diff --git a/CHANGELOG.md b/CHANGELOG.md
index 63ded269..0f1e313d 100644
--- a/CHANGELOG.md
+++ b/CHANGELOG.md
@@ -1,3 +1,9 @@
+# demultiplex v0.x.x
+
+# Minor changes
+
+* Use `v0.2.0` version of cutadapt instead of `main` (PR #23).
+
 # demultiplex v0.2.0
 
 # New functionality
diff --git a/src/workflows/well_demultiplex/config.vsh.yaml b/src/workflows/well_demultiplex/config.vsh.yaml
index 2be85f86..41e70663 100644
--- a/src/workflows/well_demultiplex/config.vsh.yaml
+++ b/src/workflows/well_demultiplex/config.vsh.yaml
@@ -85,7 +85,7 @@ repositories:
   - name: bb
     type: vsh
     repo: biobox
-    tag: main
+    tag: v0.2.0
   - name: cb
     type: vsh
     repo: craftbox
diff --git a/target/dependencies/vsh/vsh/biobox/main/nextflow/cutadapt/.config.vsh.yaml b/target/dependencies/vsh/vsh/biobox/v0.2.0/nextflow/cutadapt/.config.vsh.yaml
similarity index 98%
rename from target/dependencies/vsh/vsh/biobox/main/nextflow/cutadapt/.config.vsh.yaml
rename to target/dependencies/vsh/vsh/biobox/v0.2.0/nextflow/cutadapt/.config.vsh.yaml
index 7cbe26aa..70a7c69d 100644
--- a/target/dependencies/vsh/vsh/biobox/main/nextflow/cutadapt/.config.vsh.yaml
+++ b/target/dependencies/vsh/vsh/biobox/v0.2.0/nextflow/cutadapt/.config.vsh.yaml
@@ -1,5 +1,5 @@
 name: "cutadapt"
-version: "main"
+version: "v0.2.0"
 authors:
 - name: "Toni Verbeiren"
   roles:
@@ -251,7 +251,7 @@ argument_groups:
     direction: "input"
     multiple: false
     multiple_sep: ";"
-  - type: "boolean_true"
+  - type: "boolean_false"
     name: "--no_indels"
     description: "Allow only mismatches in alignments.\n"
     info: null
@@ -286,7 +286,7 @@ argument_groups:
     description: "Interpret IUPAC wildcards in reads.\n"
     info: null
     direction: "input"
-  - type: "boolean_true"
+  - type: "boolean_false"
     name: "--no_match_adapter_wildcards"
     description: "Do not interpret IUPAC wildcards in adapters.\n"
     info: null
@@ -718,7 +718,7 @@ engines:
   id: "docker"
   image: "python:3.12"
   target_registry: "images.viash-hub.com"
-  target_tag: "main"
+  target_tag: "v0.2.0"
   namespace_separator: "/"
   setup:
   - type: "python"
@@ -740,12 +740,11 @@ build_info:
   output: "target/nextflow/cutadapt"
   executable: "target/nextflow/cutadapt/main.nf"
   viash_version: "0.9.0"
-  git_commit: "952ff0843093b538cbfd6fefdecf2e7a0bc9e70b"
-  git_remote: "https://x-access-token:ghs_EwAUAMYJ0K4VBHlAEMs4ZP2OyQYqJM0PSfEO@github.com/viash-hub/biobox"
-  git_tag: "v0.2.0-27-g952ff08"
+  git_commit: "7e530218844c373048bc33de58f021b6460642e5"
+  git_remote: "https://x-access-token:ghs_kiUBq39QrAlnG6IaeAcTcXhllzqpOV4LDB3e@github.com/viash-hub/biobox"
 package_config:
   name: "biobox"
-  version: "main"
+  version: "v0.2.0"
   description: "A collection of bioinformatics tools for working with sequence data.\n"
   info: null
   viash_version: "0.9.0"
@@ -755,7 +754,7 @@ package_config:
   - ".requirements.commands := ['ps']\n"
   - ".engines += { type: \"native\" }"
   - ".engines[.type == 'docker'].target_registry := 'images.viash-hub.com'"
-  - ".engines[.type == 'docker'].target_tag := 'main'"
+  - ".engines[.type == 'docker'].target_tag := 'v0.2.0'"
   keywords:
   - "bioinformatics"
   - "modules"
diff --git a/target/dependencies/vsh/vsh/biobox/main/nextflow/cutadapt/main.nf b/target/dependencies/vsh/vsh/biobox/v0.2.0/nextflow/cutadapt/main.nf
similarity index 99%
rename from target/dependencies/vsh/vsh/biobox/main/nextflow/cutadapt/main.nf
rename to target/dependencies/vsh/vsh/biobox/v0.2.0/nextflow/cutadapt/main.nf
index a7f02e16..a84d5cab 100644
--- a/target/dependencies/vsh/vsh/biobox/main/nextflow/cutadapt/main.nf
+++ b/target/dependencies/vsh/vsh/biobox/v0.2.0/nextflow/cutadapt/main.nf
@@ -1,4 +1,4 @@
-// cutadapt main
+// cutadapt v0.2.0
 // 
 // This wrapper script is auto-generated by viash 0.9.0 and is thus a derivative
 // work thereof. This software comes with ABSOLUTELY NO WARRANTY from Data
@@ -2808,7 +2808,7 @@ meta = [
   "resources_dir": moduleDir.toRealPath().normalize(),
   "config": processConfig(readJsonBlob('''{
   "name" : "cutadapt",
-  "version" : "main",
+  "version" : "v0.2.0",
   "authors" : [
     {
       "name" : "Toni Verbeiren",
@@ -3063,7 +3063,7 @@ meta = [
           "multiple_sep" : ";"
         },
         {
-          "type" : "boolean_true",
+          "type" : "boolean_false",
           "name" : "--no_indels",
           "description" : "Allow only mismatches in alignments.\n",
           "direction" : "input"
@@ -3105,7 +3105,7 @@ meta = [
           "direction" : "input"
         },
         {
-          "type" : "boolean_true",
+          "type" : "boolean_false",
           "name" : "--no_match_adapter_wildcards",
           "description" : "Do not interpret IUPAC wildcards in adapters.\n",
           "direction" : "input"
@@ -3589,7 +3589,7 @@ meta = [
       "id" : "docker",
       "image" : "python:3.12",
       "target_registry" : "images.viash-hub.com",
-      "target_tag" : "main",
+      "target_tag" : "v0.2.0",
       "namespace_separator" : "/",
       "setup" : [
         {
@@ -3619,13 +3619,12 @@ meta = [
     "engine" : "docker|native",
     "output" : "target/nextflow/cutadapt",
     "viash_version" : "0.9.0",
-    "git_commit" : "952ff0843093b538cbfd6fefdecf2e7a0bc9e70b",
-    "git_remote" : "https://x-access-token:ghs_EwAUAMYJ0K4VBHlAEMs4ZP2OyQYqJM0PSfEO@github.com/viash-hub/biobox",
-    "git_tag" : "v0.2.0-27-g952ff08"
+    "git_commit" : "7e530218844c373048bc33de58f021b6460642e5",
+    "git_remote" : "https://x-access-token:ghs_kiUBq39QrAlnG6IaeAcTcXhllzqpOV4LDB3e@github.com/viash-hub/biobox"
   },
   "package_config" : {
     "name" : "biobox",
-    "version" : "main",
+    "version" : "v0.2.0",
     "description" : "A collection of bioinformatics tools for working with sequence data.\n",
     "viash_version" : "0.9.0",
     "source" : "src",
@@ -3634,7 +3633,7 @@ meta = [
       ".requirements.commands := ['ps']\n",
       ".engines += { type: \\"native\\" }",
       ".engines[.type == 'docker'].target_registry := 'images.viash-hub.com'",
-      ".engines[.type == 'docker'].target_tag := 'main'"
+      ".engines[.type == 'docker'].target_tag := 'v0.2.0'"
     ],
     "keywords" : [
       "bioinformatics",
@@ -3826,9 +3825,9 @@ debug
 # Input arguments 
 ###########################################################
 echo ">> Parsing input arguments"
-[[ "\\$par_no_indels" == "false" ]] && unset par_no_indels
+[[ "\\$par_no_indels" == "true" ]] && unset par_no_indels
 [[ "\\$par_match_read_wildcards" == "false" ]] && unset par_match_read_wildcards
-[[ "\\$par_no_match_adapter_wildcards" == "false" ]] && unset par_no_match_adapter_wildcards
+[[ "\\$par_no_match_adapter_wildcards" == "true" ]] && unset par_no_match_adapter_wildcards
 [[ "\\$par_revcomp" == "false" ]] && unset par_revcomp
 
