2 unstable releases
Uses old Rust 2015
0.2.0 | Nov 19, 2018 |
---|---|
0.1.0 | Jun 22, 2018 |
#704 in Science
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2MB
1.5K
SLoC
OpenSlide Rust
Rust bindings to OpenSlide (https://openslide.org/).
This work has no affiliations with the official OpenSlide project.
Requirements
This library has been built for
OpenSlide 3.4.1
Rust 1.30
I cannot guarantee that it works for other versions.
Building OpenSlide
Download the OpenSlide 3.4.1
from
https://openslide.org/download/
to some location (here, DOWNLOAD_DIR
)
Build the project somewhere (here, BUILD_DIR
):
cd BUILD_DIR
tar xvzf DOWNLOAD_DIR/openslide-3.4.1.tar.gz
cd openslide-3.4.1
./configure
make
sudo make install
In the build output, you will see something like this
Libraries have been installed in:
/usr/local/lib
To make the library discoverable, we append it (call it LIB_DIR
) to the LD_LIBRARY_PATH
environment variable
export LD_LIBRARY_PATH=$LD_LIBRARY_PATH:LIB_DIR
You should now be able to compile, and run a project using this OpenSlide binding. See the
examples
folder for examples.
Interface
This library provides both a native interface, and a more convenient interface.
Native interface
The native interface contains the raw bindings to the OpenSlide API, without any fluff. This interface should be close to the C interface in the original library, both with regards to function naming and documentation. This serves at least two purposes:
1: You can easily use the documentation for the C library 2: If you are not happy with my convenience wrappers, you could use this raw api to create your own.
//! Example using the raw binding api
extern crate failure;
extern crate openslide;
use failure::Error;
use openslide::bindings;
fn main() -> Result<(), Error> {
let filename = "assets/CMU-1-Small-Region.svs";
let osr = bindings::open(filename)?;
let num_levels = bindings::get_level_count(osr)?;
println!("Slide has {} levels", num_levels);
bindings::close(osr);
Ok(())
}
Note that few or none assertions are made on correct use (like checking for valid number of levels or non-negative zoom factors). Also, as shown in the small example above, you have to close the slide explicitly.
Convenience interface
The convenience interface wraps the native interface and provides a more rust-like interface. These
wrappings will enforce correct use via the type system and other checks. There is also no need to
explicitly close an open slide, as the OpenSlide
struct implements the Drop
trait.
//! Example using the convenience binding api
extern crate failure;
extern crate openslide;
use std::path::Path;
use failure::Error;
use openslide::OpenSlide;
fn main() -> Result<(), Error> {
let filename = Path::new("assets/CMU-1-Small-Region.svs");
let os = openslide::OpenSlide::new(&filename)?;
let num_levels = os.get_level_count()?;
println!("Slide has {} levels", num_levels);
Ok(())
}
Dependencies
~13MB
~88K SLoC