From 59c7f5a5b1b6a3e144a9b1c151e6f2a4c315342f Mon Sep 17 00:00:00 2001
From: ljmesi <37740329+ljmesi@users.noreply.github.com>
Date: Thu, 5 May 2022 08:38:41 +0200
Subject: [PATCH] Update samtools/bam2fq

---
 modules.json                                    | 4 ++--
 modules/nf-core/modules/samtools/bam2fq/main.nf | 2 +-
 2 files changed, 3 insertions(+), 3 deletions(-)

diff --git a/modules.json b/modules.json
index ce1fbc5..043e4ad 100644
--- a/modules.json
+++ b/modules.json
@@ -70,7 +70,7 @@
                 "git_sha": "f1c5384c31e985591716afdd732cf8c2ae29d05b"
             },
             "samtools/bam2fq": {
-                "git_sha": "897c33d5da084b61109500ee44c01da2d3e4e773"
+                "git_sha": "5510ea39fe638594bc26ac34cadf4a84bf27d159"
             },
             "samtools/view": {
                 "git_sha": "6b64f9cb6c3dd3577931cc3cd032d6fb730000ce"
@@ -80,4 +80,4 @@
             }
         }
     }
-}
+}
\ No newline at end of file
diff --git a/modules/nf-core/modules/samtools/bam2fq/main.nf b/modules/nf-core/modules/samtools/bam2fq/main.nf
index 5d6aa79..9301d1d 100644
--- a/modules/nf-core/modules/samtools/bam2fq/main.nf
+++ b/modules/nf-core/modules/samtools/bam2fq/main.nf
@@ -45,7 +45,7 @@ process SAMTOOLS_BAM2FQ {
             bam2fq \\
             $args \\
             -@ $task.cpus \\
-            $inputbam >${prefix}_interleaved.fq.gz
+            $inputbam | gzip --no-name > ${prefix}_interleaved.fq.gz
 
         cat <<-END_VERSIONS > versions.yml
         "${task.process}":