 input_args=\\$(echo \\\\
@@ -3838,7 +3837,7 @@ input_args=\\$(echo \\\\
   \\${par_overlap:+--overlap "\\${par_overlap}"} \\\\
   \\${par_match_read_wildcards:+--match-read-wildcards} \\\\
   \\${par_no_match_adapter_wildcards:+--no-match-adapter-wildcards} \\\\
-  \\${par_action:+--action="\\${par_action}"} \\\\
+  \\${par_action:+--action "\\${par_action}"} \\\\
   \\${par_revcomp:+--revcomp} \\\\
 )
 debug "Arguments to cutadapt:"
@@ -4347,7 +4346,7 @@ meta["defaults"] = [
   "container" : {
     "registry" : "images.viash-hub.com",
     "image" : "vsh/biobox/cutadapt",
-    "tag" : "main"
+    "tag" : "v0.2.0"
   },
   "tag" : "$id"
 }'''),
diff --git a/target/dependencies/vsh/vsh/biobox/main/nextflow/cutadapt/nextflow.config b/target/dependencies/vsh/vsh/biobox/v0.2.0/nextflow/cutadapt/nextflow.config
similarity index 99%
rename from target/dependencies/vsh/vsh/biobox/main/nextflow/cutadapt/nextflow.config
rename to target/dependencies/vsh/vsh/biobox/v0.2.0/nextflow/cutadapt/nextflow.config
index 629e04bf..4c7cf1bf 100644
--- a/target/dependencies/vsh/vsh/biobox/main/nextflow/cutadapt/nextflow.config
+++ b/target/dependencies/vsh/vsh/biobox/v0.2.0/nextflow/cutadapt/nextflow.config
@@ -2,7 +2,7 @@ manifest {
   name = 'cutadapt'
   mainScript = 'main.nf'
   nextflowVersion = '!>=20.12.1-edge'
-  version = 'main'
+  version = 'v0.2.0'
   description = 'Cutadapt removes adapter sequences from high-throughput sequencing reads.\n'
   author = 'Toni Verbeiren'
 }
diff --git a/target/dependencies/vsh/vsh/biobox/main/nextflow/cutadapt/nextflow_schema.json b/target/dependencies/vsh/vsh/biobox/v0.2.0/nextflow/cutadapt/nextflow_schema.json
similarity index 96%
rename from target/dependencies/vsh/vsh/biobox/main/nextflow/cutadapt/nextflow_schema.json
rename to target/dependencies/vsh/vsh/biobox/v0.2.0/nextflow/cutadapt/nextflow_schema.json
index 2b7fb1b4..20301884 100644
--- a/target/dependencies/vsh/vsh/biobox/main/nextflow/cutadapt/nextflow_schema.json
+++ b/target/dependencies/vsh/vsh/biobox/v0.2.0/nextflow/cutadapt/nextflow_schema.json
@@ -180,7 +180,7 @@
                 "description": "Type: `boolean_true`, default: `false`. Treat adapters given with -a/-A etc",
                 "help_text": "Type: `boolean_true`, default: `false`. Treat adapters given with -a/-A etc. as pairs. Either both\nor none are removed from each read pair.\n"
             ,
-                "default":false
+                "default": "False"
             }
     
 
@@ -203,7 +203,7 @@
                 "description": "Type: `boolean_true`, default: `false`. Read and/or write interleaved paired-end reads",
                 "help_text": "Type: `boolean_true`, default: `false`. Read and/or write interleaved paired-end reads.\n"
             ,
-                "default":false
+                "default": "False"
             }
     
 
@@ -251,10 +251,10 @@
                 "no_indels": {
                 "type":
                 "boolean",
-                "description": "Type: `boolean_true`, default: `false`. Allow only mismatches in alignments",
-                "help_text": "Type: `boolean_true`, default: `false`. Allow only mismatches in alignments.\n"
+                "description": "Type: `boolean_false`, default: `true`. Allow only mismatches in alignments",
+                "help_text": "Type: `boolean_false`, default: `true`. Allow only mismatches in alignments.\n"
             ,
-                "default":false
+                "default": "True"
             }
     
 
@@ -285,7 +285,7 @@
                 "description": "Type: `boolean_true`, default: `false`. Interpret IUPAC wildcards in reads",
                 "help_text": "Type: `boolean_true`, default: `false`. Interpret IUPAC wildcards in reads.\n"
             ,
-                "default":false
+                "default": "False"
             }
     
 
@@ -293,10 +293,10 @@
                 "no_match_adapter_wildcards": {
                 "type":
                 "boolean",
-                "description": "Type: `boolean_true`, default: `false`. Do not interpret IUPAC wildcards in adapters",
-                "help_text": "Type: `boolean_true`, default: `false`. Do not interpret IUPAC wildcards in adapters.\n"
+                "description": "Type: `boolean_false`, default: `true`. Do not interpret IUPAC wildcards in adapters",
+                "help_text": "Type: `boolean_false`, default: `true`. Do not interpret IUPAC wildcards in adapters.\n"
             ,
-                "default":false
+                "default": "True"
             }
     
 
@@ -319,7 +319,7 @@
                 "description": "Type: `boolean_true`, default: `false`. Check both the read and its reverse complement for adapter\nmatches",
                 "help_text": "Type: `boolean_true`, default: `false`. Check both the read and its reverse complement for adapter\nmatches. If match is on reverse-complemented version,\noutput that one.\n"
             ,
-                "default":false
+                "default": "False"
             }
     
 
@@ -422,7 +422,7 @@
                 "description": "Type: `boolean_true`, default: `false`. Trim poly-A tails",
                 "help_text": "Type: `boolean_true`, default: `false`. Trim poly-A tails"
             ,
-                "default":false
+                "default": "False"
             }
     
 
@@ -443,7 +443,7 @@
                 "description": "Type: `boolean_true`, default: `false`. Trim N\u0027s on ends of reads",
                 "help_text": "Type: `boolean_true`, default: `false`. Trim N\u0027s on ends of reads."
             ,
-                "default":false
+                "default": "False"
             }
     
 
@@ -504,7 +504,7 @@
                 "description": "Type: `boolean_true`, default: `false`. Change negative quality values to zero",
                 "help_text": "Type: `boolean_true`, default: `false`. Change negative quality values to zero."
             ,
-                "default":false
+                "default": "False"
             }
     
 
@@ -575,7 +575,7 @@
                 "description": "Type: `boolean_true`, default: `false`. Discard reads that contain an adapter",
                 "help_text": "Type: `boolean_true`, default: `false`. Discard reads that contain an adapter. Use also -O to\navoid discarding too many randomly matching reads.\n"
             ,
-                "default":false
+                "default": "False"
             }
     
 
@@ -586,7 +586,7 @@
                 "description": "Type: `boolean_true`, default: `false`. Discard reads that do not contain an adapter",
                 "help_text": "Type: `boolean_true`, default: `false`. Discard reads that do not contain an adapter.\n"
             ,
-                "default":false
+                "default": "False"
             }
     
 
@@ -597,7 +597,7 @@
                 "description": "Type: `boolean_true`, default: `false`. Discard reads that did not pass CASAVA filtering (header\nhas :Y:)",
                 "help_text": "Type: `boolean_true`, default: `false`. Discard reads that did not pass CASAVA filtering (header\nhas :Y:).\n"
             ,
-                "default":false
+                "default": "False"
             }
     
 
@@ -630,7 +630,7 @@
                 "description": "Type: `boolean_true`, default: `false`. Write report in JSON format to this file",
                 "help_text": "Type: `boolean_true`, default: `false`. Write report in JSON format to this file.\n"
             ,
-                "default":false
+                "default": "False"
             }
     
 
@@ -641,7 +641,7 @@
                 "description": "Type: List of `file`, required, default: `$id.$key.output_*.fast[a,q]`, example: `fastq/*_001.fast[a,q]`, multiple_sep: `\";\"`. Glob pattern for matching the expected output files",
                 "help_text": "Type: List of `file`, required, default: `$id.$key.output_*.fast[a,q]`, example: `fastq/*_001.fast[a,q]`, multiple_sep: `\";\"`. Glob pattern for matching the expected output files.\nShould include `$output_dir`.\n"
             ,
-                "default":"$id.$key.output_*.fast[a,q]"
+                "default": "$id.$key.output_*.fast[a,q]"
             }
     
 
@@ -652,7 +652,7 @@
                 "description": "Type: `boolean_true`, default: `false`. Output FASTA to standard output even on FASTQ input",
                 "help_text": "Type: `boolean_true`, default: `false`. Output FASTA to standard output even on FASTQ input.\n"
             ,
-                "default":false
+                "default": "False"
             }
     
