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add & skip failing test #46

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Sep 14, 2020
Merged

add & skip failing test #46

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00a56a5
add & skip failing test
tlambert03 Sep 13, 2020
dcb169c
Merge branch 'master' into failing-test
tlambert03 Sep 14, 2020
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192 changes: 192 additions & 0 deletions testing/data/tubhiswt.ome.xml
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Original file line number Diff line number Diff line change
@@ -0,0 +1,192 @@
<?xml version="1.0" encoding="UTF-8"?><!-- Warning: this comment is an OME-XML metadata block, which contains crucial dimensional parameters and other important metadata. Please edit cautiously (if at all), and back up the original data before doing so. For more information, see the OME-TIFF web site: http://www.openmicroscopy.org/site/support/ome-model/ome-tiff/. -->
<OME xmlns="http://www.openmicroscopy.org/Schemas/OME/2016-06"
xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" Creator="OME Bio-Formats 5.2.0-m4" UUID="urn:uuid:06846f98-85ab-43f1-b665-2ba8b11ca845" xsi:schemaLocation="http://www.openmicroscopy.org/Schemas/OME/2016-06 http://www.openmicroscopy.org/Schemas/OME/2016-06/ome.xsd">
<Experiment ID="urn:lsid:loci.wisc.edu:Experiment:OWS350" Type="TimeLapse">
<Description>4 Cell Embryo</Description>
<ExperimenterRef ID="urn:lsid:loci.wisc.edu:Experimenter:116"/>
</Experiment>
<Experimenter Email="mnasim@wisc.edu" FirstName="Maimoon" ID="urn:lsid:loci.wisc.edu:Experimenter:116" Institution="" LastName="Nasim"/>
<Instrument ID="urn:lsid:loci.wisc.edu:Instrument:OWS1">
<Microscope Manufacturer="Nikon" Model="Eclipse TE300" SerialNumber="U629762" Type="Inverted"/>
<Laser ID="urn:lsid:loci.wisc.edu:LightSource:OWS1" LaserMedium="TiSapphire" Manufacturer="Spectral Physics" Model="Tsunami 5W" SerialNumber="2123" Type="SolidState"/>
<Detector ID="urn:lsid:loci.wisc.edu:Detector:OWS1" Manufacturer="Hamamatzu" Model="H7422" Type="PMT"/>
<Detector ID="urn:lsid:loci.wisc.edu:Detector:OWS2" Manufacturer="Bio-Rad" Model="1024TLD" Type="Photodiode"/>
<Objective CalibratedMagnification="100.0" Correction="PlanApo" ID="urn:lsid:loci.wisc.edu:Objective:OWS2" Immersion="Oil" LensNA="1.4" Manufacturer="Nikon" Model="S Fluor" NominalMagnification="100.0" SerialNumber="044989" WorkingDistance="0.13" WorkingDistanceUnit="µm"/>
</Instrument>
<Image ID="Image:0" Name="tubhiswt">
<AcquisitionDate>2013-01-15T17:02:41</AcquisitionDate>
<ExperimenterRef ID="urn:lsid:loci.wisc.edu:Experimenter:116"/>
<Pixels BigEndian="false" DimensionOrder="XYZTC" ID="Pixels:0" Interleaved="false" SignificantBits="8" SizeC="2" SizeT="20" SizeX="512" SizeY="512" SizeZ="1" Type="uint8">
<Channel Color="-1" ID="Channel:0:0" SamplesPerPixel="1">
<LightSourceSettings ID="urn:lsid:loci.wisc.edu:LightSource:OWS1"/>
