diff --git a/data/0.0.0/images/AChE-MED.xml b/data/0.0.0/images/AChE-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..131b370d3264356a02f2653ee6aa9bba8ed72e24 --- /dev/null +++ b/data/0.0.0/images/AChE-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/AChE-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/ANPRA-MED.xml b/data/0.0.0/images/ANPRA-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..621e068d6d8e89e81fcf86ebfa6ce6b2bf0d42e7 --- /dev/null +++ b/data/0.0.0/images/ANPRA-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/ANPRA-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/ANPRB-MED.xml b/data/0.0.0/images/ANPRB-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..2ba6b435aab0709d1438e84ac71693c7eebb212a --- /dev/null +++ b/data/0.0.0/images/ANPRB-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/ANPRB-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/AP2-MED.xml b/data/0.0.0/images/AP2-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..58d5bf27d50ed46c6331ce435d4a2382028a25ed --- /dev/null +++ b/data/0.0.0/images/AP2-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/AP2-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/ASCb-MED.xml b/data/0.0.0/images/ASCb-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..8fd35817b78112e4955f99849b30cc4b09d54454 --- /dev/null +++ b/data/0.0.0/images/ASCb-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/ASCb-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/AcTub-MED.xml b/data/0.0.0/images/AcTub-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..4984413f220f9ff4055f4c8dccf03dffdc76d517 --- /dev/null +++ b/data/0.0.0/images/AcTub-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/AcTub-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/AllCR1-MED.xml b/data/0.0.0/images/AllCR1-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..695d5ed0ae1d3ffd31f91891d7130c46e9363577 --- /dev/null +++ b/data/0.0.0/images/AllCR1-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/AllCR1-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/AllCR2-MED.xml b/data/0.0.0/images/AllCR2-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..ede90c6b78e3e33dca95214d8a396ec7d8dc115c --- /dev/null +++ b/data/0.0.0/images/AllCR2-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/AllCR2-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/Arx-MED.xml b/data/0.0.0/images/Arx-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..a7a275661549e08d3c05b65272d544c815412945 --- /dev/null +++ b/data/0.0.0/images/Arx-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/Arx-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/Ash-MED.xml b/data/0.0.0/images/Ash-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..f10d0d9c70d0dd7a8e871ac018d907f2efea93db --- /dev/null +++ b/data/0.0.0/images/Ash-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/Ash-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/BAIAP-MED.xml b/data/0.0.0/images/BAIAP-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..15b25b33735ced42af4633c27ab5c97de09d3e6e --- /dev/null +++ b/data/0.0.0/images/BAIAP-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/BAIAP-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/BarH1-MED.xml b/data/0.0.0/images/BarH1-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..3c0f2677c9bd4f6abe062642c7631b8ad5a1a530 --- /dev/null +++ b/data/0.0.0/images/BarH1-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/BarH1-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/Beta3-MED.xml b/data/0.0.0/images/Beta3-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..d0092e6facbe04e872df2f2d70cc8a90cdc783ac --- /dev/null +++ b/data/0.0.0/images/Beta3-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/Beta3-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/Bmpr1-MED.xml b/data/0.0.0/images/Bmpr1-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..4f792e148a1c885239d231cc7889359b743fe2e4 --- /dev/null +++ b/data/0.0.0/images/Bmpr1-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/Bmpr1-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/Brn3a-MED.xml b/data/0.0.0/images/Brn3a-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..93d8ae1a8c8b9002f9ef77610fb1144506074340 --- /dev/null +++ b/data/0.0.0/images/Brn3a-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/Brn3a-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/COE-MED.xml b/data/0.0.0/images/COE-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..5975be0cb7381bc8d57d2b351c51e443d1a118e2 --- /dev/null +++ b/data/0.0.0/images/COE-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/COE-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/Cal2-MED.xml b/data/0.0.0/images/Cal2-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..8aabe6b5cacaf4d988a5111a253f224dc9eb4fc1 --- /dev/null +++ b/data/0.0.0/images/Cal2-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/Cal2-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/Calmodulin-MED.xml b/data/0.0.0/images/Calmodulin-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..af63a1ea36a2aa3c85e35d6a312e3df96f0c000e --- /dev/null +++ b/data/0.0.0/images/Calmodulin-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/Calmodulin-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/ChAT-MED.xml b/data/0.0.0/images/ChAT-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..f8fcfd30613983e7a886235d78fb72819698eae2 --- /dev/null +++ b/data/0.0.0/images/ChAT-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/ChAT-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/Chx10-MED.xml b/data/0.0.0/images/Chx10-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..6d12d7a0497c5db1fa0d760f665171c680e4725e --- /dev/null +++ b/data/0.0.0/images/Chx10-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/Chx10-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/Dach-MED.xml b/data/0.0.0/images/Dach-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..0a9e15d00fdceb077708e7a5ac081a1755e21437 --- /dev/null +++ b/data/0.0.0/images/Dach-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/Dach-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/DbhLike-MED.xml b/data/0.0.0/images/DbhLike-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..b530976b176996d39572e51bb761a326daea9ade --- /dev/null +++ b/data/0.0.0/images/DbhLike-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/DbhLike-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/DopaRD2-MED.xml b/data/0.0.0/images/DopaRD2-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..0af286d49e7699840b4888e50896f4090e1f03e6 --- /dev/null +++ b/data/0.0.0/images/DopaRD2-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/DopaRD2-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/ENR1-MED.xml b/data/0.0.0/images/ENR1-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..54482e94b1d3a9240e19e531622730facf465395 --- /dev/null +++ b/data/0.0.0/images/ENR1-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/ENR1-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/ENR10-MED.xml b/data/0.0.0/images/ENR10-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..dea1acdd4b5383ca6be48e32f42eb97b5e036a38 --- /dev/null +++ b/data/0.0.0/images/ENR10-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/ENR10-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/ENR12-MED.xml b/data/0.0.0/images/ENR12-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..82fc8b4fb98a3d1621d8eeb70a9627a70b35aeba --- /dev/null +++ b/data/0.0.0/images/ENR12-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/ENR12-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/ENR13-MED.xml b/data/0.0.0/images/ENR13-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..a25f531ca6a300067bf4022bdba5284ab59de29f --- /dev/null +++ b/data/0.0.0/images/ENR13-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/ENR13-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/ENR16-MED.xml b/data/0.0.0/images/ENR16-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..c7562c3dd7677407ba5303f050e632e655fc1d67 --- /dev/null +++ b/data/0.0.0/images/ENR16-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/ENR16-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/ENR19-MED.xml b/data/0.0.0/images/ENR19-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..4fd1b29bad88c061c74504bd06c2c972e9ea103f --- /dev/null +++ b/data/0.0.0/images/ENR19-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/ENR19-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/ENR2-MED.xml b/data/0.0.0/images/ENR2-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..df04229c95e8ee2017863ae4dac014424b9d04f8 --- /dev/null +++ b/data/0.0.0/images/ENR2-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/ENR2-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/ENR20-MED.xml b/data/0.0.0/images/ENR20-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..9c643fd900b046b79d839ee751e6da552e5ac702 --- /dev/null +++ b/data/0.0.0/images/ENR20-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/ENR20-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/ENR22-MED.xml b/data/0.0.0/images/ENR22-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..69fe41ef7dac83eebaf70a4c2731b94737ae2c0b --- /dev/null +++ b/data/0.0.0/images/ENR22-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/ENR22-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/ENR25-MED.xml b/data/0.0.0/images/ENR25-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..4d913c7c80a771fa675b84f87bda9f7a1de12ce5 --- /dev/null +++ b/data/0.0.0/images/ENR25-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/ENR25-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/ENR29-MED.xml b/data/0.0.0/images/ENR29-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..7562512574f5427c3267769a78d3eb629fb1536c --- /dev/null +++ b/data/0.0.0/images/ENR29-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/ENR29-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/ENR3-MED.xml b/data/0.0.0/images/ENR3-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..fd642ca94e1c1733a68fac3dc500e4cc69ba294f --- /dev/null +++ b/data/0.0.0/images/ENR3-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/ENR3-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/ENR30-MED.xml b/data/0.0.0/images/ENR30-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..8ca2cb84cafe00681cc585e3cc256b47ca42e438 --- /dev/null +++ b/data/0.0.0/images/ENR30-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/ENR30-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/ENR31-MED.xml b/data/0.0.0/images/ENR31-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..847756eaa7da75a793e253353acf95125db2efb1 --- /dev/null +++ b/data/0.0.0/images/ENR31-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/ENR31-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/ENR32-MED.xml b/data/0.0.0/images/ENR32-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..94b24745a12bab174fda3e9930ffe1189c584243 --- /dev/null +++ b/data/0.0.0/images/ENR32-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/ENR32-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/ENR34-MED.xml b/data/0.0.0/images/ENR34-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..ccf094140ce1901bfe1a2db00e472af514fc50e8 --- /dev/null +++ b/data/0.0.0/images/ENR34-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/ENR34-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/ENR39-MED.xml b/data/0.0.0/images/ENR39-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..d20e1b7b6d914173c21a9a43a4a559bc9329c0c9 --- /dev/null +++ b/data/0.0.0/images/ENR39-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/ENR39-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/ENR4-MED.xml b/data/0.0.0/images/ENR4-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..e0ab54af0102c0024c2c57fb4d086a932883b082 --- /dev/null +++ b/data/0.0.0/images/ENR4-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/ENR4-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/ENR46-MED.xml b/data/0.0.0/images/ENR46-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..1296b7f74438462e632a4e36dc5b72521af2f98c --- /dev/null +++ b/data/0.0.0/images/ENR46-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/ENR46-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/ENR54-MED.xml b/data/0.0.0/images/ENR54-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..63c34ec19e2519ad8e68c6a92388f03fbedc9767 --- /dev/null +++ b/data/0.0.0/images/ENR54-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/ENR54-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/ENR57-MED.xml b/data/0.0.0/images/ENR57-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..fb1cbed70a3aec39f4115e979523dc0d23f88f39 --- /dev/null +++ b/data/0.0.0/images/ENR57-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/ENR57-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/ENR6-MED.xml b/data/0.0.0/images/ENR6-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..970400cc154ca704d4923901e8d8dc47c9a85ca6 --- /dev/null +++ b/data/0.0.0/images/ENR6-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/ENR6-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/ENR62-MED.xml b/data/0.0.0/images/ENR62-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..f063e2aea82d09b03065aa3b740bafdbb7814258 --- /dev/null +++ b/data/0.0.0/images/ENR62-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/ENR62-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/ENR64-MED.xml b/data/0.0.0/images/ENR64-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..b4d3c33a683aa130708ccbe119e8bf854481a4d2 --- /dev/null +++ b/data/0.0.0/images/ENR64-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/ENR64-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/ENR69-MED.xml b/data/0.0.0/images/ENR69-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..d175995ae1dcb666f8b320954af57c839e1e4e24 --- /dev/null +++ b/data/0.0.0/images/ENR69-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/ENR69-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/ENR71-MED.xml b/data/0.0.0/images/ENR71-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..2afb9ab305d80f98231b688a6d52d534c4ec399b --- /dev/null +++ b/data/0.0.0/images/ENR71-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/ENR71-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/ENR8-MED.xml b/data/0.0.0/images/ENR8-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..f658ff875ab77d98d3fbb0dcbc2bab8c2d84e164 --- /dev/null +++ b/data/0.0.0/images/ENR8-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/ENR8-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/ENR9-MED.xml b/data/0.0.0/images/ENR9-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..5da651bf8ea09681299657da222947578e8a4d23 --- /dev/null +++ b/data/0.0.0/images/ENR9-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/ENR9-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/ElaV-MED.xml b/data/0.0.0/images/ElaV-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..8ae614b0c3ec60cdd37441cab8cc203848ec8c0d --- /dev/null +++ b/data/0.0.0/images/ElaV-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/ElaV-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/FOR-MED.xml b/data/0.0.0/images/FOR-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..40c19ab54a46f2512f07299fb42ea9a819cea2c4 --- /dev/null +++ b/data/0.0.0/images/FOR-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/FOR-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/FVRI-MED.xml