 
@@ -663,7 +663,7 @@
                 "description": "Type: `boolean_true`, default: `false`. Write information about each read and its adapter matches\ninto info",
                 "help_text": "Type: `boolean_true`, default: `false`. Write information about each read and its adapter matches\ninto info.txt in the output directory.\nSee the documentation for the file format.\n"
             ,
-                "default":false
+                "default": "False"
             }
     
 
@@ -684,7 +684,7 @@
                 "description": "Type: `boolean_true`, default: `false`. Print debug information",
                 "help_text": "Type: `boolean_true`, default: `false`. Print debug information"
             ,
-                "default":false
+                "default": "False"
             }
     
 
diff --git a/target/executable/eset/create_eset/.config.vsh.yaml b/target/executable/eset/create_eset/.config.vsh.yaml
index f6353595..78751f3c 100644
--- a/target/executable/eset/create_eset/.config.vsh.yaml
+++ b/target/executable/eset/create_eset/.config.vsh.yaml
@@ -220,8 +220,8 @@ build_info:
   output: "target/executable/eset/create_eset"
   executable: "target/executable/eset/create_eset/create_eset"
   viash_version: "0.9.0"
-  git_commit: "da935587f3496228b8486d1cce6f368a28eb8443"
-  git_remote: "https://x-access-token:ghs_oGmMqoqpugW8Vx1b40vPl2y04BQppa1bMrOI@github.com/viash-hub/htrnaseq"
+  git_commit: "f6cf9bf06a6b2ff974abc1a20c6fcd4cd413a582"
+  git_remote: "https://x-access-token:ghs_RDdNKgc3SasBNW6yAiKUCtvC07L9Tt3Ov5Cj@github.com/viash-hub/htrnaseq"
 package_config:
   name: "htrnaseq"
   version: "main"
diff --git a/target/executable/eset/create_eset/create_eset b/target/executable/eset/create_eset/create_eset
index 1c544e99..bf07e991 100755
--- a/target/executable/eset/create_eset/create_eset
+++ b/target/executable/eset/create_eset/create_eset
@@ -488,9 +488,9 @@ remotes::install_url("https://cran.r-project.org/src/contrib/Archive/Seurat/Seur
 
 LABEL org.opencontainers.image.authors="Dries Schaumont, Marijke Van Moerbeke"
 LABEL org.opencontainers.image.description="Companion container for running component eset create_eset"
-LABEL org.opencontainers.image.created="2024-12-17T15:56:20Z"
+LABEL org.opencontainers.image.created="2024-12-18T13:03:28Z"
 LABEL org.opencontainers.image.source="https://github.com/viash-hub/htrnaseq"
-LABEL org.opencontainers.image.revision="da935587f3496228b8486d1cce6f368a28eb8443"
+LABEL org.opencontainers.image.revision="f6cf9bf06a6b2ff974abc1a20c6fcd4cd413a582"
 LABEL org.opencontainers.image.version="main"
 
 VIASHDOCKER
diff --git a/target/executable/eset/create_fdata/.config.vsh.yaml b/target/executable/eset/create_fdata/.config.vsh.yaml
index 0ea4ee9f..26076f51 100644
--- a/target/executable/eset/create_fdata/.config.vsh.yaml
+++ b/target/executable/eset/create_fdata/.config.vsh.yaml
@@ -177,8 +177,8 @@ build_info:
   output: "target/executable/eset/create_fdata"
   executable: "target/executable/eset/create_fdata/create_fdata"
   viash_version: "0.9.0"
-  git_commit: "da935587f3496228b8486d1cce6f368a28eb8443"
-  git_remote: "https://x-access-token:ghs_oGmMqoqpugW8Vx1b40vPl2y04BQppa1bMrOI@github.com/viash-hub/htrnaseq"
+  git_commit: "f6cf9bf06a6b2ff974abc1a20c6fcd4cd413a582"
+  git_remote: "https://x-access-token:ghs_RDdNKgc3SasBNW6yAiKUCtvC07L9Tt3Ov5Cj@github.com/viash-hub/htrnaseq"
 package_config:
   name: "htrnaseq"
   version: "main"
diff --git a/target/executable/eset/create_fdata/create_fdata b/target/executable/eset/create_fdata/create_fdata
index 3aac3794..8464141f 100755
--- a/target/executable/eset/create_fdata/create_fdata
+++ b/target/executable/eset/create_fdata/create_fdata
@@ -478,9 +478,9 @@ RUN pip install --upgrade pip && \
 
 LABEL org.opencontainers.image.authors="Dries Schaumont, Marijke Van Moerbeke"
 LABEL org.opencontainers.image.description="Companion container for running component eset create_fdata"
-LABEL org.opencontainers.image.created="2024-12-17T15:56:21Z"
+LABEL org.opencontainers.image.created="2024-12-18T13:03:30Z"
 LABEL org.opencontainers.image.source="https://github.com/viash-hub/htrnaseq"
-LABEL org.opencontainers.image.revision="da935587f3496228b8486d1cce6f368a28eb8443"
+LABEL org.opencontainers.image.revision="f6cf9bf06a6b2ff974abc1a20c6fcd4cd413a582"
 LABEL org.opencontainers.image.version="main"
 
 VIASHDOCKER
diff --git a/target/executable/eset/create_pdata/.config.vsh.yaml b/target/executable/eset/create_pdata/.config.vsh.yaml
index dae2f205..9454827d 100644
--- a/target/executable/eset/create_pdata/.config.vsh.yaml
+++ b/target/executable/eset/create_pdata/.config.vsh.yaml
@@ -191,8 +191,8 @@ build_info:
   output: "target/executable/eset/create_pdata"
   executable: "target/executable/eset/create_pdata/create_pdata"
   viash_version: "0.9.0"
-  git_commit: "da935587f3496228b8486d1cce6f368a28eb8443"
-  git_remote: "https://x-access-token:ghs_oGmMqoqpugW8Vx1b40vPl2y04BQppa1bMrOI@github.com/viash-hub/htrnaseq"
+  git_commit: "f6cf9bf06a6b2ff974abc1a20c6fcd4cd413a582"
+  git_remote: "https://x-access-token:ghs_RDdNKgc3SasBNW6yAiKUCtvC07L9Tt3Ov5Cj@github.com/viash-hub/htrnaseq"
 package_config:
   name: "htrnaseq"
   version: "main"
diff --git a/target/executable/eset/create_pdata/create_pdata b/target/executable/eset/create_pdata/create_pdata
index 37e210c5..6c0dc4a9 100755
--- a/target/executable/eset/create_pdata/create_pdata
+++ b/target/executable/eset/create_pdata/create_pdata
@@ -488,9 +488,9 @@ RUN pip install --upgrade pip && \
 
 LABEL org.opencontainers.image.authors="Dries Schaumont, Marijke Van Moerbeke"
 LABEL org.opencontainers.image.description="Companion container for running component eset create_pdata"
-LABEL org.opencontainers.image.created="2024-12-17T15:56:20Z"
+LABEL org.opencontainers.image.created="2024-12-18T13:03:28Z"
 LABEL org.opencontainers.image.source="https://github.com/viash-hub/htrnaseq"
-LABEL org.opencontainers.image.revision="da935587f3496228b8486d1cce6f368a28eb8443"
+LABEL org.opencontainers.image.revision="f6cf9bf06a6b2ff974abc1a20c6fcd4cd413a582"
 LABEL org.opencontainers.image.version="main"
 
 VIASHDOCKER
diff --git a/target/executable/integration_test_components/htrnaseq/check_eset/.config.vsh.yaml b/target/executable/integration_test_components/htrnaseq/check_eset/.config.vsh.yaml
index 62459bc9..a938b030 100644
--- a/target/executable/integration_test_components/htrnaseq/check_eset/.config.vsh.yaml
+++ b/target/executable/integration_test_components/htrnaseq/check_eset/.config.vsh.yaml
@@ -148,8 +148,8 @@ build_info:
   output: "target/executable/integration_test_components/htrnaseq/check_eset"
   executable: "target/executable/integration_test_components/htrnaseq/check_eset/check_eset"
   viash_version: "0.9.0"
-  git_commit: "da935587f3496228b8486d1cce6f368a28eb8443"
-  git_remote: "https://x-access-token:ghs_oGmMqoqpugW8Vx1b40vPl2y04BQppa1bMrOI@github.com/viash-hub/htrnaseq"
+  git_commit: "f6cf9bf06a6b2ff974abc1a20c6fcd4cd413a582"
+  git_remote: "https://x-access-token:ghs_RDdNKgc3SasBNW6yAiKUCtvC07L9Tt3Ov5Cj@github.com/viash-hub/htrnaseq"
 package_config:
   name: "htrnaseq"
   version: "main"
diff --git a/target/executable/integration_test_components/htrnaseq/check_eset/check_eset b/target/executable/integration_test_components/htrnaseq/check_eset/check_eset
index 024f37e8..36ed5115 100755
--- a/target/executable/integration_test_components/htrnaseq/check_eset/check_eset
+++ b/target/executable/integration_test_components/htrnaseq/check_eset/check_eset
@@ -470,9 +470,9 @@ RUN Rscript -e 'if (!requireNamespace("remotes", quietly = TRUE)) install.packag
 