<DetectorSettings ID="urn:lsid:loci.wisc.edu:Detector:OWS1"/>
<LightPath/>
</Channel>
<Channel Color="-1" ID="Channel:0:1" SamplesPerPixel="1">
<LightSourceSettings ID="urn:lsid:loci.wisc.edu:LightSource:OWS1"/>
<DetectorSettings ID="urn:lsid:loci.wisc.edu:Detector:OWS2"/>
<LightPath/>
</Channel>
<TiffData FirstC="0" FirstT="0" FirstZ="0" IFD="0" PlaneCount="1">
<UUID FileName="tubhiswt_C0.ome.tif">urn:uuid:06846f98-85ab-43f1-b665-2ba8b11ca845</UUID>
</TiffData>
<TiffData FirstC="0" FirstT="1" FirstZ="0" IFD="1" PlaneCount="1">
<UUID FileName="tubhiswt_C0.ome.tif">urn:uuid:06846f98-85ab-43f1-b665-2ba8b11ca845</UUID>
</TiffData>
<TiffData FirstC="0" FirstT="2" FirstZ="0" IFD="2" PlaneCount="1">
<UUID FileName="tubhiswt_C0.ome.tif">urn:uuid:06846f98-85ab-43f1-b665-2ba8b11ca845</UUID>
</TiffData>
<TiffData FirstC="0" FirstT="3" FirstZ="0" IFD="3" PlaneCount="1">
<UUID FileName="tubhiswt_C0.ome.tif">urn:uuid:06846f98-85ab-43f1-b665-2ba8b11ca845</UUID>
</TiffData>
<TiffData FirstC="0" FirstT="4" FirstZ="0" IFD="4" PlaneCount="1">
<UUID FileName="tubhiswt_C0.ome.tif">urn:uuid:06846f98-85ab-43f1-b665-2ba8b11ca845</UUID>
</TiffData>
<TiffData FirstC="0" FirstT="5" FirstZ="0" IFD="5" PlaneCount="1">
<UUID FileName="tubhiswt_C0.ome.tif">urn:uuid:06846f98-85ab-43f1-b665-2ba8b11ca845</UUID>
</TiffData>
<TiffData FirstC="0" FirstT="6" FirstZ="0" IFD="6" PlaneCount="1">
<UUID FileName="tubhiswt_C0.ome.tif">urn:uuid:06846f98-85ab-43f1-b665-2ba8b11ca845</UUID>
</TiffData>
<TiffData FirstC="0" FirstT="7" FirstZ="0" IFD="7" PlaneCount="1">
<UUID FileName="tubhiswt_C0.ome.tif">urn:uuid:06846f98-85ab-43f1-b665-2ba8b11ca845</UUID>
</TiffData>
<TiffData FirstC="0" FirstT="8" FirstZ="0" IFD="8" PlaneCount="1">
<UUID FileName="tubhiswt_C0.ome.tif">urn:uuid:06846f98-85ab-43f1-b665-2ba8b11ca845</UUID>
</TiffData>
<TiffData FirstC="0" FirstT="9" FirstZ="0" IFD="9" PlaneCount="1">
<UUID FileName="tubhiswt_C0.ome.tif">urn:uuid:06846f98-85ab-43f1-b665-2ba8b11ca845</UUID>
</TiffData>
<TiffData FirstC="0" FirstT="10" FirstZ="0" IFD="10" PlaneCount="1">
<UUID FileName="tubhiswt_C0.ome.tif">urn:uuid:06846f98-85ab-43f1-b665-2ba8b11ca845</UUID>
</TiffData>
<TiffData FirstC="0" FirstT="11" FirstZ="0" IFD="11" PlaneCount="1">
<UUID FileName="tubhiswt_C0.ome.tif">urn:uuid:06846f98-85ab-43f1-b665-2ba8b11ca845</UUID>
</TiffData>
<TiffData FirstC="0" FirstT="12" FirstZ="0" IFD="12" PlaneCount="1">
<UUID FileName="tubhiswt_C0.ome.tif">urn:uuid:06846f98-85ab-43f1-b665-2ba8b11ca845</UUID>
</TiffData>
<TiffData FirstC="0" FirstT="13" FirstZ="0" IFD="13" PlaneCount="1">
<UUID FileName="tubhiswt_C0.ome.tif">urn:uuid:06846f98-85ab-43f1-b665-2ba8b11ca845</UUID>
</TiffData>
<TiffData FirstC="0" FirstT="14" FirstZ="0" IFD="14" PlaneCount="1">
<UUID FileName="tubhiswt_C0.ome.tif">urn:uuid:06846f98-85ab-43f1-b665-2ba8b11ca845</UUID>
</TiffData>
