly  crashs …
>
> I am using the same firmware  camera,  a Sony   XCD SX 910  that works fine in older versions of mac  OS X

OS X 10.10 (Yosemite) and 10.11 (El Capitan‎) do not include the libraries required to run commands like File>Import>Video and File>Import>Using QuickTime that use QuickTime for Java. You can work around this problem by copying the files QTJava.zip and libQTJNative.jnilib, available at http://imagej.nih.gov/ij/download/qt/ into ~/Library/Java/Extensions, where "~" is your home directory. OS X hides the Library folder by default, so you will need to open your home folder and check "Show Library Folder" in the View>Show View Options dialog. Before copying the files, you will need to create the ~/Library/Java and ~/Library/Java/Extensions folders.

-wayne




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[Thomas Manfredi]

To Wayne Rasband: NIH ImageJ question regarding SKEW

Hi Wayne:

I am an emeritus professor at URI who uses NIH Image J to measure cardiac
and skeletal muscle mitochondria.  I neglected to add the SKEW measurement
of mitochondrial area and Feret in my assessment of over 10,000 myocardial
mitochondria in a drug treated and exercise intervention study so I
measured SKEW from the "Results .xls data.  Our statistician found that
exercise and PPARy had not treatment effects.  He stated the following:
However, I’m not sure that it is equivalent to how the NIH software is
calculating the third order spatial moment mean in regards to pixels for
individual mitochondria rather than the skewness of a distribution of many
mitochondria in a given micrograph. If you believe the distributional
skewness from excel is correct then the results are below however, if not,
then you’ll need to use the NIH software to calculate it to be sure we are
aligned with what Pickard has done.

I agree with him that we need an answer to this question.  Also, can I
recapture the ImageJ files prior to the .xls files and put SKEW into the
menu?

Thank you Wayne. Your software is indeed an excellent tool in our research.
Regards,
Tom

On Wed, Oct 14, 2015 at 9:38 PM, Rasband, Wayne (NIH/NIMH) [E] <
[hidden email]> wrote:

> > On Oct 14, 2015, at 10:32 AM, Paulo Acioly <[hidden email]>
> wrote:
> >
> > Hi  Guys,
> >
> > I followed thee instructions indicated to use the sequence
> >
> > File  - Import - video
> >
> > in a  macbook pro mid 2012 under mac os x Yosemite.
> >
> > I downloaded the appropriated plug-in for ImageJ and follow the
> instructions to put Quick time capabilities in Yosemite …
> >
> > But the corresponding image window suddenly  crashs …
> >
> > I am using the same firmware  camera,  a Sony   XCD SX 910  that works
> fine in older versions of mac  OS X
>
> OS X 10.10 (Yosemite) and 10.11 (El Capitan‎) do not include the libraries
> required to run commands like File>Import>Video and File>Import>Using
> QuickTime that use QuickTime for Java. You can work around this problem by
> copying the files QTJava.zip and libQTJNative.jnilib, available at
> http://imagej.nih.gov/ij/download/qt/ into ~/Library/Java/Extensions,
> where "~" is your home directory. OS X hides the Library folder by default,
> so you will need to open your home folder and check "Show Library Folder"
> in the View>Show View Options dialog. Before copying the files, you will
> need to create the ~/Library/Java and ~/Library/Java/Extensions folders.
>
> -wayne
>
>
>
>
> --
> ImageJ mailing list: http://imagej.nih.gov/ij/list.html
>

--
Thomas Manfredi, Professor Emeritus
Department of Kinesiology
25 West Independence Way, Suite P
Kingston, RI 02881
401-874-9817
[hidden email]

--
ImageJ mailing list: http://imagej.nih.gov/ij/list.html

[Gabriel Landini]

On Thursday 15 Oct 2015 05:34:05 Thomas Manfredi wrote:
> Our statistician found that
> exercise and PPARy had not treatment effects.  He stated the following:
> However, I’m not sure that it is equivalent to how the NIH software is
> calculating the third order spatial moment mean in regards to pixels for
> individual mitochondria rather than the skewness of a distribution of many
> mitochondria in a given micrograph.

The 'Skewness' in the particle analyzer is the skewness of the distribution of
greyscale values of each region analysed, not the skewness of mean grey
distribution in the population of regions.