b/data/0.0.0/images/FVRI-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..e87dc7a847f7fffd232863eb430a3b3bc8ebf47f --- /dev/null +++ b/data/0.0.0/images/FVRI-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/FVRI-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/FoxD3-MED.xml b/data/0.0.0/images/FoxD3-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..0adc27d0f4b422edb15988e8ce925af7401c5205 --- /dev/null +++ b/data/0.0.0/images/FoxD3-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/FoxD3-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/FoxN4-MED.xml b/data/0.0.0/images/FoxN4-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..dc91bf193aaddc188e1fe968cbfd40156c0b1d29 --- /dev/null +++ b/data/0.0.0/images/FoxN4-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/FoxN4-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/GAD-MED.xml b/data/0.0.0/images/GAD-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..aeb21c8e863f2c03afbf0f2d55e78ec35bb4bf52 --- /dev/null +++ b/data/0.0.0/images/GAD-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/GAD-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/GCB-MED.xml b/data/0.0.0/images/GCB-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..982444b794ab7b7e5e41b0480505900bc5033d53 --- /dev/null +++ b/data/0.0.0/images/GCB-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/GCB-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/GCD-MED.xml b/data/0.0.0/images/GCD-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..196b17cd4a74156fa549e30b3a75431311ffe2d3 --- /dev/null +++ b/data/0.0.0/images/GCD-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/GCD-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/GPCR2-MED.xml b/data/0.0.0/images/GPCR2-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..61bd90030d1c0972872606619920ffc710cacc94 --- /dev/null +++ b/data/0.0.0/images/GPCR2-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/GPCR2-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/GPCR203-MED.xml b/data/0.0.0/images/GPCR203-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..f2a32cf775c8186ae4d43ec71e965e801a4facb4 --- /dev/null +++ b/data/0.0.0/images/GPCR203-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/GPCR203-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/GPCR209-MED.xml b/data/0.0.0/images/GPCR209-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..6fa99456ad59e7d37326a78b6bf9eecceeea748e --- /dev/null +++ b/data/0.0.0/images/GPCR209-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/GPCR209-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/GPCR210-MED.xml b/data/0.0.0/images/GPCR210-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..c21388a07b0f18212092e5a3a8567833a8bb10d8 --- /dev/null +++ b/data/0.0.0/images/GPCR210-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/GPCR210-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/GPCR32-MED.xml b/data/0.0.0/images/GPCR32-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..b8de6a7ee956456c5e74623b8cca8f57f244c372 --- /dev/null +++ b/data/0.0.0/images/GPCR32-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/GPCR32-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/GPPCR21-MED.xml b/data/0.0.0/images/GPPCR21-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..2d1fef9cc0ebf6cded5706ac4762f915a1297f3e --- /dev/null +++ b/data/0.0.0/images/GPPCR21-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/GPPCR21-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/Gata123-MED.xml b/data/0.0.0/images/Gata123-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..0373a551fac61aac8061a32d0169ddeea88af044 --- /dev/null +++ b/data/0.0.0/images/Gata123-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/Gata123-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/Glt1-MED.xml b/data/0.0.0/images/Glt1-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..4b0815dc624638e6d3dbb6ce02c3856948bd5e76 --- /dev/null +++ b/data/0.0.0/images/Glt1-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/Glt1-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/GlyT-MED.xml b/data/0.0.0/images/GlyT-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..643a8b606a621bba12da5d7563a0c4a31dfdc505 --- /dev/null +++ b/data/0.0.0/images/GlyT-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/GlyT-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/GnRH-MED.xml b/data/0.0.0/images/GnRH-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..586271d43ffc495775537c1289645e932bb032b2 --- /dev/null +++ b/data/0.0.0/images/GnRH-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/GnRH-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/GnrhR-MED.xml b/data/0.0.0/images/GnrhR-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..671c1d7008e6228c10f79ed2d662a666e836e9b6 --- /dev/null +++ b/data/0.0.0/images/GnrhR-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/GnrhR-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/Grm7-MED.xml b/data/0.0.0/images/Grm7-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..83db30b7961bd4cb29e2c5470e62d99c23e0fdfb --- /dev/null +++ b/data/0.0.0/images/Grm7-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/Grm7-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/Gucy-MED.xml b/data/0.0.0/images/Gucy-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..71dd48dfd5dd5a5a4d931eff4c6ebc6d429a1f0c --- /dev/null +++ b/data/0.0.0/images/Gucy-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/Gucy-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/HCN1-MED.xml b/data/0.0.0/images/HCN1-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..de7f8f248ad9df2d64b1df7a2cce5a813a1cf9de --- /dev/null +++ b/data/0.0.0/images/HCN1-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/HCN1-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/HNF6-MED.xml b/data/0.0.0/images/HNF6-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..1afb59a6d01db4f459e5b7d4be0b1456a94ac3cb --- /dev/null +++ b/data/0.0.0/images/HNF6-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/HNF6-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/Hand-MED.xml b/data/0.0.0/images/Hand-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..993d2968d6ffc2bb0d336fe2023ca8e312bc8cdf --- /dev/null +++ b/data/0.0.0/images/Hand-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/Hand-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/Hb9-MED.xml b/data/0.0.0/images/Hb9-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..ad107c8b3911561c6eba5e8f3edfd876d053722c --- /dev/null +++ b/data/0.0.0/images/Hb9-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/Hb9-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/Hox5-MED.xml b/data/0.0.0/images/Hox5-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..59ce6f0b3b1b7ab930542f22483b78b294096b88 --- /dev/null +++ b/data/0.0.0/images/Hox5-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/Hox5-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/Hox7-MED.xml b/data/0.0.0/images/Hox7-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..9ef95a07021ad492abd6f1fbb012a1b11d5fd8df --- /dev/null +++ b/data/0.0.0/images/Hox7-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/Hox7-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/Hr38-MED.xml b/data/0.0.0/images/Hr38-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..2bd5b79623df34300e50b218ad6e7d76af452ab0 --- /dev/null +++ b/data/0.0.0/images/Hr38-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/Hr38-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/Isl-MED.xml b/data/0.0.0/images/Isl-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..5c22d8ee29f80710ce700ece026ef54383c1e313 --- /dev/null +++ b/data/0.0.0/images/Isl-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/Isl-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/Kv33b-MED.xml b/data/0.0.0/images/Kv33b-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..6f12dc4dcd023babc6d2e05ecf1897e0d1b01765 --- /dev/null +++ b/data/0.0.0/images/Kv33b-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/Kv33b-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/Kv33e-MED.xml b/data/0.0.0/images/Kv33e-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..9fa76e381280bac49a0621fa6ea6930a5a23880d --- /dev/null +++ b/data/0.0.0/images/Kv33e-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/Kv33e-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/Lhx15-MED.xml b/data/0.0.0/images/Lhx15-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..91aa3691f6e05cbc83fbd45417ad6a8d4d76aab4 --- /dev/null +++ b/data/0.0.0/images/Lhx15-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/Lhx15-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/Lhx2-MED.xml b/data/0.0.0/images/Lhx2-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..91ec23c19a7081c377897e1ba65f2cc0785ea8fb --- /dev/null +++ b/data/0.0.0/images/Lhx2-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/Lhx2-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/Lhx3-MED.xml b/data/0.0.0/images/Lhx3-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..2fa7726a9adf1352812ad64938dd82d2fbe19f43 --- /dev/null +++ b/data/0.0.0/images/Lhx3-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/Lhx3-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/Lmo4-MED.xml b/data/0.0.0/images/Lmo4-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..ddbbeb48a52ab8f69d2cce0006560588ef1c0ffd --- /dev/null +++ b/data/0.0.0/images/Lmo4-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/Lmo4-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/Lmx1-MED.xml b/data/0.0.0/images/Lmx1-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..d8dcd5cffa3be936088e33b2d519d17503f43970 --- /dev/null +++ b/data/0.0.0/images/Lmx1-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/Lmx1-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/Loc28250-MED.xml b/data/0.0.0/images/Loc28250-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..d68abc37e9c4fa0f4c8f242b5bbd31c1884beff8 --- /dev/null +++ b/data/0.0.0/images/Loc28250-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/Loc28250-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/Loc5285ct-MED.xml b/data/0.0.0/images/Loc5285ct-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..43a07d5545b1742d84d671b2ba7d5080645b76bf --- /dev/null +++ b/data/0.0.0/images/Loc5285ct-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/Loc5285ct-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/Loc77859-MED.xml b/data/0.0.0/images/Loc77859-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..384e48bcdd5d7b65bd8fc14455b3c240357a439d --- /dev/null +++ b/data/0.0.0/images/Loc77859-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/Loc77859-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/Loc8913nt-MED.xml b/data/0.0.0/images/Loc8913nt-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..0e2d87c19d384c16362a11800b9a7817a955d546 --- /dev/null +++ b/data/0.0.0/images/Loc8913nt-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/Loc8913nt-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/MHCL4-MED.xml b/data/0.0.0/images/MHCL4-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..490a9c04d7106b5fcff936053a4ca48eee79fd12 --- /dev/null +++ b/data/0.0.0/images/MHCL4-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/MHCL4-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/MRLC2-MED.xml b/data/0.0.0/images/MRLC2-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..6e1a11796409259dae6d32200be9b8c3187a8f19 --- /dev/null +++ b/data/0.0.0/images/MRLC2-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/MRLC2-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/Maf-MED.xml b/data/0.0.0/images/Maf-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..41bdf5820ecfe55e104eb5d74529115f98ff2d6d --- /dev/null +++ b/data/0.0.0/images/Maf-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/Maf-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/Mitf-MED.xml b/data/0.0.0/images/Mitf-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..7b2d1e8334a120c60fec82cf18e1f78c81c5ad05 --- /dev/null +++ b/data/0.0.0/images/Mitf-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/Mitf-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/Munc22-MED.xml b/data/0.0.0/images/Munc22-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..b06523c78b8b3d4ad305918ec79b46b8b0b0e9b5 --- /dev/null +++ b/data/0.0.0/images/Munc22-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/Munc22-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/NMDAR-MED.xml b/data/0.0.0/images/NMDAR-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..7ce2b2902602d1748b9d3c20a992047332fbd42a --- /dev/null +++ b/data/0.0.0/images/NMDAR-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/NMDAR-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/NOV1-MED.xml b/data/0.0.0/images/NOV1-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..e1ee1070408c0bf9917e44b8abf2d9dc586a233e --- /dev/null +++ b/data/0.0.0/images/NOV1-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/NOV1-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/NOV15-MED.xml b/data/0.0.0/images/NOV15-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..8eb1f2356779bad36ca41ee25b5d4aa338c8bed5 --- /dev/null +++ b/data/0.0.0/images/NOV15-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/NOV15-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/NOV18-MED.xml b/data/0.0.0/images/NOV18-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..c72cbcbc4e29889953b7293127404cd9a91b92ae --- /dev/null +++ b/data/0.0.0/images/NOV18-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/NOV18-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/NOV2-MED.xml b/data/0.0.0/images/NOV2-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..e0f6757c1ba2a2837bb8310f476763a95f584651 --- /dev/null +++ b/data/0.0.0/images/NOV2-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/NOV2-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/NOV29-MED.xml b/data/0.0.0/images/NOV29-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..24a2ebc4979242a9868e32ab8c44a7e55aba4b13 --- /dev/null +++ b/data/0.0.0/images/NOV29-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/NOV29-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/NOV45-MED.xml b/data/0.0.0/images/NOV45-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..0a99807592010f7de5e9321884e04a6d44fa23c5 --- /dev/null +++ b/data/0.0.0/images/NOV45-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/NOV45-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/NOV50-MED.xml b/data/0.0.0/images/NOV50-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..f134e848cc984212ed688e112db2214e14a3be1c --- /dev/null +++ b/data/0.0.0/images/NOV50-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/NOV50-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/NOV52-MED.xml b/data/0.0.0/images/NOV52-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..db0e4a13cdfc4847bc8266f9f0d864e841443ee6 --- /dev/null +++ b/data/0.0.0/images/NOV52-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/NOV52-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/NOV6-MED.xml b/data/0.0.0/images/NOV6-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..69b2c97f651f7a88248aa138dd7dc824c3e668e6 --- /dev/null +++ b/data/0.0.0/images/NOV6-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/NOV6-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/NPR1a-MED.xml b/data/0.0.0/images/NPR1a-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..2f3420f1693e445d0fd981e3ae3891e30ac29096 --- /dev/null +++ b/data/0.0.0/images/NPR1a-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/NPR1a-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/Netrin-MED.xml b/data/0.0.0/images/Netrin-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..f0dc724d10eb5ab99c9fd20e4eb756515efba6cd --- /dev/null +++ b/data/0.0.0/images/Netrin-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/Netrin-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/NeuroD-MED.xml b/data/0.0.0/images/NeuroD-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..f6fe565458e4965e8b892e4f5dc285034dd3e96e --- /dev/null +++ b/data/0.0.0/images/NeuroD-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/NeuroD-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/Ngb-MED.xml b/data/0.0.0/images/Ngb-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..d4ad71edca2586291bd6b03799e6110865e78f83 --- /dev/null +++ b/data/0.0.0/images/Ngb-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/Ngb-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/Olig-MED.xml b/data/0.0.0/images/Olig-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..8ff3f9d37a193de4fe139392ca8cca3cb78ce6bb --- /dev/null +++ b/data/0.0.0/images/Olig-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/Olig-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/P56-MED.xml b/data/0.0.0/images/P56-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..bd30c75ed2fc30777a538c1fa9412d0053f11d7e --- /dev/null +++ b/data/0.0.0/images/P56-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/P56-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/PCDH15-MED.xml b/data/0.0.0/images/PCDH15-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..3612649e36c6ea66b1e71e9097484023425e5a51 --- /dev/null +++ b/data/0.0.0/images/PCDH15-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/PCDH15-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/PDF-MED.xml b/data/0.0.0/images/PDF-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..46536147eb33c4ffe1ca955619958f9fd53f674f --- /dev/null +++ b/data/0.0.0/images/PDF-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/PDF-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/PLCg-MED.xml b/data/0.0.0/images/PLCg-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..c6ea9976b970920acfd81e13624ad510be4d994e --- /dev/null +++ b/data/0.0.0/images/PLCg-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/PLCg-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/Pax258-MED.xml b/data/0.0.0/images/Pax258-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..eeb02284722d1c41cbc3a737178f7b0c0a3e8183 --- /dev/null +++ b/data/0.0.0/images/Pax258-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/Pax258-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/Pax6-MED.xml b/data/0.0.0/images/Pax6-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..6338e58fb0b4c8aed9cce89e8c9ef118f61b1e38 --- /dev/null +++ b/data/0.0.0/images/Pax6-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/Pax6-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/Pde9-MED.xml b/data/0.0.0/images/Pde9-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..c1c629b15e0882e5ba7b73b85a68e41a254def8d --- /dev/null +++ b/data/0.0.0/images/Pde9-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/Pde9-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/Pea3-MED.xml b/data/0.0.0/images/Pea3-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..ec0d5876fe06384d4a9d33a5b289dee0e394dc3f --- /dev/null +++ b/data/0.0.0/images/Pea3-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/Pea3-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/Phc2-MED.xml b/data/0.0.0/images/Phc2-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..b107fcb14629209e62a20aef997ee51efc309aaa --- /dev/null +++ b/data/0.0.0/images/Phc2-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/Phc2-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/Phox2b-MED.xml b/data/0.0.0/images/Phox2b-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..ba7a4844b3833a1a80e07b7e30590952fda764aa --- /dev/null +++ b/data/0.0.0/images/Phox2b-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/Phox2b-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/Pikachu-MED.xml b/data/0.0.0/images/Pikachu-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..5d8c93a341984704ebb21d9565bf4fdd0689bd16 --- /dev/null +++ b/data/0.0.0/images/Pikachu-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/Pikachu-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/PitxB-MED.xml b/data/0.0.0/images/PitxB-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..9a4a842202f35aa842b0f4802e94a51fc24499f1 --- /dev/null +++ b/data/0.0.0/images/PitxB-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/PitxB-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/Prdm8-MED.xml b/data/0.0.0/images/Prdm8-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..3f8eb25d59fd8642ed8387155e222d0d5fe2ab2d --- /dev/null +++ b/data/0.0.0/images/Prdm8-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/Prdm8-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/Prox-MED.xml b/data/0.0.0/images/Prox-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..e80c888b71c6739da0e094a2e3904002b114cce9 --- /dev/null +++ b/data/0.0.0/images/Prox-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/Prox-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/Ptf1-MED.xml b/data/0.0.0/images/Ptf1-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..6373cda9a4f16ec9e5eeb59a090ddeca5d4fdc34 --- /dev/null +++ b/data/0.0.0/images/Ptf1-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/Ptf1-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/Pty2-MED.xml b/data/0.0.0/images/Pty2-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..c5b91512894ac7d13367b0478f000f33d031beca --- /dev/null +++ b/data/0.0.0/images/Pty2-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/Pty2-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/RIMS-MED.xml b/data/0.0.0/images/RIMS-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..65b77a2901bb0ac4767ad15c5de6081213a7114b --- /dev/null +++ b/data/0.0.0/images/RIMS-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/RIMS-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/Rab3-MED.xml b/data/0.0.0/images/Rab3-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..12bbb91aceaf05c6b17afcf77f83c447c8d47bfc --- /dev/null +++ b/data/0.0.0/images/Rab3-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/Rab3-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/Robo-MED.xml b/data/0.0.0/images/Robo-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..ba73c5da8133fa08b95965be7ee1faf0ff95de17 --- /dev/null +++ b/data/0.0.0/images/Robo-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/Robo-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/Scn8aa-MED.xml b/data/0.0.0/images/Scn8aa-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..dd84f38addb7bbc856b4f01831a180d6bde3a7c0 --- /dev/null +++ b/data/0.0.0/images/Scn8aa-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/Scn8aa-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/Sema2-MED.xml b/data/0.0.0/images/Sema2-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..6c2a9e12566a247ebab6037418ddfdbbe4ffec99 --- /dev/null +++ b/data/0.0.0/images/Sema2-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/Sema2-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/Sim1-MED.xml b/data/0.0.0/images/Sim1-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..ea5c570e679327c7b9f19c25d61b77b0f465a7ff --- /dev/null +++ b/data/0.0.0/images/Sim1-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/Sim1-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/Slit-MED.xml b/data/0.0.0/images/Slit-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..bcebb90f907aa91e1d43a82a38cd9bfb0550ffab --- /dev/null +++ b/data/0.0.0/images/Slit-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/Slit-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/Sox2-MED.xml b/data/0.0.0/images/Sox2-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..d6e72df926de064b44b7f6ae60ee362128d84a02 --- /dev/null +++ b/data/0.0.0/images/Sox2-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/Sox2-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/Sox4-MED.xml b/data/0.0.0/images/Sox4-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..5aa36b1be0f1f914970fadda2a14e5c63797c217 --- /dev/null +++ b/data/0.0.0/images/Sox4-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/Sox4-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/SoxB12-MED.xml b/data/0.0.0/images/SoxB12-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..31ec3f982e572d3efb67e2f115127349f4ed3481 --- /dev/null +++ b/data/0.0.0/images/SoxB12-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/SoxB12-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/SoxB2-MED.xml b/data/0.0.0/images/SoxB2-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..9dd3c01ecf8361e0da67d0e1462e4eb63911b1ee --- /dev/null +++ b/data/0.0.0/images/SoxB2-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/SoxB2-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/Sp8-MED.xml b/data/0.0.0/images/Sp8-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..9391508d4e3e6f75d97b24f85aeda46a0a11826c --- /dev/null +++ b/data/0.0.0/images/Sp8-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/Sp8-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/Syt-MED.xml b/data/0.0.0/images/Syt-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..f2325e43f29f3b9e43980bfd79ebf10287151ea7 --- /dev/null +++ b/data/0.0.0/images/Syt-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/Syt-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/Syt12-MED.xml b/data/0.0.0/images/Syt12-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..695b1e93732117e0007b0b326dccd80f5ce62808 --- /dev/null +++ b/data/0.0.0/images/Syt12-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/Syt12-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/Syt7-MED.xml b/data/0.0.0/images/Syt7-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..0b704c1d6ef8d8116e0c52794afa98a14344d214 --- /dev/null +++ b/data/0.0.0/images/Syt7-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/Syt7-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/Syta-MED.xml b/data/0.0.0/images/Syta-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..bd0e0e87a6281f563bdc8e05e9c9a13d827891a0 --- /dev/null +++ b/data/0.0.0/images/Syta-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/Syta-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/TH-MED.xml b/data/0.0.0/images/TH-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..a49831ae83787eaa49c825a8654692bb20ecc9c4 --- /dev/null +++ b/data/0.0.0/images/TH-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/TH-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/TIMP-MED.xml b/data/0.0.0/images/TIMP-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..a3836d30cff240a4d7d8e63ccd49ed077aca59bb --- /dev/null +++ b/data/0.0.0/images/TIMP-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/TIMP-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/TRPV4-MED.xml b/data/0.0.0/images/TRPV4-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..86600000880adc7bd11b3cf818dae5082061fcce --- /dev/null +++ b/data/0.0.0/images/TRPV4-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/TRPV4-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/TRPV5-MED.xml b/data/0.0.0/images/TRPV5-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..2e2b25abb22873896204b45a0bfa5a35fd143c1d --- /dev/null +++ b/data/0.0.0/images/TRPV5-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/TRPV5-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/Tal-MED.xml b/data/0.0.0/images/Tal-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..47d2ec12f9b8660df6c7ebc7416a8ffbe2e7de75 --- /dev/null +++ b/data/0.0.0/images/Tal-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/Tal-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/Tbh-MED.xml b/data/0.0.0/images/Tbh-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..ee6f9ea8d7dcfdb5565306dc1847a9570bc37822 --- /dev/null +++ b/data/0.0.0/images/Tbh-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/Tbh-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/Tbx20-MED.xml b/data/0.0.0/images/Tbx20-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..a6aed8846be214a26c17de96d700c5816574be2e --- /dev/null +++ b/data/0.0.0/images/Tbx20-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/Tbx20-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/TrpH-MED.xml b/data/0.0.0/images/TrpH-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..2717552216ba9ba3249fe4c5cfa8707f131bf5bf --- /dev/null +++ b/data/0.0.0/images/TrpH-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/TrpH-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/TrpV-MED.xml b/data/0.0.0/images/TrpV-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..4541f06a5fae0a45e8711d6c4ff1ef1d7a7a2032 --- /dev/null +++ b/data/0.0.0/images/TrpV-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/TrpV-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/Twist-MED.xml b/data/0.0.0/images/Twist-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..6993b15448c043dec73a096699d7d151d8b2d93f --- /dev/null +++ b/data/0.0.0/images/Twist-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/Twist-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/UNCS-MED.xml b/data/0.0.0/images/UNCS-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..b4324b3534e19360be3b2babd6b6f27a0ba0fa68 --- /dev/null +++ b/data/0.0.0/images/UNCS-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/UNCS-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/VAChT-MED.xml b/data/0.0.0/images/VAChT-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..59c3ab507a2f776839b817041baa6b36709924fe --- /dev/null +++ b/data/0.0.0/images/VAChT-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/VAChT-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/VAT1L-MED.xml b/data/0.0.0/images/VAT1L-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..d665a555b08c2747b45b378948d3bab6d03d3b97 --- /dev/null +++ b/data/0.0.0/images/VAT1L-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/VAT1L-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/VGluT-MED.xml b/data/0.0.0/images/VGluT-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..ba12fa4e12e06b63d0bb53f841cc0329ad70c1bb --- /dev/null +++ b/data/0.0.0/images/VGluT-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/VGluT-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/VegfR-MED.xml b/data/0.0.0/images/VegfR-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..6839f9ae2df58944329628d1966438a82c8bde84 --- /dev/null +++ b/data/0.0.0/images/VegfR-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/VegfR-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/Wnt16-MED.xml b/data/0.0.0/images/Wnt16-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..43a2e245bbf94828d86dcf73ea8f1f145f7d522d --- /dev/null +++ b/data/0.0.0/images/Wnt16-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/Wnt16-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/Wnt5-MED.xml