 LABEL org.opencontainers.image.authors="Dries Schaumont"
 LABEL org.opencontainers.image.description="Companion container for running component integration_test_components/htrnaseq check_eset"
-LABEL org.opencontainers.image.created="2024-12-17T15:56:21Z"
+LABEL org.opencontainers.image.created="2024-12-18T13:03:29Z"
 LABEL org.opencontainers.image.source="https://github.com/viash-hub/htrnaseq"
-LABEL org.opencontainers.image.revision="da935587f3496228b8486d1cce6f368a28eb8443"
+LABEL org.opencontainers.image.revision="f6cf9bf06a6b2ff974abc1a20c6fcd4cd413a582"
 LABEL org.opencontainers.image.version="main"
 
 VIASHDOCKER
diff --git a/target/executable/parallel_map/.config.vsh.yaml b/target/executable/parallel_map/.config.vsh.yaml
index 301199ab..75fc9820 100644
--- a/target/executable/parallel_map/.config.vsh.yaml
+++ b/target/executable/parallel_map/.config.vsh.yaml
@@ -264,8 +264,8 @@ build_info:
   output: "target/executable/parallel_map"
   executable: "target/executable/parallel_map/parallel_map"
   viash_version: "0.9.0"
-  git_commit: "da935587f3496228b8486d1cce6f368a28eb8443"
-  git_remote: "https://x-access-token:ghs_oGmMqoqpugW8Vx1b40vPl2y04BQppa1bMrOI@github.com/viash-hub/htrnaseq"
+  git_commit: "f6cf9bf06a6b2ff974abc1a20c6fcd4cd413a582"
+  git_remote: "https://x-access-token:ghs_RDdNKgc3SasBNW6yAiKUCtvC07L9Tt3Ov5Cj@github.com/viash-hub/htrnaseq"
 package_config:
   name: "htrnaseq"
   version: "main"
diff --git a/target/executable/parallel_map/parallel_map b/target/executable/parallel_map/parallel_map
index 8e03248c..f1bada01 100755
--- a/target/executable/parallel_map/parallel_map
+++ b/target/executable/parallel_map/parallel_map
@@ -517,9 +517,9 @@ ENV STAR_BINARY=STAR
 COPY STAR /usr/local/bin/$STAR_BINARY
 LABEL org.opencontainers.image.authors="Dries Schaumont, Toni Verbeiren"
 LABEL org.opencontainers.image.description="Companion container for running component parallel_map"
-LABEL org.opencontainers.image.created="2024-12-17T15:56:20Z"
+LABEL org.opencontainers.image.created="2024-12-18T13:03:28Z"
 LABEL org.opencontainers.image.source="https://github.com/viash-hub/htrnaseq"
-LABEL org.opencontainers.image.revision="da935587f3496228b8486d1cce6f368a28eb8443"
+LABEL org.opencontainers.image.revision="f6cf9bf06a6b2ff974abc1a20c6fcd4cd413a582"
 LABEL org.opencontainers.image.version="main"
 
 VIASHDOCKER
diff --git a/target/executable/report/create_report/.config.vsh.yaml b/target/executable/report/create_report/.config.vsh.yaml
index 1fcb291c..189a897e 100644
--- a/target/executable/report/create_report/.config.vsh.yaml
+++ b/target/executable/report/create_report/.config.vsh.yaml
@@ -201,8 +201,8 @@ build_info:
   output: "target/executable/report/create_report"
   executable: "target/executable/report/create_report/create_report"
   viash_version: "0.9.0"
-  git_commit: "da935587f3496228b8486d1cce6f368a28eb8443"
-  git_remote: "https://x-access-token:ghs_oGmMqoqpugW8Vx1b40vPl2y04BQppa1bMrOI@github.com/viash-hub/htrnaseq"
+  git_commit: "f6cf9bf06a6b2ff974abc1a20c6fcd4cd413a582"
+  git_remote: "https://x-access-token:ghs_RDdNKgc3SasBNW6yAiKUCtvC07L9Tt3Ov5Cj@github.com/viash-hub/htrnaseq"
 package_config:
   name: "htrnaseq"
   version: "main"
diff --git a/target/executable/report/create_report/create_report b/target/executable/report/create_report/create_report
index 85d9926a..a7a9f114 100755
--- a/target/executable/report/create_report/create_report
+++ b/target/executable/report/create_report/create_report
@@ -476,9 +476,9 @@ RUN Rscript -e 'if (!requireNamespace("remotes", quietly = TRUE)) install.packag
 
 LABEL org.opencontainers.image.authors="Dries Schaumont, Marijke Van Moerbeke"
 LABEL org.opencontainers.image.description="Companion container for running component report create_report"
-LABEL org.opencontainers.image.created="2024-12-17T15:56:21Z"
+LABEL org.opencontainers.image.created="2024-12-18T13:03:29Z"
 LABEL org.opencontainers.image.source="https://github.com/viash-hub/htrnaseq"
-LABEL org.opencontainers.image.revision="da935587f3496228b8486d1cce6f368a28eb8443"
+LABEL org.opencontainers.image.revision="f6cf9bf06a6b2ff974abc1a20c6fcd4cd413a582"
 LABEL org.opencontainers.image.version="main"
 
 VIASHDOCKER
diff --git a/target/executable/stats/combine_star_logs/.config.vsh.yaml b/target/executable/stats/combine_star_logs/.config.vsh.yaml
index 2e915948..421b4ccf 100644
--- a/target/executable/stats/combine_star_logs/.config.vsh.yaml
+++ b/target/executable/stats/combine_star_logs/.config.vsh.yaml
@@ -198,8 +198,8 @@ build_info:
   output: "target/executable/stats/combine_star_logs"
   executable: "target/executable/stats/combine_star_logs/combine_star_logs"
   viash_version: "0.9.0"
-  git_commit: "da935587f3496228b8486d1cce6f368a28eb8443"
-  git_remote: "https://x-access-token:ghs_oGmMqoqpugW8Vx1b40vPl2y04BQppa1bMrOI@github.com/viash-hub/htrnaseq"
+  git_commit: "f6cf9bf06a6b2ff974abc1a20c6fcd4cd413a582"
+  git_remote: "https://x-access-token:ghs_RDdNKgc3SasBNW6yAiKUCtvC07L9Tt3Ov5Cj@github.com/viash-hub/htrnaseq"
 package_config:
   name: "htrnaseq"
   version: "main"
diff --git a/target/executable/stats/combine_star_logs/combine_star_logs b/target/executable/stats/combine_star_logs/combine_star_logs
index 3542ebb6..606e0860 100755
--- a/target/executable/stats/combine_star_logs/combine_star_logs
+++ b/target/executable/stats/combine_star_logs/combine_star_logs
@@ -490,9 +490,9 @@ RUN pip install --upgrade pip && \
 
 LABEL org.opencontainers.image.authors="Dries Schaumont"
 LABEL org.opencontainers.image.description="Companion container for running component stats combine_star_logs"
-LABEL org.opencontainers.image.created="2024-12-17T15:56:20Z"
+LABEL org.opencontainers.image.created="2024-12-18T13:03:28Z"
 LABEL org.opencontainers.image.source="https://github.com/viash-hub/htrnaseq"
-LABEL org.opencontainers.image.revision="da935587f3496228b8486d1cce6f368a28eb8443"
+LABEL org.opencontainers.image.revision="f6cf9bf06a6b2ff974abc1a20c6fcd4cd413a582"
 LABEL org.opencontainers.image.version="main"
 
 VIASHDOCKER
diff --git a/target/executable/stats/generate_pool_statistics/.config.vsh.yaml b/target/executable/stats/generate_pool_statistics/.config.vsh.yaml
index 6544881f..f9e47d4e 100644
--- a/target/executable/stats/generate_pool_statistics/.config.vsh.yaml
+++ b/target/executable/stats/generate_pool_statistics/.config.vsh.yaml
@@ -182,8 +182,8 @@ build_info:
   output: "target/executable/stats/generate_pool_statistics"
   executable: "target/executable/stats/generate_pool_statistics/generate_pool_statistics"
   viash_version: "0.9.0"
-  git_commit: "da935587f3496228b8486d1cce6f368a28eb8443"
-  git_remote: "https://x-access-token:ghs_oGmMqoqpugW8Vx1b40vPl2y04BQppa1bMrOI@github.com/viash-hub/htrnaseq"
+  git_commit: "f6cf9bf06a6b2ff974abc1a20c6fcd4cd413a582"
+  git_remote: "https://x-access-token:ghs_RDdNKgc3SasBNW6yAiKUCtvC07L9Tt3Ov5Cj@github.com/viash-hub/htrnaseq"
 package_config:
   name: "htrnaseq"
   version: "main"
diff --git a/target/executable/stats/generate_pool_statistics/generate_pool_statistics b/target/executable/stats/generate_pool_statistics/generate_pool_statistics
index 1cb2d553..29141aed 100755
--- a/target/executable/stats/generate_pool_statistics/generate_pool_statistics
+++ b/target/executable/stats/generate_pool_statistics/generate_pool_statistics
@@ -483,9 +483,9 @@ RUN pip install --upgrade pip && \
 
