From c6f5d0c3f00a2cb01a276afc9ac0449a094ddfbf Mon Sep 17 00:00:00 2001
From: "Dr. K.D. Murray" <foss@kdmurray.id.au>
Date: Mon, 27 May 2024 09:49:58 +0200
Subject: [PATCH] fix broken fastq format

---
 blsl/ildemux.py | 5 +++--
 1 file changed, 3 insertions(+), 2 deletions(-)

diff --git a/blsl/ildemux.py b/blsl/ildemux.py
index 36c91a3..2e13b43 100644
--- a/blsl/ildemux.py
+++ b/blsl/ildemux.py
@@ -63,7 +63,8 @@ def __init__(self, outfile, size=2**27, sname=""):
         self.sname = sname
 
     def writelines(self, lines):
-        self.write("".join(lines).encode('ascii'))
+        self.write("\n".join(lines).encode('ascii'))
+        self.write(b"\n")
 
     def write(self, somebytes):
         if self.first:
@@ -184,7 +185,7 @@ def main(argv=None):
                 ofile.writelines(pair)
     finally:
         with open(args.outdir / "stats.tsv", "w") as fh:
-            print("sample", "n_pairs", file=fh, sep="\t")
+            print("sample", "nspots", file=fh, sep="\t")
             for samp, n in stats.most_common():
                 print(samp, n, file=fh, sep="\t")