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<b><a class="bz_bug_link
bz_status_NEW "
title="NEW - Issue with the Stitching plugin (Grid/collection stitching)"
href="http://fiji.sc/bugzilla/show_bug.cgi?id=1234#c6">Comment # 6</a>
on <a class="bz_bug_link
bz_status_NEW "
title="NEW - Issue with the Stitching plugin (Grid/collection stitching)"
href="http://fiji.sc/bugzilla/show_bug.cgi?id=1234">bug 1234</a>
from <span class="vcard"><a class="email" href="mailto:suzel@g.harvard.edu" title="suzel@g.harvard.edu">suzel@g.harvard.edu</a>
</span></b>
<pre>(In reply to Jan Eglinger from <a href="show_bug.cgi?id=1234#c4">comment #4</a>)
<span class="quote">> (In reply to suzel from <a href="show_bug.cgi?id=1234#c3">comment #3</a>)
> > If I stitch the entire set of images using the 'position from files'
> > sub-routine, the stitching work fine,
>
> In 'positions from file', do you use the 'Defined by TileConfiguration' or
> the 'Defined by image metadata' mode?
>
> If using a TileConfiguration.txt file worked for you, you can edit that file
> to include only the files of interest.
> If using image metadata (which more likely if understood you correctly), a
> workaround might be to re-save the files to tiff *without* their metadata
> and then use row-by-row as you tried.
>
> What format are you using? OME-Tiff?</span >
Also, and interestingly, the bio-format importer doesn't seem capable of
generating a hyperstack when I loaded the original stacks (which I thought
could be convenient to resave the entire set of images in one go instead of
resaving them one by one). However, once resaved separately, bio-format
importedd has no trouble grouping the stacks into a hyperstack. There seems to
be some incompatibility between the image/stack format spitted out by
Micromanager and the imageJ plugins for handling those stacks (which is odd
considering that micromanager runs on imageJ).</pre>
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