<TiffData FirstC="0" FirstT="15" FirstZ="0" IFD="15" PlaneCount="1">
<UUID FileName="tubhiswt_C0.ome.tif">urn:uuid:06846f98-85ab-43f1-b665-2ba8b11ca845</UUID>
</TiffData>
<TiffData FirstC="0" FirstT="16" FirstZ="0" IFD="16" PlaneCount="1">
<UUID FileName="tubhiswt_C0.ome.tif">urn:uuid:06846f98-85ab-43f1-b665-2ba8b11ca845</UUID>
</TiffData>
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<UUID FileName="tubhiswt_C0.ome.tif">urn:uuid:06846f98-85ab-43f1-b665-2ba8b11ca845</UUID>
</TiffData>
<TiffData FirstC="0" FirstT="18" FirstZ="0" IFD="18" PlaneCount="1">
<UUID FileName="tubhiswt_C0.ome.tif">urn:uuid:06846f98-85ab-43f1-b665-2ba8b11ca845</UUID>
</TiffData>
<TiffData FirstC="0" FirstT="19" FirstZ="0" IFD="19" PlaneCount="1">
<UUID FileName="tubhiswt_C0.ome.tif">urn:uuid:06846f98-85ab-43f1-b665-2ba8b11ca845</UUID>
</TiffData>
<TiffData FirstC="1" FirstT="0" FirstZ="0" IFD="0" PlaneCount="1">
<UUID FileName="tubhiswt_C1.ome.tif">urn:uuid:f801ea0a-e93e-4f4f-99b3-7ecc15048c12</UUID>
</TiffData>
<TiffData FirstC="1" FirstT="1" FirstZ="0" IFD="1" PlaneCount="1">
<UUID FileName="tubhiswt_C1.ome.tif">urn:uuid:f801ea0a-e93e-4f4f-99b3-7ecc15048c12</UUID>
</TiffData>
<TiffData FirstC="1" FirstT="2" FirstZ="0" IFD="2" PlaneCount="1">
<UUID FileName="tubhiswt_C1.ome.tif">urn:uuid:f801ea0a-e93e-4f4f-99b3-7ecc15048c12</UUID>
</TiffData>
<TiffData FirstC="1" FirstT="3" FirstZ="0" IFD="3" PlaneCount="1">
<UUID FileName="tubhiswt_C1.ome.tif">urn:uuid:f801ea0a-e93e-4f4f-99b3-7ecc15048c12</UUID>
</TiffData>
<TiffData FirstC="1" FirstT="4" FirstZ="0" IFD="4" PlaneCount="1">
<UUID FileName="tubhiswt_C1.ome.tif">urn:uuid:f801ea0a-e93e-4f4f-99b3-7ecc15048c12</UUID>
</TiffData>
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<UUID FileName="tubhiswt_C1.ome.tif">urn:uuid:f801ea0a-e93e-4f4f-99b3-7ecc15048c12</UUID>
</TiffData>
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<UUID FileName="tubhiswt_C1.ome.tif">urn:uuid:f801ea0a-e93e-4f4f-99b3-7ecc15048c12</UUID>
</TiffData>
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<UUID FileName="tubhiswt_C1.ome.tif">urn:uuid:f801ea0a-e93e-4f4f-99b3-7ecc15048c12</UUID>
</TiffData>
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<UUID FileName="tubhiswt_C1.ome.tif">urn:uuid:f801ea0a-e93e-4f4f-99b3-7ecc15048c12</UUID>
</TiffData>
<TiffData FirstC="1" FirstT="9" FirstZ="0" IFD="9" PlaneCount="1">
<UUID FileName="tubhiswt_C1.ome.tif">urn:uuid:f801ea0a-e93e-4f4f-99b3-7ecc15048c12</UUID>
</TiffData>
<TiffData FirstC="1" FirstT="10" FirstZ="0" IFD="10" PlaneCount="1">
<UUID FileName="tubhiswt_C1.ome.tif">urn:uuid:f801ea0a-e93e-4f4f-99b3-7ecc15048c12</UUID>
</TiffData>
<TiffData FirstC="1" FirstT="11" FirstZ="0" IFD="11" PlaneCount="1">
<UUID FileName="tubhiswt_C1.ome.tif">urn:uuid:f801ea0a-e93e-4f4f-99b3-7ecc15048c12</UUID>
</TiffData>
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<UUID FileName="tubhiswt_C1.ome.tif">urn:uuid:f801ea0a-e93e-4f4f-99b3-7ecc15048c12</UUID>
