minor

anndata-hdf5/Cargo.toml

@@ -13,7 +13,7 @@ homepage = "https://github.com/kaizhang/anndata-rs"
 [dependencies]
 anndata = { workspace = true }
 anyhow = "1.0"
-hdf5 = { package = "hdf5-metno", version = "0.9", features = ["blosc"] }
+hdf5 = { package = "hdf5-metno", version = "0.9", features = ["lzf", "blosc"] }
 blosc-src = { version = "0.3.0", features = ["zstd"] }
 hdf5-sys = { package = "hdf5-metno-sys", version = "0.9", features = ["static", "zlib", "threadsafe"] }
 libz-sys = { version = "1", features = ["libc"], default-features = false }

anndata-hdf5/src/lib.rs

@@ -124,9 +124,13 @@ fn new_dataset<T: BackendData>(
     };
 
     builder = if let Some(compression) = config.compression {
-        match dtype {
-            ScalarType::String => builder.deflate(compression),
-            _ => builder.blosc_zstd(compression, hdf5::filters::BloscShuffle::Byte),
+        match compression {
+            Compression::Gzip(lvl) => builder.deflate(lvl),
+            Compression::Lzf => builder.lzf(),
+            Compression::Zstd(lvl) => match dtype {
+                ScalarType::String => builder.deflate(lvl),
+                _ => builder.blosc_zstd(lvl, hdf5::filters::BloscShuffle::Byte),
+            }
         }
     } else {
         builder

anndata/src/backend.rs

@@ -9,17 +9,23 @@ use std::path::{Path, PathBuf};
 pub use serde_json::Value;
 use serde::Deserialize;
 
+#[derive(Debug, Copy, Clone)]
+pub enum Compression {
+    Gzip(u8),
+    Lzf,
+    Zstd(u8),
+}
+
 #[derive(Debug, Clone)]
 pub struct WriteConfig {
-    pub compression: Option<u8>,
+    pub compression: Option<Compression>,
     pub block_size: Option<Shape>,
 }
 
 impl Default for WriteConfig {
     fn default() -> Self {
         Self {
-            compression: Some(1),
-            //compression: None,
+            compression: Some(Compression::Zstd(3)),
             block_size: None,
         }
     }

python/pyproject.toml

@@ -26,6 +26,7 @@ dynamic = ["version"]
 
 dependencies = [
     'anndata >= 0.8.0, < 0.11.0',
+    'hdf5plugin >= 5.0.0',
     "numpy>=1.16",
     "pandas",
     "pyarrow",