From e3784ef489842bbf8f4becc34da16f43eb64d852 Mon Sep 17 00:00:00 2001
From: Mathieu Giraud <mathieu@vidjil.org>
Date: Tue, 31 Oct 2017 17:19:10 +0100
Subject: [PATCH] core/dynprog.{cpp,h}: output costs in the format expected by
 -f and -C

See #2076.
---
 algo/core/dynprog.cpp | 8 ++++++++
 algo/core/dynprog.h   | 2 ++
 2 files changed, 10 insertions(+)

diff --git a/algo/core/dynprog.cpp b/algo/core/dynprog.cpp
index 527c278ef..370f6e319 100644
--- a/algo/core/dynprog.cpp
+++ b/algo/core/dynprog.cpp
@@ -90,6 +90,7 @@ void Cost::estimate_K_lambda()
 
 ostream& operator<<(ostream& out, const Cost& cost)
 {
+  if (cost.debug)
   out << "(" << cost.match 
       << ", " << cost.mismatch
       << "/" << cost.insertion
@@ -100,6 +101,13 @@ ostream& operator<<(ostream& out, const Cost& cost)
       << ", " << cost.homopolymer
       << ") "
       << cost.K << "/" << cost.lambda ;
+  else
+    out << "\"" << cost.match
+        << ", " << cost.mismatch
+        << ", " << cost.insertion
+        << ", " << cost.homopolymer
+        << ", " << cost.deletion_end
+        << "\"" ;
 
   return out;
 }
diff --git a/algo/core/dynprog.h b/algo/core/dynprog.h
index 9717ef06b..9cbe2034e 100644
--- a/algo/core/dynprog.h
+++ b/algo/core/dynprog.h
@@ -26,6 +26,8 @@ typedef struct {
 class Cost
 {
  public:
+  bool debug = false;
+
   int match;
   int mismatch;
 
-- 
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