Cheers

Gabriel

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[Thomas Manfredi]

  I neglected to add the SKEW measurement of mitochondrial area and Feret
in my assessment of over 10,000 myocardial mitochondria in a drug treated
and exercise intervention study so I measured SKEW from the "Results .xls
data.  Our statistician found that exercise and PPARy had not treatment
effects.  He stated the following:
However, I’m not sure that it is equivalent to how the NIH software is
calculating the third order spatial moment mean in regards to pixels for
individual mitochondria rather than the skewness of a distribution of many
mitochondria in a given micrograph. If you believe the distributional
skewness from excel is correct then the results are below however, if not,
then you’ll need to use the NIH software to calculate it to be sure we are
aligned with what Pickard has done.

I agree with him that we need an answer to this question.  Also, can I
recapture the ImageJ files prior to the .xls files and put SKEW into the
menu?




On Wed, Oct 14, 2015 at 9:38 PM, Rasband, Wayne (NIH/NIMH) [E] <
[hidden email]> wrote:

> > On Oct 14, 2015, at 10:32 AM, Paulo Acioly <[hidden email]>
> wrote:
> >
> > Hi  Guys,
> >
> > I followed thee instructions indicated to use the sequence
> >
> > File  - Import - video
> >
> > in a  macbook pro mid 2012 under mac os x Yosemite.
> >
> > I downloaded the appropriated plug-in for ImageJ and follow the
> instructions to put Quick time capabilities in Yosemite …
> >
> > But the corresponding image window suddenly  crashs …
> >
> > I am using the same firmware  camera,  a Sony   XCD SX 910  that works
> fine in older versions of mac  OS X
>
> OS X 10.10 (Yosemite) and 10.11 (El Capitan‎) do not include the libraries
> required to run commands like File>Import>Video and File>Import>Using
> QuickTime that use QuickTime for Java. You can work around this problem by
> copying the files QTJava.zip and libQTJNative.jnilib, available at
> http://imagej.nih.gov/ij/download/qt/ into ~/Library/Java/Extensions,
> where "~" is your home directory. OS X hides the Library folder by default,
> so you will need to open your home folder and check "Show Library Folder"
> in the View>Show View Options dialog. Before copying the files, you will
> need to create the ~/Library/Java and ~/Library/Java/Extensions folders.
>
> -wayne
>
>
>
>
> --
> ImageJ mailing list: http://imagej.nih.gov/ij/list.html
>

--
Thomas Manfredi, Professor Emeritus
Department of Kinesiology
25 West Independence Way, Suite P
Kingston, RI 02881
401-874-9817
[hidden email]

--
ImageJ mailing list: http://imagej.nih.gov/ij/list.html

[Paulo Acioly]

Dear, Wayne,

Thanks for the fast replay…

I followed your suggestion exactly…and  unfortunately the imageJ 1.49 with yosemite continues to falls down  when I try capture image with

Import - video

 with may macbook pro mid 2012.  The capture windows open but few secons later  desapear…

and a window with entitled  “Problem report for ImageJ “appears…a have made a screen shot of this window. it is attached to the present message, please take a  look and thank you for any help or suggestion…

Thank you very much for all history since  NIHimage !!!!

Paulo Acioly



 

> On 14/10/2015, at 22:38, Rasband, Wayne (NIH/NIMH) [E] <[hidden email]> wrote:
>
>> On Oct 14, 2015, at 10:32 AM, Paulo Acioly <[hidden email]> wrote:
>>
>> Hi  Guys,
>>
>> I followed thee instructions indicated to use the sequence
>>
>> File  - Import - video
>>
>> in a  macbook pro mid 2012 under mac os x Yosemite.
>>
>> I downloaded the appropriated plug-in for ImageJ and follow the instructions to put Quick time capabilities in Yosemite …
>>
>> But the corresponding image window suddenly  crashs …
>>
>> I am using the same firmware  camera,  a Sony   XCD SX 910  that works fine in older versions of mac  OS X
>
> OS X 10.10 (Yosemite) and 10.11 (El Capitan‎) do not include the libraries required to run commands like File>Import>Video and File>Import>Using QuickTime that use QuickTime for Java. You can work around this problem by copying the files QTJava.zip and libQTJNative.jnilib, available at http://imagej.nih.gov/ij/download/qt/ into ~/Library/Java/Extensions, where "~" is your home directory. OS X hides the Library folder by default, so you will need to open your home folder and check "Show Library Folder" in the View>Show View Options dialog. Before copying the files, you will need to create the ~/Library/Java and ~/Library/Java/Extensions folders.
>
> -wayne
>
>
>
>
> --
> ImageJ mailing list: http://imagej.nih.gov/ij/list.html

--
ImageJ mailing list: http://imagej.nih.gov/ij/list.html

[Paulo Acioly]

