From f27e9bc91e58124dd8247fc5357cf44d7ce1cb93 Mon Sep 17 00:00:00 2001
From: Eric Coissac <eric@coissac.eu>
Date: Wed, 5 Feb 2025 19:27:00 +0100
Subject: [PATCH] patch a bug related to csv and qualities

---
 pkg/obioptions/version.go       | 2 +-
 pkg/obitools/obicsv/obicsv.go   | 1 +
 pkg/obitools/obicsv/sequence.go | 6 +++---
 3 files changed, 5 insertions(+), 4 deletions(-)

diff --git a/pkg/obioptions/version.go b/pkg/obioptions/version.go
index 1c22e99..d40ddc5 100644
--- a/pkg/obioptions/version.go
+++ b/pkg/obioptions/version.go
@@ -8,7 +8,7 @@ import (
 // corresponds to the last commit, and not the one when the file will be
 // commited
 
-var _Commit = "ceca339"
+var _Commit = "773e549"
 var _Version = "Release 4.2.0"
 
 // Version returns the version of the obitools package.
diff --git a/pkg/obitools/obicsv/obicsv.go b/pkg/obitools/obicsv/obicsv.go
index 5fbe7f4..daf6704 100644
--- a/pkg/obitools/obicsv/obicsv.go
+++ b/pkg/obitools/obicsv/obicsv.go
@@ -33,6 +33,7 @@ func CLIWriteSequenceCSV(iterator obiiter.IBioSequence,
 		CSVDefinition(CLIPrintDefinition()),
 		CSVKeys(CLIToBeKeptAttributes()),
 		CSVSequence(CLIPrintSequence()),
+		CSVQuality(CLIPrintQuality()),
 		CSVAutoColumn(CLIAutoColumns()),
 	)
 
diff --git a/pkg/obitools/obicsv/sequence.go b/pkg/obitools/obicsv/sequence.go
index 12eb35c..798b781 100644
--- a/pkg/obitools/obicsv/sequence.go
+++ b/pkg/obitools/obicsv/sequence.go
@@ -40,7 +40,7 @@ func CSVSequenceHeader(opt Options) obiitercsv.CSVHeader {
 	}
 
 	if opt.CSVQuality() {
-		record.AppendField("quality")
+		record.AppendField("qualities")
 	}
 
 	return record
@@ -100,9 +100,9 @@ func CSVBatchFromSequences(batch obiiter.BioSequenceBatch, opt Options) obiiterc
 				for j := 0; j < l; j++ {
 					ascii[j] = uint8(q[j]) + uint8(quality_shift)
 				}
-				record["quality"] = string(ascii)
+				record["qualities"] = string(ascii)
 			} else {
-				record["quality"] = opt.CSVNAValue()
+				record["qualities"] = opt.CSVNAValue()
 			}
 		}