Some minor changes to see if we can get this to work on google colab

Author: jguhlin

minimappers2/Cargo.toml

@@ -14,7 +14,7 @@ minimap2-sys = { version = "0.1.10", features = ["simde"] }
 #minimap2 = { path = "../", features = ["simde"] }
 #minimap2-sys = { path = "../minimap2-sys", features = ["simde"] }
 crossbeam = "0.8.2"
-mimalloc = {version = "0.1.34", default-features = false }
+# mimalloc = {version = "0.1.34", default-features = false }
 
 pyo3 = { version = "0.17.0", features = ["extension-module", "abi3-py37"] }
 polars = "0.26.1"

minimappers2/pyproject.toml

@@ -13,18 +13,15 @@ license = { file = "LICENSE" }
 description = "A Python wrapper for minimap2-rs"
 keywords = ["minimap2", "bioinformatics", "alignment", "mapping"]
 dependencies = [
-    "polars==0.15.15",
-    "pyarrow==10.0.1",
+    "polars>=0.15.15",
+    "pyarrow>=10.0.1",
 ]
 
 [project.urls]
 homepage = "https://github.com/jguhlin/minimap2-rs"
 repository = "https://github.com/jguhlin/minimap2-rs"
 
-
 [build-system]
 requires = ["maturin>=0.14,<0.15"]
 build-backend = "maturin"
 
-[options]
-

minimappers2/src/lib.rs

@@ -1,7 +1,7 @@
 use std::num::NonZeroI32;
 use std::sync::{Mutex, Arc};
 
-use mimalloc::MiMalloc;
+// use mimalloc::MiMalloc;
 use minimap2::*;
 use minimap2_sys::{mm_set_opt, MM_F_CIGAR};
 use pyo3::prelude::*;
@@ -10,8 +10,8 @@ use polars::{prelude::*, df};
 use crossbeam::queue::ArrayQueue;
 use fffx::{Fasta, Fastq};
 
-#[global_allocator]
-static GLOBAL: MiMalloc = MiMalloc;
+// #[global_allocator]
+// static GLOBAL: MiMalloc = MiMalloc;
 
 mod multithreading;