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Commit 1e8aa33d authored by Constantin Pape's avatar Constantin Pape
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Merge branch 'refactor_sources' into 'master'

Refactor sources

See merge request !3
parents a83a430c 6f5cc970
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1 merge request!3Refactor sources
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......@@ -2,3 +2,4 @@
__pycache__/
tmp*
*.DS_Store
data/dev-*
......@@ -51,6 +51,11 @@ The other derived data can be generated for new segmentation versions with the s
`make_initial_version.py` was used to generate the initial data in `/data/0.0.0`.
## Usage
TODO
## Installation
TODO
......@@ -58,4 +63,4 @@ TODO
## BigDataServer
TODO
\ No newline at end of file
TODO
../../../0.0.1/tables/sbem-6dpf-1-whole-segmented-tissue-labels/base.csv
\ No newline at end of file
../../../rawdata/tables/sbem-6dpf-1-whole-segmented-tissue-labels/default.csv
\ No newline at end of file
../../../0.1.0/tables/sbem-6dpf-1-whole-segmented-tissue-labels/base.csv
\ No newline at end of file
../../../0.1.0/tables/sbem-6dpf-1-whole-segmented-tissue-labels/default.csv
\ No newline at end of file
../../../rawdata/tables/sbem-6dpf-1-whole-segmented-chromatin-labels/default.csv
\ No newline at end of file
../../../0.1.1/tables/sbem-6dpf-1-whole-segmented-tissue-labels/base.csv
\ No newline at end of file
../../../0.1.1/tables/sbem-6dpf-1-whole-segmented-tissue-labels/default.csv
\ No newline at end of file
../../../0.2.0/tables/sbem-6dpf-1-whole-segmented-tissue-labels/base.csv
\ No newline at end of file
../../../0.2.0/tables/sbem-6dpf-1-whole-segmented-tissue-labels/default.csv
\ No newline at end of file
<SpimData version="0.2">
<BasePath type="relative">.</BasePath>
<SequenceDescription>
<ImageLoader format="bdv.hdf5">
<hdf5 type="relative">../../rawdata/prospr-6dpf-1-whole-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>
<SpimData version="0.2">
<BasePath type="relative">.</BasePath>
<SequenceDescription>
<ImageLoader format="bdv.hdf5">
<hdf5 type="relative">../../rawdata/prospr-6dpf-1-whole-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>
<SpimData version="0.2">
<BasePath type="relative">.</BasePath>
<SequenceDescription>
<ImageLoader format="bdv.hdf5">
<hdf5 type="relative">../../rawdata/prospr-6dpf-1-whole-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>
<SpimData version="0.2">
<BasePath type="relative">.</BasePath>
<SequenceDescription>
<ImageLoader format="bdv.hdf5">
<hdf5 type="relative">../../rawdata/prospr-6dpf-1-whole-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>
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