[ImageJ-devel] 'ops not defined' when running jython script

[Curtis Rueden]

Hi Brian,

Thanks for the reports:

> 1.  The last couple of days when I try to extract the Fiji Linux 64
> continuous release tar file I get an error "truncated gzip input".  I can
> work around this by downloading the "all platforms" package instead.

Hmm, I did not see this problem when I tried just now. Perhaps the download
itself is not completing successfully? It should be ~141MB. If it keeps
happening, we could add an MD5 sum for verification if that would be
helpful.

> 2.  It seems that the ops service is not getting injected into my jython
> scripts.  Scripts works fine (ie data and display are injuected) until I
try
> to call an op.  Then I get "ops is not defined".   This only happens when
> using a Fiji release.  If I run imagej2 through a development environment
> using maven it works.

Yeah, I noticed this same problem the other day, and fixed it on master:


https://github.com/scijava/scijava-common/commit/f88984cb587c314c53e06fdce606d4cecf3a4813

Using scijava-common-2.28.0 or later will avoid the issue. Or you can work
around it by writing:

    # @net.imagej.ops.OpService ops

Regards,
Curtis


On Mon, Aug 4, 2014 at 3:32 PM, Brian Northan <bnorthan at gmail.com> wrote:

> Hi List
>
> A couple of things...
>
> 1.  The last couple of days when I try to extract the Fiji Linux 64
> continuous release tar file I get an error "truncated gzip input".  I can
> work around this by downloading the "all platforms" package instead.
>
> 2.  It seems that the ops service is not getting injected into my jython
> scripts.  Scripts works fine (ie data and display are injuected) until I
> try to call an op.  Then I get "ops is not defined".   This only happens
> when using a Fiji release.  If I run imagej2 through a development
> environment using maven it works.
>
> Thanks, an example script is below
>
> Brian
>
> # @DatasetService data
> # @DisplayService display
> # @OpService ops
>
> # define a local directory to get the images from
> directory="/home/bnorthan/Brian2014/Images/TempForEasyAccess/"
>
> # use 2-channels of the lena image for test image
> image1Name="lena_red.tif"
> image2Name="lena_green.tif"
>
> # open first image
> image1=data.open(directory+image1Name)
> display.createDisplay(image1.getName(), image1);
>
> # open second image
> image2=data.open(directory+image2Name)
> display.createDisplay(image2.getName(), image2);
>
> # add the images
> image3 = ops.add(image1,image2)
> display.createDisplay(image3.getName(), image3)
>
>
>
>
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> ImageJ-devel at imagej.net
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>
>
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