 LABEL org.opencontainers.image.authors="Dries Schaumont, Marijke Van Moerbeke"
 LABEL org.opencontainers.image.description="Companion container for running component stats generate_pool_statistics"
-LABEL org.opencontainers.image.created="2024-12-17T15:56:19Z"
+LABEL org.opencontainers.image.created="2024-12-18T13:03:27Z"
 LABEL org.opencontainers.image.source="https://github.com/viash-hub/htrnaseq"
-LABEL org.opencontainers.image.revision="da935587f3496228b8486d1cce6f368a28eb8443"
+LABEL org.opencontainers.image.revision="f6cf9bf06a6b2ff974abc1a20c6fcd4cd413a582"
 LABEL org.opencontainers.image.version="main"
 
 VIASHDOCKER
diff --git a/target/executable/stats/generate_well_statistics/.config.vsh.yaml b/target/executable/stats/generate_well_statistics/.config.vsh.yaml
index 8606bd90..72136dd0 100644
--- a/target/executable/stats/generate_well_statistics/.config.vsh.yaml
+++ b/target/executable/stats/generate_well_statistics/.config.vsh.yaml
@@ -262,8 +262,8 @@ build_info:
   output: "target/executable/stats/generate_well_statistics"
   executable: "target/executable/stats/generate_well_statistics/generate_well_statistics"
   viash_version: "0.9.0"
-  git_commit: "da935587f3496228b8486d1cce6f368a28eb8443"
-  git_remote: "https://x-access-token:ghs_oGmMqoqpugW8Vx1b40vPl2y04BQppa1bMrOI@github.com/viash-hub/htrnaseq"
+  git_commit: "f6cf9bf06a6b2ff974abc1a20c6fcd4cd413a582"
+  git_remote: "https://x-access-token:ghs_RDdNKgc3SasBNW6yAiKUCtvC07L9Tt3Ov5Cj@github.com/viash-hub/htrnaseq"
 package_config:
   name: "htrnaseq"
   version: "main"
diff --git a/target/executable/stats/generate_well_statistics/generate_well_statistics b/target/executable/stats/generate_well_statistics/generate_well_statistics
index b3f876a0..8c4750af 100755
--- a/target/executable/stats/generate_well_statistics/generate_well_statistics
+++ b/target/executable/stats/generate_well_statistics/generate_well_statistics
@@ -520,9 +520,9 @@ RUN pip install --upgrade pip && \
 
 LABEL org.opencontainers.image.authors="Dries Schaumont, Marijke Van Moerbeke"
 LABEL org.opencontainers.image.description="Companion container for running component stats generate_well_statistics"
-LABEL org.opencontainers.image.created="2024-12-17T15:56:20Z"
+LABEL org.opencontainers.image.created="2024-12-18T13:03:28Z"
 LABEL org.opencontainers.image.source="https://github.com/viash-hub/htrnaseq"
-LABEL org.opencontainers.image.revision="da935587f3496228b8486d1cce6f368a28eb8443"
+LABEL org.opencontainers.image.revision="f6cf9bf06a6b2ff974abc1a20c6fcd4cd413a582"
 LABEL org.opencontainers.image.version="main"
 