Dear Wayne,

I follow your recommendation and , again the ImageJ falls into capture images from my camera. I am including  a snapshot image  of the error window thee appears  to help understand what is happening…

Thank you very much for your help…

> On 14/10/2015, at 22:38, Rasband, Wayne (NIH/NIMH) [E] <[hidden email]> wrote:
>
>> On Oct 14, 2015, at 10:32 AM, Paulo Acioly <[hidden email]> wrote:
>>
>> Hi  Guys,
>>
>> I followed thee instructions indicated to use the sequence
>>
>> File  - Import - video
>>
>> in a  macbook pro mid 2012 under mac os x Yosemite.
>>
>> I downloaded the appropriated plug-in for ImageJ and follow the instructions to put Quick time capabilities in Yosemite …
>>
>> But the corresponding image window suddenly  crashs …
>>
>> I am using the same firmware  camera,  a Sony   XCD SX 910  that works fine in older versions of mac  OS X
>
> OS X 10.10 (Yosemite) and 10.11 (El Capitan‎) do not include the libraries required to run commands like File>Import>Video and File>Import>Using QuickTime that use QuickTime for Java. You can work around this problem by copying the files QTJava.zip and libQTJNative.jnilib, available at http://imagej.nih.gov/ij/download/qt/ into ~/Library/Java/Extensions, where "~" is your home directory. OS X hides the Library folder by default, so you will need to open your home folder and check "Show Library Folder" in the View>Show View Options dialog. Before copying the files, you will need to create the ~/Library/Java and ~/Library/Java/Extensions folders.
>
> -wayne
>
>
>
>
> --
> ImageJ mailing list: http://imagej.nih.gov/ij/list.html

--
ImageJ mailing list: http://imagej.nih.gov/ij/list.html

[Herbie]

Paulo,

interesting screen shot dated 22. Oct. 2015.

It appears as if you used quicktime.
Could you please be more specific?

Best

Herbie

::::::::::::::::::::::::::::::::::::::::::
Am 17.02.16 um 15:32 schrieb Paulo Acioly:

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[Herbie]

Paulo,

because the issue may be interesting for the list I shall continue
posting our conversation.

"I downloaded the appropriated plug-in [...]"

Which one, and who has written it?
Perhaps the author may help further.

In any case, please update erverything, from ImageJ, the OlugIn, QT to Java.

Good luck

Herbie

::::::::::::::::::::::::::::::::::::::::::
Am 17.02.16 um 16:15 schrieb Paulo Acioly:

> Thank you Herb,
>
> the screen shot continues to be the same :-)
>
> Let me reproduce the original message related to it:
>
> “ Hi  Guys,
>
> I followed thee instructions indicated to use the sequence
>
> File  - Import - video
>
> in a  macbook pro mid 2012 under mac os x Yosemite.
>
> I downloaded the appropriated plug-in for ImageJ and follow the
> instructions to put Quick time capabilities in Yosemite …
>
> But the corresponding image window suddenly  crashs …
>
> I am using the same firmware  camera,  a Sony   XCD SX 910  that works
> fine in older versions of mac  OS X ...
>
> Thank you very much for any comment or suggestion !!!!
>
> Paulo “
>
>
> Wayne send a suggestion:
>
> OS X 10.10 (Yosemite) and 10.11 (El Capitan‎) do not include the
> libraries required to run commands like File>Import>Video and
> File>Import>Using QuickTime that use QuickTime for Java. You can work
> around this problem by copying the files QTJava.zip and
> libQTJNative.jnilib, available at
> http://imagej.nih.gov/ij/download/qt/ into ~/Library/Java/Extensions,
> where "~" is your home directory. OS X hides the Library folder by
> default, so you will need to open your home folder and check "Show
> Library Folder" in the View>Show View Options dialog. Before copying the
> files, you will need to create the ~/Library/Java and
> ~/Library/Java/Extensions folders.
>
> -wayne “
>
> That  do not work and produces the window that you have seen..
>
> Thank you Herb if can send any suggestion to resolve this issue..
>
> Paulo
>
>
>> On 17/02/2016, at 12:51, Herbie <[hidden email]
>> <mailto:[hidden email]>> wrote:
>>
>> Paulo,
>>
>> interesting screen shot dated 22. Oct. 2015.
>>
>> It appears as if you used quicktime.
>> Could you please be more specific?
>>
>> Best
>>
>> Herbie
>>
>> ::::::::::::::::::::::::::::::::::::::::::
>> Am 17.02.16 um 15:32 schrieb Paulo Acioly:
>>
>> --
>> ImageJ mailing list: http://imagej.nih.gov/ij/list.html
>

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