Bump rustbio version. Closes #8.

bed3 parsing was broken in older versions of rustbio. Now resolved with latest version.
snystrom · May 9, 2022 · 658d104 · 658d104
1 parent 5eed87a
commit 658d104
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Showing 3 changed files with 39 additions and 66 deletions.
diff --git a/Cargo.lock b/Cargo.lock
diff --git a/Cargo.toml b/Cargo.toml
@@ -1,12 +1,12 @@
 [package]
 name = "vplot"
-version = "0.3.422"
+version = "0.3.423"
 authors = ["Spencer Nystrom <[email protected]>"]
 edition = "2018"
 
 [dependencies]
 csv = "1.1.3"
-bio = "0.32.0"
+bio = "0.40.0"
 rust-htslib = {version = "0.32", default-features = false}
 structopt = "*"
 ndarray = "0.13.1"

diff --git a/src/main.rs b/src/main.rs
@@ -14,11 +14,10 @@ struct Cli {
     /// Path to an indexed bam file
     #[structopt(parse(from_os_str))]
     bam: std::path::PathBuf,
-    /// Path to a bed file (must be in bed4 format: chr, start, end, name) Of
-    /// a region (or regions) in which to generate the vplot. If using multiple
-    /// regions, all entries must be the same width. If setting multiple
-    /// regions, reads will be aggregated into a single matrix unless `--multi`
-    /// is set.
+    /// Path to a bed file of a region (or regions) in which to generate the
+    /// vplot. If using multiple regions, all entries must be the same width. If
+    /// setting multiple regions, reads will be aggregated into a single matrix
+    /// unless `--multi` is set.
     #[structopt(parse(from_os_str))]
     regions: std::path::PathBuf,
     /// Maximum fragment size to include in the V-plot matrix