 VIASHDOCKER
diff --git a/target/nextflow/eset/create_eset/.config.vsh.yaml b/target/nextflow/eset/create_eset/.config.vsh.yaml
index d7cfe653..4dffba89 100644
--- a/target/nextflow/eset/create_eset/.config.vsh.yaml
+++ b/target/nextflow/eset/create_eset/.config.vsh.yaml
@@ -220,8 +220,8 @@ build_info:
   output: "target/nextflow/eset/create_eset"
   executable: "target/nextflow/eset/create_eset/main.nf"
   viash_version: "0.9.0"
-  git_commit: "da935587f3496228b8486d1cce6f368a28eb8443"
-  git_remote: "https://x-access-token:ghs_oGmMqoqpugW8Vx1b40vPl2y04BQppa1bMrOI@github.com/viash-hub/htrnaseq"
+  git_commit: "f6cf9bf06a6b2ff974abc1a20c6fcd4cd413a582"
+  git_remote: "https://x-access-token:ghs_RDdNKgc3SasBNW6yAiKUCtvC07L9Tt3Ov5Cj@github.com/viash-hub/htrnaseq"
 package_config:
   name: "htrnaseq"
   version: "main"
diff --git a/target/nextflow/eset/create_eset/main.nf b/target/nextflow/eset/create_eset/main.nf
index 9bf5b631..842edd2a 100644
--- a/target/nextflow/eset/create_eset/main.nf
+++ b/target/nextflow/eset/create_eset/main.nf
@@ -3090,8 +3090,8 @@ meta = [
     "engine" : "docker|native",
     "output" : "target/nextflow/eset/create_eset",
     "viash_version" : "0.9.0",
-    "git_commit" : "da935587f3496228b8486d1cce6f368a28eb8443",
-    "git_remote" : "https://x-access-token:ghs_oGmMqoqpugW8Vx1b40vPl2y04BQppa1bMrOI@github.com/viash-hub/htrnaseq"
+    "git_commit" : "f6cf9bf06a6b2ff974abc1a20c6fcd4cd413a582",
+    "git_remote" : "https://x-access-token:ghs_RDdNKgc3SasBNW6yAiKUCtvC07L9Tt3Ov5Cj@github.com/viash-hub/htrnaseq"
   },
   "package_config" : {
     "name" : "htrnaseq",
diff --git a/target/nextflow/eset/create_fdata/.config.vsh.yaml b/target/nextflow/eset/create_fdata/.config.vsh.yaml
index 35c044f4..2b0a360b 100644
--- a/target/nextflow/eset/create_fdata/.config.vsh.yaml
+++ b/target/nextflow/eset/create_fdata/.config.vsh.yaml
@@ -177,8 +177,8 @@ build_info:
   output: "target/nextflow/eset/create_fdata"
   executable: "target/nextflow/eset/create_fdata/main.nf"
   viash_version: "0.9.0"
-  git_commit: "da935587f3496228b8486d1cce6f368a28eb8443"
-  git_remote: "https://x-access-token:ghs_oGmMqoqpugW8Vx1b40vPl2y04BQppa1bMrOI@github.com/viash-hub/htrnaseq"
+  git_commit: "f6cf9bf06a6b2ff974abc1a20c6fcd4cd413a582"
+  git_remote: "https://x-access-token:ghs_RDdNKgc3SasBNW6yAiKUCtvC07L9Tt3Ov5Cj@github.com/viash-hub/htrnaseq"
 package_config:
   name: "htrnaseq"
   version: "main"
diff --git a/target/nextflow/eset/create_fdata/main.nf b/target/nextflow/eset/create_fdata/main.nf
index b259c5c9..b98763f5 100644
--- a/target/nextflow/eset/create_fdata/main.nf
+++ b/target/nextflow/eset/create_fdata/main.nf
@@ -3044,8 +3044,8 @@ meta = [
     "engine" : "docker|native",
     "output" : "target/nextflow/eset/create_fdata",
     "viash_version" : "0.9.0",
-    "git_commit" : "da935587f3496228b8486d1cce6f368a28eb8443",
-    "git_remote" : "https://x-access-token:ghs_oGmMqoqpugW8Vx1b40vPl2y04BQppa1bMrOI@github.com/viash-hub/htrnaseq"
+    "git_commit" : "f6cf9bf06a6b2ff974abc1a20c6fcd4cd413a582",
+    "git_remote" : "https://x-access-token:ghs_RDdNKgc3SasBNW6yAiKUCtvC07L9Tt3Ov5Cj@github.com/viash-hub/htrnaseq"
   },
   "package_config" : {
     "name" : "htrnaseq",
diff --git a/target/nextflow/eset/create_pdata/.config.vsh.yaml b/target/nextflow/eset/create_pdata/.config.vsh.yaml
index a729ced5..40df67c5 100644
--- a/target/nextflow/eset/create_pdata/.config.vsh.yaml
+++ b/target/nextflow/eset/create_pdata/.config.vsh.yaml
@@ -191,8 +191,8 @@ build_info:
   output: "target/nextflow/eset/create_pdata"
   executable: "target/nextflow/eset/create_pdata/main.nf"
   viash_version: "0.9.0"
-  git_commit: "da935587f3496228b8486d1cce6f368a28eb8443"
-  git_remote: "https://x-access-token:ghs_oGmMqoqpugW8Vx1b40vPl2y04BQppa1bMrOI@github.com/viash-hub/htrnaseq"
+  git_commit: "f6cf9bf06a6b2ff974abc1a20c6fcd4cd413a582"
+  git_remote: "https://x-access-token:ghs_RDdNKgc3SasBNW6yAiKUCtvC07L9Tt3Ov5Cj@github.com/viash-hub/htrnaseq"
 package_config:
   name: "htrnaseq"
   version: "main"
diff --git a/target/nextflow/eset/create_pdata/main.nf b/target/nextflow/eset/create_pdata/main.nf
index fd8f9128..89b15fa0 100644
--- a/target/nextflow/eset/create_pdata/main.nf
+++ b/target/nextflow/eset/create_pdata/main.nf
@@ -3058,8 +3058,8 @@ meta = [
     "engine" : "docker|native",
     "output" : "target/nextflow/eset/create_pdata",
     "viash_version" : "0.9.0",
-    "git_commit" : "da935587f3496228b8486d1cce6f368a28eb8443",
-    "git_remote" : "https://x-access-token:ghs_oGmMqoqpugW8Vx1b40vPl2y04BQppa1bMrOI@github.com/viash-hub/htrnaseq"
+    "git_commit" : "f6cf9bf06a6b2ff974abc1a20c6fcd4cd413a582",
+    "git_remote" : "https://x-access-token:ghs_RDdNKgc3SasBNW6yAiKUCtvC07L9Tt3Ov5Cj@github.com/viash-hub/htrnaseq"
   },
   "package_config" : {
     "name" : "htrnaseq",
diff --git a/target/nextflow/integration_test_components/htrnaseq/check_eset/.config.vsh.yaml b/target/nextflow/integration_test_components/htrnaseq/check_eset/.config.vsh.yaml
index 1194442c..482b9093 100644
--- a/target/nextflow/integration_test_components/htrnaseq/check_eset/.config.vsh.yaml
+++ b/target/nextflow/integration_test_components/htrnaseq/check_eset/.config.vsh.yaml
@@ -148,8 +148,8 @@ build_info:
   output: "target/nextflow/integration_test_components/htrnaseq/check_eset"
   executable: "target/nextflow/integration_test_components/htrnaseq/check_eset/main.nf"
   viash_version: "0.9.0"
-  git_commit: "da935587f3496228b8486d1cce6f368a28eb8443"
-  git_remote: "https://x-access-token:ghs_oGmMqoqpugW8Vx1b40vPl2y04BQppa1bMrOI@github.com/viash-hub/htrnaseq"
+  git_commit: "f6cf9bf06a6b2ff974abc1a20c6fcd4cd413a582"
+  git_remote: "https://x-access-token:ghs_RDdNKgc3SasBNW6yAiKUCtvC07L9Tt3Ov5Cj@github.com/viash-hub/htrnaseq"
 package_config:
   name: "htrnaseq"
   version: "main"
diff --git a/target/nextflow/integration_test_components/htrnaseq/check_eset/main.nf b/target/nextflow/integration_test_components/htrnaseq/check_eset/main.nf
index 46b0fbca..e7159512 100644
--- a/target/nextflow/integration_test_components/htrnaseq/check_eset/main.nf
+++ b/target/nextflow/integration_test_components/htrnaseq/check_eset/main.nf
@@ -2997,8 +2997,8 @@ meta = [
     "engine" : "docker|native",
     "output" : "target/nextflow/integration_test_components/htrnaseq/check_eset",
     "viash_version" : "0.9.0",
-    "git_commit" : "da935587f3496228b8486d1cce6f368a28eb8443",
-    "git_remote" : "https://x-access-token:ghs_oGmMqoqpugW8Vx1b40vPl2y04BQppa1bMrOI@github.com/viash-hub/htrnaseq"
+    "git_commit" : "f6cf9bf06a6b2ff974abc1a20c6fcd4cd413a582",
+    "git_remote" : "https://x-access-token:ghs_RDdNKgc3SasBNW6yAiKUCtvC07L9Tt3Ov5Cj@github.com/viash-hub/htrnaseq"
   },
   "package_config" : {
     "name" : "htrnaseq",
diff --git a/target/nextflow/parallel_map/.config.vsh.yaml b/target/nextflow/parallel_map/.config.vsh.yaml
index f6dfc486..0fd8f0cb 100644
--- a/target/nextflow/parallel_map/.config.vsh.yaml
+++ b/target/nextflow/parallel_map/.config.vsh.yaml
@@ -264,8 +264,8 @@ build_info:
   output: "target/nextflow/parallel_map"
   executable: "target/nextflow/parallel_map/main.nf"
   viash_version: "0.9.0"
-  git_commit: "da935587f3496228b8486d1cce6f368a28eb8443"
-  git_remote: "https://x-access-token:ghs_oGmMqoqpugW8Vx1b40vPl2y04BQppa1bMrOI@github.com/viash-hub/htrnaseq"
+  git_commit: "f6cf9bf06a6b2ff974abc1a20c6fcd4cd413a582"
+  git_remote: "https://x-access-token:ghs_RDdNKgc3SasBNW6yAiKUCtvC07L9Tt3Ov5Cj@github.com/viash-hub/htrnaseq"
