diff --git a/contents/conf/.gitkeep b/conf/.gitkeep
similarity index 100%
rename from contents/conf/.gitkeep
rename to conf/.gitkeep
diff --git a/contents/conf/Execution_Run_For_Output_Bag.json b/conf/Execution_Run_For_Output_Bag.json
similarity index 100%
rename from contents/conf/Execution_Run_For_Output_Bag.json
rename to conf/Execution_Run_For_Output_Bag.json
diff --git a/contents/conf/Replicate_For_Input_Bag.json b/conf/Replicate_For_Input_Bag.json
similarity index 100%
rename from contents/conf/Replicate_For_Input_Bag.json
rename to conf/Replicate_For_Input_Bag.json
diff --git a/contents/conf/aws.config b/conf/aws.config
similarity index 100%
rename from contents/conf/aws.config
rename to conf/aws.config
diff --git a/contents/conf/biohpc.config b/conf/biohpc.config
similarity index 100%
rename from contents/conf/biohpc.config
rename to conf/biohpc.config
diff --git a/contents/conf/biohpc_local.config b/conf/biohpc_local.config
similarity index 100%
rename from contents/conf/biohpc_local.config
rename to conf/biohpc_local.config
diff --git a/contents/conf/biohpc_max.config b/conf/biohpc_max.config
similarity index 100%
rename from contents/conf/biohpc_max.config
rename to conf/biohpc_max.config
diff --git a/contents/conf/dnanexus.config b/conf/dnanexus.config
similarity index 100%
rename from contents/conf/dnanexus.config
rename to conf/dnanexus.config
diff --git a/contents/conf/local.config b/conf/local.config
similarity index 100%
rename from contents/conf/local.config
rename to conf/local.config
diff --git a/contents/conf/multiqc_config.yaml b/conf/multiqc_config.yaml
similarity index 100%
rename from contents/conf/multiqc_config.yaml
rename to conf/multiqc_config.yaml
diff --git a/contents/conf/ondemand.config b/conf/ondemand.config
similarity index 100%
rename from contents/conf/ondemand.config
rename to conf/ondemand.config
diff --git a/contents/conf/spot.config b/conf/spot.config
similarity index 100%
rename from contents/conf/spot.config
rename to conf/spot.config
diff --git a/contents/main.nf b/main.nf
similarity index 100%
rename from contents/main.nf
rename to main.nf
diff --git a/contents/nextflow.config b/nextflow.config
similarity index 100%
rename from contents/nextflow.config
rename to nextflow.config