diff --git a/src/nf_modules/SAMtools/samtools.config b/src/nf_modules/SAMtools/samtools.config
index 509cdf910a3d75def70d8180f14a1d7952099121..a10e3e578a16a66324e2c6989d054015af03e491 100644
--- a/src/nf_modules/SAMtools/samtools.config
+++ b/src/nf_modules/SAMtools/samtools.config
@@ -1,5 +1,7 @@
 profiles {
   docker {
+    docker.temp = 'auto'
+    docker.enabled = true
     process {
       $sort_bam {
         container = "samtools:1.7"
diff --git a/src/nf_modules/UrQt/urqt.config b/src/nf_modules/UrQt/urqt.config
index 0309d0994b377a243fd90825803ab563d3ab9e98..8e7e40e9835635518869245e1254aa1a35505beb 100644
--- a/src/nf_modules/UrQt/urqt.config
+++ b/src/nf_modules/UrQt/urqt.config
@@ -1,5 +1,7 @@
 profiles {
   docker {
+    docker.temp = 'auto'
+    docker.enabled = true
     process {
       $trimming {
         container = "urqt:d62c1f8"
diff --git a/src/nf_modules/cutadapt/cutadapt.config b/src/nf_modules/cutadapt/cutadapt.config
index 79a6478597a3f5669fc6e8af77b902c2bdccaac5..969ee0289c40940f3b0e364a26289f18f4f4d1ea 100644
--- a/src/nf_modules/cutadapt/cutadapt.config
+++ b/src/nf_modules/cutadapt/cutadapt.config
@@ -1,9 +1,7 @@
 profiles {
   docker {
-    docker {
-      temp = 'auto'
-      enabled = true
-    }
+    docker.temp = 'auto'
+    docker.enabled = true
     process {
       $adaptor_removal {
         container = "cutadapt:1.14"
@@ -21,6 +19,8 @@ profiles {
 
 profiles {
   docker {
+    docker.temp = 'auto'
+    docker.enabled = true
     process {
       $trimming {
         container = "cutadapt:1.14"