Replace vanilla Linux Biocontainer with Ubuntu

Author: drpatelh

modules.json

@@ -7,7 +7,7 @@
                 "git_sha": "e745e167c1020928ef20ea1397b6b4d230681b4d"
             },
             "cat/fastq": {
-                "git_sha": "e745e167c1020928ef20ea1397b6b4d230681b4d"
+                "git_sha": "9aadd9a6d3f5964476582319b3a1c54a3e3fe7c9"
             },
             "custom/dumpsoftwareversions": {
                 "git_sha": "e745e167c1020928ef20ea1397b6b4d230681b4d"
@@ -22,7 +22,7 @@
                 "git_sha": "e745e167c1020928ef20ea1397b6b4d230681b4d"
             },
             "gunzip": {
-                "git_sha": "e745e167c1020928ef20ea1397b6b4d230681b4d"
+                "git_sha": "9aadd9a6d3f5964476582319b3a1c54a3e3fe7c9"
             },
             "hisat2/align": {
                 "git_sha": "e745e167c1020928ef20ea1397b6b4d230681b4d"
@@ -118,7 +118,7 @@
                 "git_sha": "e745e167c1020928ef20ea1397b6b4d230681b4d"
             },
             "untar": {
-                "git_sha": "e745e167c1020928ef20ea1397b6b4d230681b4d"
+                "git_sha": "9aadd9a6d3f5964476582319b3a1c54a3e3fe7c9"
             }
         }
     }

modules/local/rsem_merge_counts.nf

@@ -3,8 +3,8 @@ process RSEM_MERGE_COUNTS {
 
     conda (params.enable_conda ? "conda-forge::sed=4.7" : null)
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
-        'https://containers.biocontainers.pro/s3/SingImgsRepo/biocontainers/v1.2.0_cv1/biocontainers_v1.2.0_cv1.img' :
-        'biocontainers/biocontainers:v1.2.0_cv1' }"
+        'https://depot.galaxyproject.org/singularity/ubuntu:20.04' :
+        'ubuntu:20.04' }"
 
     input:
     path ('genes/*')