Added simple sample

dipterix · Sep 12, 2024 · bc5c707 · bc5c707
1 parent cfa0b49
commit bc5c707
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Showing 6 changed files with 85 additions and 10 deletions.
diff --git a/R/aaa-generics-surface.R b/R/aaa-generics-surface.R
@@ -681,7 +681,7 @@ plot.ieegio_surface <- function(
       # To trigger display
 
 
-      helper_rgl_call("highlevel", integer())
+      # helper_rgl_call("highlevel", integer())
 
       # open3d()
       # mat <- matrix(1:4, 2, 2)

diff --git a/inst/sample_data/gifti/icosahedron3d/geometry.gii b/inst/sample_data/gifti/icosahedron3d/geometry.gii
@@ -0,0 +1,17 @@
+<?xml version="1.0" encoding="UTF-8"?>
+<GIFTI Version="1.0" NumberOfDataArrays="2">
+  <MetaData>
+    <MD>
+      <Name>Generator</Name>
+      <Value>fsbrain</Value>
+    </MD>
+  </MetaData>
+  <DataArray Dimensionality="2" Dim0="12" Dim1="3" Encoding="GZipBase64Binary" DataType="NIFTI_TYPE_FLOAT32" Intent="NIFTI_INTENT_POINTSET" Endian="LittleEndian" ExternalFileName="" ExternalFileOffset="" ArrayIndexingOrder="RowMajorOrder">
+    <MetaData/>
+    <Data>eJxjYGBgWGf23ZGBwcOJAcE+BGUfRBIHsQ+RopYBDLCqdcSmFsQGAHIaJck=</Data>
+  </DataArray>
+  <DataArray Dimensionality="2" Dim0="20" Dim1="3" Encoding="GZipBase64Binary" DataType="NIFTI_TYPE_INT32" Intent="NIFTI_INTENT_TRIANGLE" Endian="LittleEndian" ExternalFileName="" ExternalFileOffset="" ArrayIndexingOrder="RowMajorOrder">
+    <MetaData/>
+    <Data>eJwtjQENADEIA5EwCZOAg2fOkDIpk4KUX8eRkLahLWZv4u5qKsxoKjxw4cDz8Oq46/J/zYVzNRduPMKCFxmjQ7fkvzIHra6BdrzSxc25Tf4nXZPuQhv5evkf0n4hMA==</Data>
+  </DataArray>
+</GIFTI>
diff --git a/inst/sample_data/gifti/icosahedron3d/rand.curv b/inst/sample_data/gifti/icosahedron3d/rand.curv
diff --git a/inst/sample_data/gifti/icosahedron3d/rand.gii b/inst/sample_data/gifti/icosahedron3d/rand.gii
@@ -0,0 +1,13 @@
+<?xml version="1.0" encoding="UTF-8"?>
+<GIFTI Version="1.0" NumberOfDataArrays="1">
+  <MetaData>
+    <MD>
+      <Name>Generator</Name>
+      <Value>ieegio</Value>
+    </MD>
+  </MetaData>
+  <DataArray Dimensionality="2" Dim0="12" Dim1="1" Encoding="GZipBase64Binary" DataType="NIFTI_TYPE_FLOAT32" Intent="NIFTI_INTENT_SHAPE" Endian="LittleEndian" ExternalFileName="" ExternalFileOffset="" ArrayIndexingOrder="RowMajorOrder">
+    <MetaData/>
+    <Data>eJwBMADP/6uzCcBD8xa/AJwBPsgwAj+ExyFA/1oWwL0bpL51G5a+zH4oP8d8tz5fsKO//RfBPhAaFq0=</Data>
+  </DataArray>
+</GIFTI>
diff --git a/inst/sample_data/gifti/icosahedron3d/ts.gii b/inst/sample_data/gifti/icosahedron3d/ts.gii
@@ -0,0 +1,45 @@
+<?xml version="1.0" encoding="UTF-8"?>
+<GIFTI Version="1.0" NumberOfDataArrays="4">
+  <MetaData>
+    <MD>
+      <Name>Generator</Name>
+      <Value>ieegio</Value>
+    </MD>
+  </MetaData>
+  <DataArray Dimensionality="2" Dim0="12" Dim1="1" Encoding="GZipBase64Binary" DataType="NIFTI_TYPE_FLOAT32" Intent="NIFTI_INTENT_TIME_SERIES" Endian="LittleEndian" ExternalFileName="" ExternalFileOffset="" ArrayIndexingOrder="RowMajorOrder">
+    <MetaData>
+      <MD>
+        <Name><![CDATA[TimeStep]]></Name>
+        <Value><![CDATA[1]]></Value>
+      </MD>
+    </MetaData>
+    <Data>eJwBMADP/4ytCr62dC2/eKHePkwnSr6ubsw+haRXvxrp1T8VnMk/BdEbPq+Cub4zree+vuusP00iGO0=</Data>
+  </DataArray>
+  <DataArray Dimensionality="2" Dim0="12" Dim1="1" Encoding="GZipBase64Binary" DataType="NIFTI_TYPE_FLOAT32" Intent="NIFTI_INTENT_TIME_SERIES" Endian="LittleEndian" ExternalFileName="" ExternalFileOffset="" ArrayIndexingOrder="RowMajorOrder">
+    <MetaData>
+      <MD>
+        <Name><![CDATA[TimeStep]]></Name>
+        <Value><![CDATA[1]]></Value>
+      </MD>
+    </MetaData>
+    <Data>eJwBMADP/0r18T4EbIK+Q3o5vtS7HsDM+ao+lSSuP8pewr5Qwnc/tG8wP5YKBj/EJ7M/kjW5v1uYF5Y=</Data>
+  </DataArray>
+  <DataArray Dimensionality="2" Dim0="12" Dim1="1" Encoding="GZipBase64Binary" DataType="NIFTI_TYPE_FLOAT32" Intent="NIFTI_INTENT_TIME_SERIES" Endian="LittleEndian" ExternalFileName="" ExternalFileOffset="" ArrayIndexingOrder="RowMajorOrder">
+    <MetaData>
+      <MD>
+        <Name><![CDATA[TimeStep]]></Name>
+        <Value><![CDATA[1]]></Value>
+      </MD>
+    </MetaData>
+    <Data>eJwBMADP/0uyIr+ZyG2/i73Cv1LMIMBF+Mq/UD4NP7PCqD69i4u+YeiMv9xGwr6hfBk/OtriPpKpGp4=</Data>
+  </DataArray>
+  <DataArray Dimensionality="2" Dim0="12" Dim1="1" Encoding="GZipBase64Binary" DataType="NIFTI_TYPE_FLOAT32" Intent="NIFTI_INTENT_TIME_SERIES" Endian="LittleEndian" ExternalFileName="" ExternalFileOffset="" ArrayIndexingOrder="RowMajorOrder">
+    <MetaData>
+      <MD>
+        <Name><![CDATA[TimeStep]]></Name>
+        <Value><![CDATA[1]]></Value>
+      </MD>
+    </MetaData>
+    <Data>eJwBMADP/2RYED8Xlbo+HI1vP0sRgj2u6DC+dmeyP5cXR7++BYm9BT9SvwcCJj9/m+C+QFECv8KHEv4=</Data>
+  </DataArray>
+</GIFTI>
diff --git a/vignettes/read-imaging-data.Rmd b/vignettes/read-imaging-data.Rmd
@@ -46,14 +46,17 @@ library(ieegio)
 nifti_file <- ieegio_sample_data("brain.demosubject.nii.gz")
 