 package_config:
   name: "htrnaseq"
   version: "main"
diff --git a/target/nextflow/parallel_map/main.nf b/target/nextflow/parallel_map/main.nf
index 63f8b6c8..e642bd19 100644
--- a/target/nextflow/parallel_map/main.nf
+++ b/target/nextflow/parallel_map/main.nf
@@ -3148,8 +3148,8 @@ meta = [
     "engine" : "docker|native",
     "output" : "target/nextflow/parallel_map",
     "viash_version" : "0.9.0",
-    "git_commit" : "da935587f3496228b8486d1cce6f368a28eb8443",
-    "git_remote" : "https://x-access-token:ghs_oGmMqoqpugW8Vx1b40vPl2y04BQppa1bMrOI@github.com/viash-hub/htrnaseq"
+    "git_commit" : "f6cf9bf06a6b2ff974abc1a20c6fcd4cd413a582",
+    "git_remote" : "https://x-access-token:ghs_RDdNKgc3SasBNW6yAiKUCtvC07L9Tt3Ov5Cj@github.com/viash-hub/htrnaseq"
   },
   "package_config" : {
     "name" : "htrnaseq",
diff --git a/target/nextflow/report/create_report/.config.vsh.yaml b/target/nextflow/report/create_report/.config.vsh.yaml
index cb62abc5..0c36a499 100644
--- a/target/nextflow/report/create_report/.config.vsh.yaml
+++ b/target/nextflow/report/create_report/.config.vsh.yaml
@@ -201,8 +201,8 @@ build_info:
   output: "target/nextflow/report/create_report"
   executable: "target/nextflow/report/create_report/main.nf"
   viash_version: "0.9.0"
-  git_commit: "da935587f3496228b8486d1cce6f368a28eb8443"
-  git_remote: "https://x-access-token:ghs_oGmMqoqpugW8Vx1b40vPl2y04BQppa1bMrOI@github.com/viash-hub/htrnaseq"
+  git_commit: "f6cf9bf06a6b2ff974abc1a20c6fcd4cd413a582"
+  git_remote: "https://x-access-token:ghs_RDdNKgc3SasBNW6yAiKUCtvC07L9Tt3Ov5Cj@github.com/viash-hub/htrnaseq"
 package_config:
   name: "htrnaseq"
   version: "main"
diff --git a/target/nextflow/report/create_report/main.nf b/target/nextflow/report/create_report/main.nf
index 92553f35..2920ee85 100644
--- a/target/nextflow/report/create_report/main.nf
+++ b/target/nextflow/report/create_report/main.nf
@@ -3077,8 +3077,8 @@ meta = [
     "engine" : "docker|native",
     "output" : "target/nextflow/report/create_report",
     "viash_version" : "0.9.0",
-    "git_commit" : "da935587f3496228b8486d1cce6f368a28eb8443",
-    "git_remote" : "https://x-access-token:ghs_oGmMqoqpugW8Vx1b40vPl2y04BQppa1bMrOI@github.com/viash-hub/htrnaseq"
+    "git_commit" : "f6cf9bf06a6b2ff974abc1a20c6fcd4cd413a582",
+    "git_remote" : "https://x-access-token:ghs_RDdNKgc3SasBNW6yAiKUCtvC07L9Tt3Ov5Cj@github.com/viash-hub/htrnaseq"
   },
   "package_config" : {
     "name" : "htrnaseq",
diff --git a/target/nextflow/stats/combine_star_logs/.config.vsh.yaml b/target/nextflow/stats/combine_star_logs/.config.vsh.yaml
index 797deb41..2d51d9c3 100644
--- a/target/nextflow/stats/combine_star_logs/.config.vsh.yaml
+++ b/target/nextflow/stats/combine_star_logs/.config.vsh.yaml
@@ -198,8 +198,8 @@ build_info:
   output: "target/nextflow/stats/combine_star_logs"
   executable: "target/nextflow/stats/combine_star_logs/main.nf"
   viash_version: "0.9.0"
-  git_commit: "da935587f3496228b8486d1cce6f368a28eb8443"
-  git_remote: "https://x-access-token:ghs_oGmMqoqpugW8Vx1b40vPl2y04BQppa1bMrOI@github.com/viash-hub/htrnaseq"
+  git_commit: "f6cf9bf06a6b2ff974abc1a20c6fcd4cd413a582"
+  git_remote: "https://x-access-token:ghs_RDdNKgc3SasBNW6yAiKUCtvC07L9Tt3Ov5Cj@github.com/viash-hub/htrnaseq"
 package_config:
   name: "htrnaseq"
   version: "main"
diff --git a/target/nextflow/stats/combine_star_logs/main.nf b/target/nextflow/stats/combine_star_logs/main.nf
index fb84497f..07526b99 100644
--- a/target/nextflow/stats/combine_star_logs/main.nf
+++ b/target/nextflow/stats/combine_star_logs/main.nf
@@ -3060,8 +3060,8 @@ meta = [
     "engine" : "docker|native",
     "output" : "target/nextflow/stats/combine_star_logs",
     "viash_version" : "0.9.0",
-    "git_commit" : "da935587f3496228b8486d1cce6f368a28eb8443",
-    "git_remote" : "https://x-access-token:ghs_oGmMqoqpugW8Vx1b40vPl2y04BQppa1bMrOI@github.com/viash-hub/htrnaseq"
+    "git_commit" : "f6cf9bf06a6b2ff974abc1a20c6fcd4cd413a582",
+    "git_remote" : "https://x-access-token:ghs_RDdNKgc3SasBNW6yAiKUCtvC07L9Tt3Ov5Cj@github.com/viash-hub/htrnaseq"
   },
   "package_config" : {
     "name" : "htrnaseq",
diff --git a/target/nextflow/stats/generate_pool_statistics/.config.vsh.yaml b/target/nextflow/stats/generate_pool_statistics/.config.vsh.yaml
index 6c3aa306..d867d614 100644
--- a/target/nextflow/stats/generate_pool_statistics/.config.vsh.yaml
+++ b/target/nextflow/stats/generate_pool_statistics/.config.vsh.yaml
@@ -182,8 +182,8 @@ build_info:
   output: "target/nextflow/stats/generate_pool_statistics"
   executable: "target/nextflow/stats/generate_pool_statistics/main.nf"
   viash_version: "0.9.0"
-  git_commit: "da935587f3496228b8486d1cce6f368a28eb8443"
-  git_remote: "https://x-access-token:ghs_oGmMqoqpugW8Vx1b40vPl2y04BQppa1bMrOI@github.com/viash-hub/htrnaseq"
+  git_commit: "f6cf9bf06a6b2ff974abc1a20c6fcd4cd413a582"
+  git_remote: "https://x-access-token:ghs_RDdNKgc3SasBNW6yAiKUCtvC07L9Tt3Ov5Cj@github.com/viash-hub/htrnaseq"
 package_config:
   name: "htrnaseq"
   version: "main"
diff --git a/target/nextflow/stats/generate_pool_statistics/main.nf b/target/nextflow/stats/generate_pool_statistics/main.nf
index 7018d65d..e99ecd63 100644
--- a/target/nextflow/stats/generate_pool_statistics/main.nf
+++ b/target/nextflow/stats/generate_pool_statistics/main.nf
@@ -3044,8 +3044,8 @@ meta = [
     "engine" : "docker|native",
     "output" : "target/nextflow/stats/generate_pool_statistics",
     "viash_version" : "0.9.0",
-    "git_commit" : "da935587f3496228b8486d1cce6f368a28eb8443",
-    "git_remote" : "https://x-access-token:ghs_oGmMqoqpugW8Vx1b40vPl2y04BQppa1bMrOI@github.com/viash-hub/htrnaseq"
+    "git_commit" : "f6cf9bf06a6b2ff974abc1a20c6fcd4cd413a582",
+    "git_remote" : "https://x-access-token:ghs_RDdNKgc3SasBNW6yAiKUCtvC07L9Tt3Ov5Cj@github.com/viash-hub/htrnaseq"
   },
   "package_config" : {
     "name" : "htrnaseq",
diff --git a/target/nextflow/stats/generate_well_statistics/.config.vsh.yaml b/target/nextflow/stats/generate_well_statistics/.config.vsh.yaml
index da719ada..8a624a89 100644
--- a/target/nextflow/stats/generate_well_statistics/.config.vsh.yaml
+++ b/target/nextflow/stats/generate_well_statistics/.config.vsh.yaml
@@ -262,8 +262,8 @@ build_info:
   output: "target/nextflow/stats/generate_well_statistics"
   executable: "target/nextflow/stats/generate_well_statistics/main.nf"
   viash_version: "0.9.0"
-  git_commit: "da935587f3496228b8486d1cce6f368a28eb8443"
-  git_remote: "https://x-access-token:ghs_oGmMqoqpugW8Vx1b40vPl2y04BQppa1bMrOI@github.com/viash-hub/htrnaseq"
+  git_commit: "f6cf9bf06a6b2ff974abc1a20c6fcd4cd413a582"
+  git_remote: "https://x-access-token:ghs_RDdNKgc3SasBNW6yAiKUCtvC07L9Tt3Ov5Cj@github.com/viash-hub/htrnaseq"
 package_config:
   name: "htrnaseq"
   version: "main"
diff --git a/target/nextflow/stats/generate_well_statistics/main.nf b/target/nextflow/stats/generate_well_statistics/main.nf
index d9b7c7ab..4972db54 100644
--- a/target/nextflow/stats/generate_well_statistics/main.nf
+++ b/target/nextflow/stats/generate_well_statistics/main.nf
@@ -3135,8 +3135,8 @@ meta = [
     "engine" : "docker|native",
     "output" : "target/nextflow/stats/generate_well_statistics",
     "viash_version" : "0.9.0",
-    "git_commit" : "da935587f3496228b8486d1cce6f368a28eb8443",
-    "git_remote" : "https://x-access-token:ghs_oGmMqoqpugW8Vx1b40vPl2y04BQppa1bMrOI@github.com/viash-hub/htrnaseq"