</TiffData>
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<UUID FileName="tubhiswt_C1.ome.tif">urn:uuid:f801ea0a-e93e-4f4f-99b3-7ecc15048c12</UUID>
</TiffData>
<TiffData FirstC="1" FirstT="14" FirstZ="0" IFD="14" PlaneCount="1">
<UUID FileName="tubhiswt_C1.ome.tif">urn:uuid:f801ea0a-e93e-4f4f-99b3-7ecc15048c12</UUID>
</TiffData>
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<UUID FileName="tubhiswt_C1.ome.tif">urn:uuid:f801ea0a-e93e-4f4f-99b3-7ecc15048c12</UUID>
</TiffData>
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<UUID FileName="tubhiswt_C1.ome.tif">urn:uuid:f801ea0a-e93e-4f4f-99b3-7ecc15048c12</UUID>
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</TiffData>
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<UUID FileName="tubhiswt_C1.ome.tif">urn:uuid:f801ea0a-e93e-4f4f-99b3-7ecc15048c12</UUID>
</TiffData>
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<UUID FileName="tubhiswt_C1.ome.tif">urn:uuid:f801ea0a-e93e-4f4f-99b3-7ecc15048c12</UUID>
</TiffData>
<Plane TheC="0" TheT="0" TheZ="0"/>
<Plane TheC="0" TheT="1" TheZ="0"/>
<Plane TheC="0" TheT="2" TheZ="0"/>
<Plane TheC="0" TheT="3" TheZ="0"/>
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<Plane TheC="0" TheT="5" TheZ="0"/>
<Plane TheC="0" TheT="6" TheZ="0"/>
<Plane TheC="0" TheT="7" TheZ="0"/>
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<Plane TheC="0" TheT="9" TheZ="0"/>
<Plane TheC="0" TheT="10" TheZ="0"/>
<Plane TheC="0" TheT="11" TheZ="0"/>
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<Plane TheC="0" TheT="13" TheZ="0"/>
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<Plane TheC="0" TheT="15" TheZ="0"/>
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<Plane TheC="0" TheT="19" TheZ="0"/>
<Plane TheC="1" TheT="0" TheZ="0"/>
<Plane TheC="1" TheT="1" TheZ="0"/>
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<Plane TheC="1" TheT="3" TheZ="0"/>
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<Plane TheC="1" TheT="5" TheZ="0"/>
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<Plane TheC="1" TheT="7" TheZ="0"/>
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<Plane TheC="1" TheT="9" TheZ="0"/>
<Plane TheC="1" TheT="10" TheZ="0"/>
<Plane TheC="1" TheT="11" TheZ="0"/>
<Plane TheC="1" TheT="12" TheZ="0"/>
<Plane TheC="1" TheT="13" TheZ="0"/>
<Plane TheC="1" TheT="14" TheZ="0"/>
<Plane TheC="1" TheT="15" TheZ="0"/>
<Plane TheC="1" TheT="16" TheZ="0"/>
<Plane TheC="1" TheT="17" TheZ="0"/>
<Plane TheC="1" TheT="18" TheZ="0"/>
<Plane TheC="1" TheT="19" TheZ="0"/>
</Pixels>
</Image>
</OME>
1 change: 1 addition & 0 deletions testing/test_model.py
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -17,6 +17,7 @@
SHOULD_FAIL_READ = {
# Some timestamps have negative years which datetime doesn't support.
"timestampannotation",
"tubhiswt",
}
SHOULD_RAISE_READ = {"bad"}
SHOULD_FAIL_ROUNDTRIP = {
Expand Down