 # geometry
-geom_file <- ieegio_sample_data("gifti/GzipBase64/sujet01_Lwhite.surf.gii")
+geom_file <- ieegio_sample_data(
+  "gifti/icosahedron3d/geometry.gii")
 
 # measurements
-shape_file <- ieegio_sample_data("gifti/GzipBase64/sujet01_Lwhite.shape.gii")
+shape_file <- ieegio_sample_data(
+  "gifti/icosahedron3d/rand.gii"
+)
 
 # time series
 ts_file <- ieegio_sample_data(
-  "gifti/GzipBase64/fmri_sujet01_Lwhite_projection.time.gii")
+  "gifti/icosahedron3d/ts.gii")
 
 ```
 
@@ -102,16 +105,13 @@ Reading surface file using `read_surface` supports multiple data types
 ```{r read_surface}
 library(ieegio)
 # geometry
-geom_file <- "gifti/GzipBase64/sujet01_Lwhite.surf.gii"
-geometry <- read_surface(ieegio_sample_data(geom_file))
+geometry <- read_surface(geom_file)
 
 # measurements
-shape_file <- "gifti/GzipBase64/sujet01_Lwhite.shape.gii"
-measurement <- read_surface(ieegio_sample_data(shape_file))
+measurement <- read_surface(shape_file)
 
 # time series
-ts_file <- "gifti/GzipBase64/fmri_sujet01_Lwhite_projection.time.gii"
-time_series <- read_surface(ieegio_sample_data(ts_file))
+time_series <- read_surface(ts_file)
 ```
 
 You can merge them to a single object, making an object with multiple embedding data-sets: