extern crate link_cplusplus;
pub mod error;
mod functions;
mod handle;
mod interop;
mod misc;
pub mod sys;
pub use functions::*;
pub use handle::*;
pub use interop::*;
pub use misc::{AttachmentData, Dimension, PixelType, RawDataType};
#[cfg(test)]
mod tests {
use crate::handle::{CziReader, InputStream};
use crate::interop::{LibCZIBuildInformation, ReaderOpenInfo};
use crate::misc::Dimension;
use std::path::{Path, PathBuf};
#[test]
fn test_read_shape() -> Result<(), Box<dyn std::error::Error>> {
let path = Path::new("test-files/Experiment-2029.czi");
assert!(path.exists());
let czi = CziReader::create()?;
let stream = InputStream::create_from_file_utf8(path.to_string_lossy().as_ref())?;
let open_info = ReaderOpenInfo::new(&stream);
czi.open(open_info)?;
println!("pyramid statistics: {:?}", czi.get_pyramid_statistics()?);
println!("file header info: {:?}", czi.get_file_header_info()?);
let statistics_simple = czi.get_statistics_simple()?;
println!("statistics simple: {:?}", czi.get_statistics_simple()?);
let bounding_box = statistics_simple.get_bounding_box();
let dim_bounds = statistics_simple.get_dim_bounds();
let dimensions = Dimension::vec_from_bitflags(dim_bounds.get_dimensions_valid());
let size = dim_bounds.get_size();
for (i, d) in dimensions.iter().enumerate() {
println!("{:?}: {}", d, size[i]);
}
assert_eq!(bounding_box.get_w(), 1280);
assert_eq!(bounding_box.get_h(), 1280);
Ok(())
}
#[test]
fn test_read_bytes() -> Result<(), Box<dyn std::error::Error>> {
let path = Path::new("test-files/Experiment-2029.czi");
assert!(path.exists());
let czi = CziReader::create()?;
let stream = InputStream::create_from_file_utf8(path.to_string_lossy().as_ref())?;
let open_info = ReaderOpenInfo::new(&stream);
czi.open(open_info)?;
let sub_block = czi.read_sub_block(0)?;
let bitmap = sub_block.create_bitmap()?.lock()?;
let bitmap_info = bitmap.get_info()?;
println!(
"height: {}, width: {} pixel type: {:#?}",
bitmap_info.get_height(),
bitmap_info.get_width(),
bitmap_info.get_pixel_type()?
);
let bytes = bitmap.lock_info.get_data_roi();
println!("bytes: {:?}", bytes.as_slice()[..100].to_vec());
assert_eq!(
bytes.as_slice()[..100],
[
95, 0, 100, 0, 98, 0, 117, 0, 89, 0, 100, 0, 103, 0, 105, 0, 115, 0, 93, 0, 94, 0,
89, 0, 93, 0, 95, 0, 111, 0, 87, 0, 103, 0, 107, 0, 103, 0, 104, 0, 113, 0, 112, 0,
108, 0, 123, 0, 110, 0, 99, 0, 98, 0, 100, 0, 91, 0, 95, 0, 91, 0, 90, 0, 102, 0,
93, 0, 95, 0, 92, 0, 101, 0, 93, 0, 94, 0, 97, 0, 88, 0, 104, 0, 99, 0, 104, 0,
117, 0, 101, 0, 110, 0, 97, 0, 103, 0, 112, 0
]
);
Ok(())
}
#[test]
fn test_libczi_xml() -> Result<(), Box<dyn std::error::Error>> {
let path = Path::new("test-files/Experiment-2029.czi");
assert!(path.exists());
let czi = CziReader::create()?;
let stream = InputStream::create_from_file_utf8(path.to_string_lossy().as_ref())?;
let open_info = ReaderOpenInfo::new(&stream);
czi.open(open_info)?;
let metadata_segment = czi.get_metadata_segment()?;
let xml = metadata_segment.get_metadata_as_xml()?;
let s = String::try_from(&xml)?;
println!("xml: {}", &s[..s.len().min(100)]);
assert_eq!(
s[..s.len().min(100)].lines().collect::<Vec<_>>(),
vec![
"<ImageDocument>",
" <Metadata>",
r#" <Experiment Version="1.2">"#,
" <RunMode>OptimizeBeforePerformE",
]
);
Ok(())
}
#[test]
fn test_libczi_pyramid_statistics() -> Result<(), Box<dyn std::error::Error>> {
let path = PathBuf::from("test-files/Experiment-2029.czi");
assert!(path.exists());
let czi = CziReader::create()?;
let stream = InputStream::create_from_file_utf8(path.to_string_lossy().as_ref())?;
let open_info = ReaderOpenInfo::new(&stream);
czi.open(open_info)?;
let s = czi.get_pyramid_statistics()?;
println!("xml: {}", &s[..s.len().min(100)]);
assert_eq!(
&s[..s.len().min(100)],
r###"{"scenePyramidStatistics":{"2147483647":[{"layerInfo":{"minificationFactor":0,"pyramidLayerNo":0},"c"###
);
Ok(())
}
#[test]
fn test_libczi_document_info() -> Result<(), Box<dyn std::error::Error>> {
let path = PathBuf::from("test-files/Experiment-2029.czi");
assert!(path.exists());
let czi = CziReader::create()?;
let stream = InputStream::create_from_file_utf8(path.to_string_lossy().as_ref())?;
let open_info = ReaderOpenInfo::new(&stream);
czi.open(open_info)?;
let metadata_segment = czi.get_metadata_segment()?;
let document_info = metadata_segment.get_czi_document_info()?;
let general_document_info = document_info.get_general_document_info()?;
println!(
"xml: {}",
&general_document_info[..general_document_info.len().min(100)]
);
assert_eq!(
&general_document_info[..general_document_info.len().min(100)],
r###"{"user_name":"zeiss","creation_date_time":"2023-11-27T14:35:29.3983006+01:00"}"###
);
Ok(())
}
#[test]
fn test_lib_czi_build_information() -> Result<(), Box<dyn std::error::Error>> {
let build_info = LibCZIBuildInformation::get()?;
println!(
"compiler information: {:?}",
build_info.get_compiler_information()
);
println!("repository url: {:?}", build_info.get_repository_url());
println!(
"repository branch: {:?}",
build_info.get_repository_branch()
);
println!("repository tag: {:?}", build_info.get_repository_tag());
assert_eq!(
build_info.get_repository_tag(),
"61f74ff097d6d0fbe6e36f204ff59d92e299d7cd"
);
Ok(())
}
}