From a26d7909e55f35542fa442a7cbfefaadc0b4ad2d Mon Sep 17 00:00:00 2001
From: Paolo Inglese <26252284+piplus2@users.noreply.github.com>
Date: Fri, 30 May 2025 12:38:55 +0200
Subject: [PATCH] warning if expected files are not found

When the directory passed as argument doesn't contain the expected files, the user should get a feedback. Otherwise, the statistics would be misleading without the user realising it.
---
 AWS/scripts/LibraryComplexity.java | 16 ++++++++++++----
 1 file changed, 12 insertions(+), 4 deletions(-)

diff --git a/AWS/scripts/LibraryComplexity.java b/AWS/scripts/LibraryComplexity.java
index e6eb851..c37d8ff 100755
--- a/AWS/scripts/LibraryComplexity.java
+++ b/AWS/scripts/LibraryComplexity.java
@@ -52,20 +52,26 @@ public static void main(String[] args) {
           reader = new BufferedReader(new FileReader(f));
           while (reader.readLine() != null) opticalDups++;
           reader.close();
-        }
+        } else {
+	  System.out.println("Warning: opt_dups.txt not found in the directory");
+	}
         f = new File(args[0] + "/merged_nodups.txt");
         if (f.exists()) {
           reader = new BufferedReader(new FileReader(f));
           while (reader.readLine() != null) uniqueReadPairs++;
           reader.close();				
-        }
+        } else {
+	  System.out.println("Warning: merged_nodups.txt not found in the directory");
+	}
         f = new File(args[0] + "/dups.txt");
         if (f.exists()) {
           reader = new BufferedReader(new FileReader(args[0] + "/dups.txt"));
           while (reader.readLine() != null) readPairs++;
           reader.close();				
           readPairs += uniqueReadPairs; 
-        }
+        } else {
+	  System.out.println("Warning: dups.txt not found in the directory");
+	}
         String fname = "inter.txt";
         if (args.length == 2) fname = args[1];
         f = new File(args[0] + "/" + fname);
@@ -87,7 +93,9 @@ public static void main(String[] args) {
             line = reader.readLine(); 
           }
           reader.close();
-        }
+        } else {
+	  System.out.println("Warning: inter.txt not found");
+	}
       } catch (IOException error) {
         System.err.println("Problem counting lines in merged_nodups and dups");
         System.exit(1);