diff --git a/nextflow/config/production.config b/nextflow/config/production.config
index c5a0f960d..e4d8c8e07 100644
--- a/nextflow/config/production.config
+++ b/nextflow/config/production.config
@@ -1,9 +1,9 @@
 includeConfig './base.config'
 
 //global setting vars
-workDir = "$NOBACKUP_DIR/nextflow/work/release_$ENS_VERSION/"
+workDir = "$NOBACKUP_DIR/nextflow/$USER/work/release_$ENS_VERSION/"
 nextflow.enable.dsl=2
-publishDir   = "$NOBACKUP_DIR/nextflow/outputs/$USER/"
+publishDir   = "$NOBACKUP_DIR/nextflow/$USER/outputs/$USER/"
 params.pipeline_dir = "$BASE_DIR/$USER/ensembl-hive/scripts/"
 params.help = false
 params.config = ''
@@ -21,7 +21,7 @@ params {
     pipeline_dir      = "$BASE_DIR/ensembl-hive/scripts/"
     help              = false
     release           = "$ENS_VERSION"
-    output            = "$NOBACKUP_DIR/nextflow/work/release_$ENS_VERSION"
+    output            = "$NOBACKUP_DIR/nextflow/work/$USER/release_$ENS_VERSION"
     nf_py_script_path = "$BASE_DIR/ensembl-production/nextflow/nf-py-scripts/"
 }
 
@@ -32,7 +32,7 @@ profiles {
 
         process.executor = 'lsf'
 	process.scratch = "$NOBACKUP_DIR/nextflow/scratch"
-	process.log = "$NOBACKUP_DIR/nextflow/logs/release_$ENS_VERSION/production.log"
+	process.log = "$NOBACKUP_DIR/nextflow/$USER/logs/release_$ENS_VERSION/production.log"
         process.queue = 'production'
     }
 
@@ -137,15 +137,15 @@ profiles {
 
 
         executor = 'slurm'
-        scratch = "$NOBACKUP_DIR/nextflow/scratch"
-        log = "$NOBACKUP_DIR/nextflow/logs/release_$ENS_VERSION/production.log"
+        scratch = "$NOBACKUP_DIR/nextflow/$USER/scratch"
+        log = "$NOBACKUP_DIR/nextflow/$USER/logs/release_$ENS_VERSION/production.log"
      }
       
       }
 
 	local {
 		    process.executor = 'local'
-          process.log = '$NOBACKUP_DIR/nextflow/logs/local.log' 
+          process.log = '$NOBACKUP_DIR/nextflow/$USER/logs/local.log' 
         }
 
         k8s {