Update sample retrieval logic based on reassembly flag

Refactor sample retrieval logic to handle no reassembly case.

Author: yazhinia

src/main.rs

@@ -190,9 +190,19 @@ fn main() -> io::Result<()> {
     }
 
     // Get sample list
-    let bin_sample_map: HashMap<String, String> = utility::get_sample_names(&bindir,&format)?;
-    let sample_count= bin_sample_map.values().collect::<HashSet<_>>().len();
-    info!("{:?} bin files and {:?} samples found", binfiles.len(), sample_count);
+    // let bin_sample_map: HashMap<String, String> = utility::get_sample_names(&bindir,&format)?;
+    // let sample_count= bin_sample_map.values().collect::<HashSet<_>>().len();
+    // info!("{:?} bin files and {:?} samples found", binfiles.len(), sample_count);
+    let bin_sample_map: HashMap<String, String> = if no_reassembly {
+        HashMap::new()
+    } else {
+        utility::get_sample_names(&bindir, &format)?
+    };
+    
+    if !no_reassembly {
+        let sample_count= bin_sample_map.values().collect::<HashSet<_>>().len();
+        info!("{:?} bin files and {:?} samples found", binfiles.len(), sample_count);
+    }
 
     // Obtain quality of bins
     // eg: checkm2_outputpath = <parentpathof_bindir>/mags_90comp_95purity/checkm2_results/