Merge pull request #88 from COMBINE-lab/develop

Develop
COMBINE-lab · Oct 11, 2022 · 78f6411 · 78f6411
2 parents 2ebfaa9 + aa0f4ab
commit 78f6411
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Showing 3 changed files with 7 additions and 5 deletions.
diff --git a/Cargo.lock b/Cargo.lock
diff --git a/Cargo.toml b/Cargo.toml
@@ -1,6 +1,6 @@
 [package]
 name = "alevin-fry"
-version = "0.7.0"
+version = "0.7.1"
 authors = [
   "Avi Srivastava <[email protected]>",
   "Hirak Sarkar <[email protected]>",

diff --git a/src/main.rs b/src/main.rs
@@ -91,8 +91,10 @@ fn main() -> anyhow::Result<()> {
             -k --"knee-distance"  "attempt to determine the number of barcodes to keep using the knee distance method."
             )
         )
-        .arg(arg!(-e --"expect-cells" <EXPECTCELLS> "defines the expected number of cells to use in determining the (read, not UMI) based cutoff"))
-        .arg(arg!(-f --"force-cells" <FORCECELLS>  "select the top-k most-frequent barcodes, based on read count, as valid (true)"))
+        .arg(arg!(-e --"expect-cells" <EXPECTCELLS> "defines the expected number of cells to use in determining the (read, not UMI) based cutoff")
+             .value_parser(value_parser!(usize)))
+        .arg(arg!(-f --"force-cells" <FORCECELLS>  "select the top-k most-frequent barcodes, based on read count, as valid (true)")
+             .value_parser(value_parser!(usize)))
         .arg(
             arg!(-b --"valid-bc" <VALIDBC> "uses true barcode collected from a provided file")
             .value_parser(pathbuf_file_exists_validator)