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<base href="http://fiji.sc/bugzilla/" />
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<th>Bug ID</th>
<td><a class="bz_bug_link
bz_status_NEW "
title="NEW - BF does not open some .stk file correctly"
href="http://fiji.sc/bugzilla/show_bug.cgi?id=868">868</a>
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<th>Summary</th>
<td>BF does not open some .stk file correctly
</td>
</tr>
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<th>Product</th>
<td>Fiji
</td>
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<th>Version</th>
<td>unspecified
</td>
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<th>Hardware</th>
<td>PC
</td>
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<th>OS</th>
<td>All
</td>
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<th>Status</th>
<td>NEW
</td>
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<th>Severity</th>
<td>normal
</td>
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<th>Priority</th>
<td>P5
</td>
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<th>Component</th>
<td>Bio-Formats
</td>
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<th>Assignee</th>
<td>imagej-bugs@imagej.net
</td>
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<th>Reporter</th>
<td>marelo64@gmail.com
</td>
</tr></table>
<p>
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<pre>Created <span class=""><a href="attachment.cgi?id=185" name="attach_185" title="Contain file1.stk and file2.stk">attachment 185</a> <a href="attachment.cgi?id=185&action=edit" title="Contain file1.stk and file2.stk">[details]</a></span>
Contain file1.stk and file2.stk
Note that I use a recent IJ/Fiji version (and the bug has also been noticed
with an older IJ version few months ago).
Some .stk files are not correctly detected by BF and IJ open them with two axes
(Z and T) while only one exist. Examples (axes order is T, Z, X, Y, C) :
- file1.stk : real shape = (10, 1, 264, 268, 1), BF detected shape = (5, 2,
264, 268, 1)
- file2.stk (with several channels): real shape = (10, 1, 139, 224, 3), BF
detected shape = (5, 2, 139, 224, 3)
Both files have been saved from Metamorph after a z-projection (I bet the issue
comes from here).
They open well on different Metamorph versions and also tifffile.py lib detects
the correct shapes.
If you this place is not appropriate for this kind of bug, feel free to
redirect me to the right place.
Both files are in the attachment file called stk_files.zip</pre>
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