add star-aligner dep

regulatory-genomics · Nov 5, 2024 · 9bd5f31 · 9bd5f31
1 parent c780e48
commit 9bd5f31
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Showing 2 changed files with 18 additions and 4 deletions.
diff --git a/precellar/Cargo.toml b/precellar/Cargo.toml
@@ -7,16 +7,23 @@ edition = "2021"
 anyhow = "1.0"
 bed-utils = "0.5.1"
 bwa-mem2 = { git = "https://github.com/regulatory-genomics/bwa-mem2-rust.git", rev = "07eda9b9c2815ae52b3fa30b01de0e19fae31fe0" }
+star-aligner = { git = "https://github.com/regulatory-genomics/star-aligner", rev = "f9915ea3afbac1e8f4773e2e7c22376f1549c3c7" }
 bstr = "1.0"
 either = "1.13"
 itertools = "0.13"
 indexmap = "2.5"
 log = "0.4"
 lexical = "6.1"
-noodles = { version = "0.80", features = ["core", "fastq", "bam", "sam", "async"] }
+noodles = { version = "0.80", features = [
+    "core",
+    "fastq",
+    "bam",
+    "sam",
+    "async",
+] }
 kdam = "0.5.2"
 rayon = "1.10"
 smallvec = "1.13"
 serde = "1.0"
 seqspec = { version = "0.1", workspace = true }
-regex = "1.6"
+regex = "1.6"
diff --git a/python/Cargo.toml b/python/Cargo.toml
@@ -11,10 +11,17 @@ crate-type = ["cdylib"]
 [dependencies]
 anyhow = "1.0"
 bwa-mem2 = { git = "https://github.com/regulatory-genomics/bwa-mem2-rust.git", rev = "07eda9b9c2815ae52b3fa30b01de0e19fae31fe0" }
+star-aligner = { git = "https://github.com/regulatory-genomics/star-aligner", rev = "f9915ea3afbac1e8f4773e2e7c22376f1549c3c7" }
 bstr = "1.0"
 either = "1.13"
 itertools = "0.13"
-noodles = { version = "0.80", features = ["core", "fastq", "bam", "sam", "bgzf"] }
+noodles = { version = "0.80", features = [
+    "core",
+    "fastq",
+    "bam",
+    "sam",
+    "bgzf",
+] }
 seqspec = { version = "0.1", workspace = true }
 serde_yaml = "0.9"
 termtree = "0.5"
@@ -29,4 +36,4 @@ version = "0.22.3"
 features = ["extension-module", "anyhow"]
 
 [target.'cfg(not(target_env = "msvc"))'.dependencies]
-tikv-jemallocator = {version = "0.6", features = ["disable_initial_exec_tls"]}
+tikv-jemallocator = { version = "0.6", features = ["disable_initial_exec_tls"] }