format

libradicl/src/cellfilter.rs

@@ -166,7 +166,6 @@ fn get_knee(freq: &[u64], max_iterations: usize, log: &slog::Logger) -> usize {
     max_idx
 }
 
-
 /// Given the input RAD file `input_file`, compute
 /// and output (in `output_dir`) the list of valid
 /// (i.e. "permitted") barcode values, as well as

libradicl/src/quant.rs

@@ -31,6 +31,7 @@ use std::io;
 use std::io::Read;
 use std::io::Write;
 use std::io::{BufReader, BufWriter};
+use std::string::ToString;
 use std::sync::atomic::{AtomicUsize, Ordering};
 use std::sync::{Arc, Mutex};
 use std::thread;
@@ -582,13 +583,17 @@ pub fn quantify(
     pbar.finish_with_message(&pb_msg);
 
     let meta_info = json!({
+        "resolution_strategy" : resolution.to_string(),
+        "num_quantified_cells" : hdr.num_chunks,
+        "num_genes" : num_genes,
         "alt_resolved_cell_numbers" : *alt_res_cells.lock().unwrap()
     });
 
     let mut meta_info_file = File::create(output_path.join("meta_info.json"))
         .expect("couldn't create meta_info.json file.");
+    let aux_info_str = serde_json::to_string_pretty(&meta_info).expect("could not format json.");
     meta_info_file
-        .write_all(meta_info.to_string().as_bytes())
+        .write_all(aux_info_str.as_bytes())
         .expect("cannot write to meta_info.json file");
 
     Ok(())

libradicl/src/schema.rs

@@ -10,6 +10,7 @@ use crate as libradicl;
 use bio_types::strand::Strand;
 use fasthash::{sea, RandomState};
 use std::collections::HashMap;
+use std::fmt;
 use std::str::FromStr;
 
 /**
@@ -46,6 +47,12 @@ pub enum ResolutionStrategy {
     Parsimony,
 }
 
+impl fmt::Display for ResolutionStrategy {
+    fn fmt(&self, f: &mut fmt::Formatter) -> fmt::Result {
+        write!(f, "{:?}", self)
+    }
+}
+
 // Implement the trait
 impl FromStr for ResolutionStrategy {
     type Err = &'static str;

src/main.rs

@@ -19,7 +19,6 @@ use rand::Rng;
 use slog::{crit, o, warn, Drain};
 use std::unimplemented;
 
-
 #[global_allocator]
 static GLOBAL: MiMalloc = MiMalloc;