- more transforms

src/readers/bioformats_java.rs

@@ -389,6 +389,7 @@ impl BioFormatsJavaReader {
 
     fn deinterleave(&self, bytes: Vec<u8>, channel: usize) -> Result<Vec<u8>, Error> {
         let chunk_size = match self.pixel_type {
+            PixelType::Bool => 1,
             PixelType::I8 => 1,
             PixelType::U8 => 1,
             PixelType::I16 => 2,
@@ -413,6 +414,26 @@ impl BioFormatsJavaReader {
 
     fn bytes_to_frame(&self, bytes: Vec<u8>) -> Result<Frame, Error> {
         macro_rules! get_frame {
+            (bool, <$n:expr) => {
+                Ok(ArrayT::from(Array2::from_shape_vec(
+                    (self.shape.y, self.shape.x),
+                    bytes
+                        .iter()
+                        .map(|x| [x & 128, x & 64, x & 32, x & 16, x & 8, x & 4, x & 2, x & 1])
+                        .flatten()
+                        .collect(),
+                )?))
+            };
+            (bool, >$n:expr) => {
+                Ok(ArrayT::from(Array2::from_shape_vec(
+                    (self.shape.y, self.shape.x),
+                    bytes
+                        .iter()
+                        .map(|x| [x & 1, x & 2, x & 4, x & 8, x & 16, x & 32, x & 64, x & 128])
+                        .flatten()
+                        .collect(),
+                )?))
+            };
             ($t:tt, <$n:expr) => {
                 Ok(ArrayT::from(Array2::from_shape_vec(
                     (self.shape.y, self.shape.x),
@@ -434,6 +455,7 @@ impl BioFormatsJavaReader {
         }
 
         match (&self.pixel_type, self.little_endian) {
+            (PixelType::Bool, true) => get_frame!(bool, <1),
             (PixelType::I8, true) => get_frame!(i8, <1),
             (PixelType::U8, true) => get_frame!(u8, <1),
             (PixelType::I16, true) => get_frame!(i16, <2),
@@ -447,6 +469,7 @@ impl BioFormatsJavaReader {
             (PixelType::I128, true) => get_frame!(i128, <16),
             (PixelType::U128, true) => get_frame!(u128, <16),
             (PixelType::F128, true) => get_frame!(f64, <8),
+            (PixelType::Bool, false) => get_frame!(bool, >1),
             (PixelType::I8, false) => get_frame!(i8, >1),
             (PixelType::U8, false) => get_frame!(u8, >1),
             (PixelType::I16, false) => get_frame!(i16, >2),
@@ -501,7 +524,7 @@ impl Reader for BioFormatsJavaReader {
                 Error::FileDoesNotExist(orig.join("**").join("*.tif").display().to_string())
             })?;
         }
-        let mut new = BioFormatsJavaReader {
+        let mut new = Self {
             reader: ThreadLocal::default(),
             path,
             series,