b/data/0.0.0/images/Wnt5-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..d7ffa2e9cd9fc012c9820385a4ccf4645e524b2b --- /dev/null +++ b/data/0.0.0/images/Wnt5-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/Wnt5-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/ascI-MED.xml b/data/0.0.0/images/ascI-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..5f85db328cfc91590c101c96dd2c6d8c373bbf5f --- /dev/null +++ b/data/0.0.0/images/ascI-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/ascI-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/ascII-MED.xml b/data/0.0.0/images/ascII-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..f2b2bfbdc4d9f82f584a58dd118a3c2382378324 --- /dev/null +++ b/data/0.0.0/images/ascII-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/ascII-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/asicalpha-MED.xml b/data/0.0.0/images/asicalpha-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..2f536fa3decb4b977416c5a4b5485c1617e4e0c5 --- /dev/null +++ b/data/0.0.0/images/asicalpha-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/asicalpha-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/bsx-MED.xml b/data/0.0.0/images/bsx-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..5d97315145249991f2423380f07f584e8e2da098 --- /dev/null +++ b/data/0.0.0/images/bsx-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/bsx-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/catL-MED.xml b/data/0.0.0/images/catL-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..f11fc0fbe72aa113b6095350690f82d73df07b68 --- /dev/null +++ b/data/0.0.0/images/catL-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/catL-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/cnga-MED.xml b/data/0.0.0/images/cnga-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..7fb999d789d32cc7c93f829f9011cbadf5d44084 --- /dev/null +++ b/data/0.0.0/images/cnga-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/cnga-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/dbx1-MED.xml b/data/0.0.0/images/dbx1-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..83c6e6853c5dcbc563fa3e130258c7cec7693a94 --- /dev/null +++ b/data/0.0.0/images/dbx1-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/dbx1-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/delta-MED.xml b/data/0.0.0/images/delta-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..903c11df4451581a7395dfef84a52ae5be73f7f2 --- /dev/null +++ b/data/0.0.0/images/delta-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/delta-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/dlx-MED.xml b/data/0.0.0/images/dlx-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..fc5fff15df31e6b5266ca4c4bd8678b23b89e025 --- /dev/null +++ b/data/0.0.0/images/dlx-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/dlx-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/edu3to4at6dpf-MED.xml b/data/0.0.0/images/edu3to4at6dpf-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..0755eb7799da4a051a5f09d0ef51f6fbc1892589 --- /dev/null +++ b/data/0.0.0/images/edu3to4at6dpf-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/edu3to4at6dpf-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/edu4to5at6dpf-MED.xml b/data/0.0.0/images/edu4to5at6dpf-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..25b8700d64edcdc98d2510bb4532df75e3b9a5a4 --- /dev/null +++ b/data/0.0.0/images/edu4to5at6dpf-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/edu4to5at6dpf-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/edu5to6at6dpf-MED.xml b/data/0.0.0/images/edu5to6at6dpf-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..ac57b3e8af65cf0b311c374bf3d60735616264e8 --- /dev/null +++ b/data/0.0.0/images/edu5to6at6dpf-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/edu5to6at6dpf-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/eve-MED.xml b/data/0.0.0/images/eve-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..b58cce2d66892564cc00ef1b5078329baee316fb --- /dev/null +++ b/data/0.0.0/images/eve-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/eve-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/eya-MED.xml b/data/0.0.0/images/eya-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..832bcee9f53f24aace21d31949b02077e26d934d --- /dev/null +++ b/data/0.0.0/images/eya-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/eya-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/fezf-MED.xml b/data/0.0.0/images/fezf-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..ac2d24fd4c6c344622a38ca5ba17dc20c1e6ca6f --- /dev/null +++ b/data/0.0.0/images/fezf-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/fezf-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/gpb-MED.xml b/data/0.0.0/images/gpb-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..029497a8069d24039849fde1fff9cbd0b863c0cd --- /dev/null +++ b/data/0.0.0/images/gpb-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/gpb-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/gsx-MED.xml b/data/0.0.0/images/gsx-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..27c2b13340e5de4366aa40a54dda1e3c9c57b4f0 --- /dev/null +++ b/data/0.0.0/images/gsx-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/gsx-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/hox1-MED.xml b/data/0.0.0/images/hox1-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..d4701bf819d2274a494ed6ef7baef511d67d8981 --- /dev/null +++ b/data/0.0.0/images/hox1-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/hox1-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/irx-MED.xml b/data/0.0.0/images/irx-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..d048c8afe335f3025b07cc4c55b06717b6665f71 --- /dev/null +++ b/data/0.0.0/images/irx-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/irx-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/irx2546-MED.xml b/data/0.0.0/images/irx2546-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..9d99a97c072701faf0218a68f80b89054e11827f --- /dev/null +++ b/data/0.0.0/images/irx2546-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/irx2546-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/lbx1b-MED.xml b/data/0.0.0/images/lbx1b-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..5b9a1ef7401ddf56b065a6958e8cffea3a7f5d98 --- /dev/null +++ b/data/0.0.0/images/lbx1b-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/lbx1b-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/lhx6-MED.xml b/data/0.0.0/images/lhx6-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..c1aa7e0256446fc97eb179f5382282d138cb30ec --- /dev/null +++ b/data/0.0.0/images/lhx6-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/lhx6-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/mecom-MED.xml b/data/0.0.0/images/mecom-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..04aaa09584b8a991a8f1532c147edd1f5925ccd1 --- /dev/null +++ b/data/0.0.0/images/mecom-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/mecom-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/msx-MED.xml b/data/0.0.0/images/msx-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..a3dad764787ab5cfa118c3ab2659fd0aa89ea8e7 --- /dev/null +++ b/data/0.0.0/images/msx-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/msx-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/muncB-MED.xml b/data/0.0.0/images/muncB-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..3dea2b6884c23d0b53c3fa7282f101ef8123116b --- /dev/null +++ b/data/0.0.0/images/muncB-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/muncB-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/nAchR-MED.xml b/data/0.0.0/images/nAchR-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..5cef7db7233391e5cfa65d9cf83590bb52dfd951 --- /dev/null +++ b/data/0.0.0/images/nAchR-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/nAchR-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/neog-MED.xml b/data/0.0.0/images/neog-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..9ffc62acebf34a414468f278af8187df215e1b7f --- /dev/null +++ b/data/0.0.0/images/neog-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/neog-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/ngn-MED.xml b/data/0.0.0/images/ngn-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..7a076e6bf82d1157631c2b8437a7be1af5358b70 --- /dev/null +++ b/data/0.0.0/images/ngn-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/ngn-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/nk21-MED.xml b/data/0.0.0/images/nk21-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..de2cfa806c48bb7f928512a0c2e8acf061f72664 --- /dev/null +++ b/data/0.0.0/images/nk21-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/nk21-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/nk22-MED.xml b/data/0.0.0/images/nk22-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..638a2d7219d20b3e66baf5b8b03552ea16a1c228 --- /dev/null +++ b/data/0.0.0/images/nk22-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/nk22-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/nk6-MED.xml b/data/0.0.0/images/nk6-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..61f685b253c1d03bea37d6f84cdf57d89860ad98 --- /dev/null +++ b/data/0.0.0/images/nk6-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/nk6-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/ntrps-MED.xml b/data/0.0.0/images/ntrps-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..97008e8dbbf19ee212d81b75eb889192032c6764 --- /dev/null +++ b/data/0.0.0/images/ntrps-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/ntrps-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/otp-MED.xml b/data/0.0.0/images/otp-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..11f344b109e68a5b94b9c0daccc68a8f232c4ab0 --- /dev/null +++ b/data/0.0.0/images/otp-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/otp-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/paraxis-MED.xml b/data/0.0.0/images/paraxis-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..bf22f8cab717d4207a050c1b5da0e6ffd762a945 --- /dev/null +++ b/data/0.0.0/images/paraxis-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/paraxis-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/rx-MED.xml b/data/0.0.0/images/rx-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..5e6e562a1e25574ecc24a635b0ab14e0ddc4e43c --- /dev/null +++ b/data/0.0.0/images/rx-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/rx-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/sert-MED.xml b/data/0.0.0/images/sert-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..1d6d6d9a83ea6aa3e99006f955b358d4bb7843e5 --- /dev/null +++ b/data/0.0.0/images/sert-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/sert-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/six12-MED.xml b/data/0.0.0/images/six12-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..9333f20aaf06ef986b0248fa4b00750da8ea006e --- /dev/null +++ b/data/0.0.0/images/six12-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/six12-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/six4-MED.xml b/data/0.0.0/images/six4-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..3194b5b38017ba2ae8c36854f6e23a4c9e615cdb --- /dev/null +++ b/data/0.0.0/images/six4-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/six4-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/tlx-MED.xml b/data/0.0.0/images/tlx-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..d3b76201e6aee682c436a562d8ac0e03ff591225 --- /dev/null +++ b/data/0.0.0/images/tlx-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/tlx-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/trk-MED.xml b/data/0.0.0/images/trk-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..2133928323d5d5742f00f1b7341ad96099c10b75 --- /dev/null +++ b/data/0.0.0/images/trk-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/trk-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/data/0.0.0/images/uncx-MED.xml b/data/0.0.0/images/uncx-MED.xml new file mode 100644 index 0000000000000000000000000000000000000000..9755545883a9e52071145a6275519ae2a9605504 --- /dev/null +++ b/data/0.0.0/images/uncx-MED.xml @@ -0,0 +1,39 @@ +<SpimData version="0.2"> + <BasePath type="relative">.</BasePath> + <SequenceDescription> + <ImageLoader format="bdv.hdf5"> + <hdf5 type="absolute">/g/arendt/EM_6dpf_segmentation/EM-Prospr/uncx-MED.h5</hdf5> + </ImageLoader> + <ViewSetups> + <ViewSetup> + <id>0</id> + <name>channel 1</name> + <size>550 518 570</size> + <voxelSize> + <unit>micrometer</unit> + <size>0.5 0.5 0.5</size> + </voxelSize> + <attributes> + <channel>1</channel> + </attributes> + </ViewSetup> + <Attributes name="channel"> + <Channel> + <id>1</id> + <name>1</name> + </Channel> + </Attributes> + </ViewSetups> + <Timepoints type="range"> + <first>0</first> + <last>0</last> + </Timepoints> + </SequenceDescription> + <ViewRegistrations> + <ViewRegistration setup="0" timepoint="0"> + <ViewTransform type="affine"> + <affine>0.5 0.0 0.0 0.0 0.0 0.5 0.0 0.0 0.0 0.0 0.5 0.0</affine> + </ViewTransform> + </ViewRegistration> + </ViewRegistrations> +</SpimData> diff --git a/make_initial_version.py b/make_initial_version.py index 67e39e0b40f61db5ada21b9270b6fa5ef3d930c8..8bf33d58cf2f03981959de580118663fded9e734 100755 --- a/make_initial_version.py +++ b/make_initial_version.py @@ -6,6 +6,7 @@ from shutil import copyfile from scripts.files import make_folder_structure from scripts.export import export_segmentation from scripts.files import copy_xml_with_abspath, write_simple_xml +from scripts.files import copy_files_with_pattern from scripts.attributes import make_nucleus_tables, make_cell_tables @@ -44,13 +45,18 @@ def make_image_data(old_folder, folder): raw_out = os.path.join(data_folder, raw_name) copy_xml_with_abspath(raw_in, raw_out) + # TODO sub-folder ? + # copy MEDs and SPMs + copy_files_with_pattern(old_folder, data_folder, "*-MED*") + # TODO do we need the SPMs here? + # copy_files_with_pattern(old_folder, data_folder, "*-SPM*") + # copy valentyna's aux gene file misc_folder = os.path.join(folder, 'misc') copy_aux_gene_file(misc_folder) - # TODO - # copy MEDs and SPMs # copy cellular models + # TODO # copy additional segmentations # (muscle, tissue (includes neuropil), TODO more?) diff --git a/scripts/files/__init__.py b/scripts/files/__init__.py index b7f0b02f6d373db17af5c87a1f88d7e4d8bf9ba8..5088d2a8e72f03805bd718d875c74a2980e0fd49 100644 --- a/scripts/files/__init__.py +++ b/scripts/files/__init__.py @@ -1,3 +1,4 @@ from .copy_helper import copy_tables, copy_segmentation, copy_static_files +from .copy_helper import copy_files_with_pattern from .folders import make_folder_structure from .xml_utils import get_h5_path_from_xml, copy_xml_with_abspath, write_simple_xml diff --git a/scripts/files/copy_helper.py b/scripts/files/copy_helper.py index e34ae3899d8973a74c2ff5de61680f205bc364c5..13a32c989eab0c6376d530e94cdc71ec107aa4c9 100644 --- a/scripts/files/copy_helper.py +++ b/scripts/files/copy_helper.py @@ -1,4 +1,18 @@ import os +import glob +from .xml_utils import copy_xml_with_abspath + + +def copy_files_with_pattern(src_folder, dst_folder, pattern): + files = glob.glob(os.path.join(src_folder, pattern)) + for ff in files: + ext = os.path.splitext(ff)[1] + if ext != '.xml': + continue + xml_in = ff + xml_out = os.path.join(dst_folder, + os.path.split(ff)[1]) + copy_xml_with_abspath(xml_in, xml_out) def copy_tables(src_folder, dst_folder, name):