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<div style="direction: ltr;font-family: Tahoma;color: #000000;font-size: 10pt;">Dear OME,<br>
<br>
I think that I have found an issue with the parsing/generation of meta data from czi files.<br>
<br>
<font face="Tahoma" color="black" size="2"><span style="font-size:10pt;" dir="ltr">
<div style="text-indent:0;"><font size="1"><span style="font-size:13.32px;font-weight:normal;font-variant:normal;text-transform:none;">The bug is:</span></font></div>
<div style="text-indent:0;"><font size="1"><span style="font-size:13.32px;font-weight:normal;font-variant:normal;text-transform:none;"><br>
</span></font></div>
<div style="text-indent:0;"><font size="1"><span style="font-size:13.32px;font-weight:normal;font-variant:normal;text-transform:none;">- when we have several channels (yellow, cyan...) that we image simultaneously, bioformats metadata assumes that we read them
sequentially, if the image is a Zeiss czi file.<br>
</span></font></div>
<div style="text-indent:0;"><font size="1"><span style="font-size:13.32px;font-weight:normal;font-variant:normal;text-transform:none;"><br>
</span></font></div>
<div style="text-indent:0;"><font size="1"><span style="font-size:13.32px;font-weight:normal;font-variant:normal;text-transform:none;">This would be a problem if we want to make ratios between channels, for instance. It totally changes the resolution.</span></font></div>
<div style="text-indent:0;"><font size="1"><span style="font-size:13.32px;font-weight:normal;font-variant:normal;text-transform:none;"><br>
The attached files are from the same image capture.<br>
The ``showinf`` command gives the correct output for the lsm file, but not for the czi file.</span></font></div>
</span></font><br>
<br>
N108541:bftools vazmart$ ./showinf /Users/vazmart/Documents/images/metadatatest/testeseq/1minute30asecinterval2cycles807ms.czi -nopix -omexml | grep -i DeltaT<br>
<Plane DeltaT="729.0428883030303" DeltaTUnit="s" PositionX="0" PositionXUnit="reference frame" PositionY="0" PositionYUnit="reference frame" TheC="0" TheT="0" TheZ="0"/><br>
<Plane DeltaT="758.9996632121212" DeltaTUnit="s" PositionX="0" PositionXUnit="reference frame" PositionY="0" PositionYUnit="reference frame" TheC="1" TheT="0" TheZ="0"/><br>
N108541:bftools vazmart$ ./showinf /Users/vazmart/Documents/images/metadatatest/testeseq/1minute30asecinterval2cycles807ms.lsm -nopix -omexml | grep -i DeltaT<br>
<Plane DeltaT="0.0" DeltaTUnit="s" PositionX="47.2" PositionXUnit="reference frame" PositionY="147.4" PositionYUnit="reference frame" PositionZ="0.0" PositionZUnit="reference frame" TheC="0" TheT="0" TheZ="0"/><br>
<Plane DeltaT="0.0" DeltaTUnit="s" PositionX="47.2" PositionXUnit="reference frame" PositionY="147.4" PositionYUnit="reference frame" PositionZ="0.0" PositionZUnit="reference frame" TheC="1" TheT="0" TheZ="0"/><br>
<Plane DeltaT="0.0" DeltaTUnit="s" PositionX="47.2" PositionXUnit="reference frame" PositionY="147.4" PositionYUnit="reference frame" PositionZ="0.0" PositionZUnit="reference frame" TheC="2" TheT="0" TheZ="0"/><br>
<Plane DeltaT="29.956774909090882" DeltaTUnit="s" PositionX="47.2" PositionXUnit="reference frame" PositionY="147.4" PositionYUnit="reference frame" PositionZ="0.0" PositionZUnit="reference frame" TheC="0" TheT="1" TheZ="0"/><br>
<Plane DeltaT="29.956774909090882" DeltaTUnit="s" PositionX="47.2" PositionXUnit="reference frame" PositionY="147.4" PositionYUnit="reference frame" PositionZ="0.0" PositionZUnit="reference frame" TheC="1" TheT="1" TheZ="0"/><br>
<Plane DeltaT="29.956774909090882" DeltaTUnit="s" PositionX="47.2" PositionXUnit="reference frame" PositionY="147.4" PositionYUnit="reference frame" PositionZ="0.0" PositionZUnit="reference frame" TheC="2" TheT="1" TheZ="0"/><br>
N108541:bftools vazmart$ ./showinf -version<br>
Version: 5.1.10<br>
VCS revision: 3125500841deff07687b25eb3f430dca62dee648<br>
Build date: 6 May 2016<br>
N108541:bftools vazmart$<br>
<br>
Kind regards,<br>
<br>
Teresa<br>
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