+    "git_commit" : "f6cf9bf06a6b2ff974abc1a20c6fcd4cd413a582",
+    "git_remote" : "https://x-access-token:ghs_RDdNKgc3SasBNW6yAiKUCtvC07L9Tt3Ov5Cj@github.com/viash-hub/htrnaseq"
   },
   "package_config" : {
     "name" : "htrnaseq",
diff --git a/target/nextflow/workflows/htrnaseq/.config.vsh.yaml b/target/nextflow/workflows/htrnaseq/.config.vsh.yaml
index e5aed4c2..122771e7 100644
--- a/target/nextflow/workflows/htrnaseq/.config.vsh.yaml
+++ b/target/nextflow/workflows/htrnaseq/.config.vsh.yaml
@@ -308,8 +308,8 @@ build_info:
   output: "target/nextflow/workflows/htrnaseq"
   executable: "target/nextflow/workflows/htrnaseq/main.nf"
   viash_version: "0.9.0"
-  git_commit: "da935587f3496228b8486d1cce6f368a28eb8443"
-  git_remote: "https://x-access-token:ghs_oGmMqoqpugW8Vx1b40vPl2y04BQppa1bMrOI@github.com/viash-hub/htrnaseq"
+  git_commit: "f6cf9bf06a6b2ff974abc1a20c6fcd4cd413a582"
+  git_remote: "https://x-access-token:ghs_RDdNKgc3SasBNW6yAiKUCtvC07L9Tt3Ov5Cj@github.com/viash-hub/htrnaseq"
   dependencies:
   - "target/nextflow/stats/combine_star_logs"
   - "target/nextflow/stats/generate_pool_statistics"
diff --git a/target/nextflow/workflows/htrnaseq/main.nf b/target/nextflow/workflows/htrnaseq/main.nf
index c329d618..6c41dbd1 100644
--- a/target/nextflow/workflows/htrnaseq/main.nf
+++ b/target/nextflow/workflows/htrnaseq/main.nf
@@ -3210,8 +3210,8 @@ meta = [
     "engine" : "native|native",
     "output" : "target/nextflow/workflows/htrnaseq",
     "viash_version" : "0.9.0",
-    "git_commit" : "da935587f3496228b8486d1cce6f368a28eb8443",
-    "git_remote" : "https://x-access-token:ghs_oGmMqoqpugW8Vx1b40vPl2y04BQppa1bMrOI@github.com/viash-hub/htrnaseq"
+    "git_commit" : "f6cf9bf06a6b2ff974abc1a20c6fcd4cd413a582",
+    "git_remote" : "https://x-access-token:ghs_RDdNKgc3SasBNW6yAiKUCtvC07L9Tt3Ov5Cj@github.com/viash-hub/htrnaseq"
   },
   "package_config" : {
     "name" : "htrnaseq",
diff --git a/target/nextflow/workflows/parallel_map_wf/.config.vsh.yaml b/target/nextflow/workflows/parallel_map_wf/.config.vsh.yaml
index 58b572fc..2fe8aee5 100644
--- a/target/nextflow/workflows/parallel_map_wf/.config.vsh.yaml
+++ b/target/nextflow/workflows/parallel_map_wf/.config.vsh.yaml
@@ -175,8 +175,8 @@ build_info:
   output: "target/nextflow/workflows/parallel_map_wf"
   executable: "target/nextflow/workflows/parallel_map_wf/main.nf"
   viash_version: "0.9.0"
-  git_commit: "da935587f3496228b8486d1cce6f368a28eb8443"
-  git_remote: "https://x-access-token:ghs_oGmMqoqpugW8Vx1b40vPl2y04BQppa1bMrOI@github.com/viash-hub/htrnaseq"
+  git_commit: "f6cf9bf06a6b2ff974abc1a20c6fcd4cd413a582"
+  git_remote: "https://x-access-token:ghs_RDdNKgc3SasBNW6yAiKUCtvC07L9Tt3Ov5Cj@github.com/viash-hub/htrnaseq"
   dependencies:
   - "target/nextflow/parallel_map"
   - "target/nextflow/workflows/utils/groupWells"
diff --git a/target/nextflow/workflows/parallel_map_wf/main.nf b/target/nextflow/workflows/parallel_map_wf/main.nf
index 298eae30..0601cbe3 100644
--- a/target/nextflow/workflows/parallel_map_wf/main.nf
+++ b/target/nextflow/workflows/parallel_map_wf/main.nf
@@ -3028,8 +3028,8 @@ meta = [
     "engine" : "native|native",
     "output" : "target/nextflow/workflows/parallel_map_wf",
     "viash_version" : "0.9.0",
-    "git_commit" : "da935587f3496228b8486d1cce6f368a28eb8443",
-    "git_remote" : "https://x-access-token:ghs_oGmMqoqpugW8Vx1b40vPl2y04BQppa1bMrOI@github.com/viash-hub/htrnaseq"
+    "git_commit" : "f6cf9bf06a6b2ff974abc1a20c6fcd4cd413a582",
+    "git_remote" : "https://x-access-token:ghs_RDdNKgc3SasBNW6yAiKUCtvC07L9Tt3Ov5Cj@github.com/viash-hub/htrnaseq"
   },
   "package_config" : {
     "name" : "htrnaseq",
diff --git a/target/nextflow/workflows/utils/groupWells/.config.vsh.yaml b/target/nextflow/workflows/utils/groupWells/.config.vsh.yaml
index 365dfbab..6aad71fe 100644
--- a/target/nextflow/workflows/utils/groupWells/.config.vsh.yaml
+++ b/target/nextflow/workflows/utils/groupWells/.config.vsh.yaml
@@ -185,8 +185,8 @@ build_info:
   output: "target/nextflow/workflows/utils/groupWells"
   executable: "target/nextflow/workflows/utils/groupWells/main.nf"
   viash_version: "0.9.0"
-  git_commit: "da935587f3496228b8486d1cce6f368a28eb8443"
-  git_remote: "https://x-access-token:ghs_oGmMqoqpugW8Vx1b40vPl2y04BQppa1bMrOI@github.com/viash-hub/htrnaseq"
+  git_commit: "f6cf9bf06a6b2ff974abc1a20c6fcd4cd413a582"
+  git_remote: "https://x-access-token:ghs_RDdNKgc3SasBNW6yAiKUCtvC07L9Tt3Ov5Cj@github.com/viash-hub/htrnaseq"
 package_config:
   name: "htrnaseq"
   version: "main"
diff --git a/target/nextflow/workflows/utils/groupWells/main.nf b/target/nextflow/workflows/utils/groupWells/main.nf
index 1dca20b7..d572e9fa 100644
--- a/target/nextflow/workflows/utils/groupWells/main.nf
+++ b/target/nextflow/workflows/utils/groupWells/main.nf
@@ -3039,8 +3039,8 @@ meta = [
     "engine" : "native",
     "output" : "target/nextflow/workflows/utils/groupWells",
     "viash_version" : "0.9.0",
-    "git_commit" : "da935587f3496228b8486d1cce6f368a28eb8443",
-    "git_remote" : "https://x-access-token:ghs_oGmMqoqpugW8Vx1b40vPl2y04BQppa1bMrOI@github.com/viash-hub/htrnaseq"
+    "git_commit" : "f6cf9bf06a6b2ff974abc1a20c6fcd4cd413a582",
+    "git_remote" : "https://x-access-token:ghs_RDdNKgc3SasBNW6yAiKUCtvC07L9Tt3Ov5Cj@github.com/viash-hub/htrnaseq"
   },
   "package_config" : {
     "name" : "htrnaseq",
diff --git a/target/nextflow/workflows/well_demultiplex/.config.vsh.yaml b/target/nextflow/workflows/well_demultiplex/.config.vsh.yaml
index 06af6272..f081ccd3 100644
--- a/target/nextflow/workflows/well_demultiplex/.config.vsh.yaml
+++ b/target/nextflow/workflows/well_demultiplex/.config.vsh.yaml
@@ -161,7 +161,7 @@ dependencies:
   repository:
     type: "vsh"
     repo: "biobox"
-    tag: "main"
+    tag: "v0.2.0"
 - name: "concat_text"
   repository:
     type: "vsh"
@@ -171,7 +171,7 @@ repositories:
 - type: "vsh"
   name: "bb"
   repo: "biobox"
-  tag: "main"
+  tag: "v0.2.0"
 - type: "vsh"
   name: "cb"
   repo: "craftbox"
@@ -255,10 +255,10 @@ build_info:
   output: "target/nextflow/workflows/well_demultiplex"
   executable: "target/nextflow/workflows/well_demultiplex/main.nf"
   viash_version: "0.9.0"
-  git_commit: "da935587f3496228b8486d1cce6f368a28eb8443"
-  git_remote: "https://x-access-token:ghs_oGmMqoqpugW8Vx1b40vPl2y04BQppa1bMrOI@github.com/viash-hub/htrnaseq"
+  git_commit: "f6cf9bf06a6b2ff974abc1a20c6fcd4cd413a582"
+  git_remote: "https://x-access-token:ghs_RDdNKgc3SasBNW6yAiKUCtvC07L9Tt3Ov5Cj@github.com/viash-hub/htrnaseq"
   dependencies:
-  - "target/dependencies/vsh/vsh/biobox/main/nextflow/cutadapt"
+  - "target/dependencies/vsh/vsh/biobox/v0.2.0/nextflow/cutadapt"
   - "target/dependencies/vsh/vsh/craftbox/v0.1.0/nextflow/concat_text"
 package_config:
   name: "htrnaseq"
diff --git a/target/nextflow/workflows/well_demultiplex/main.nf b/target/nextflow/workflows/well_demultiplex/main.nf
index 38582057..51642b70 100644
--- a/target/nextflow/workflows/well_demultiplex/main.nf
+++ b/target/nextflow/workflows/well_demultiplex/main.nf
@@ -3016,7 +3016,7 @@ meta = [
       "repository" : {
         "type" : "vsh",
         "repo" : "biobox",
-        "tag" : "main"
+        "tag" : "v0.2.0"
       }
     },
     {
@@ -3033,7 +3033,7 @@ meta = [
       "type" : "vsh",
       "name" : "bb",
       "repo" : "biobox",
-      "tag" : "main"
+      "tag" : "v0.2.0"
     },
     {
       "type" : "vsh",
@@ -3134,8 +3134,8 @@ meta = [
     "engine" : "native|native",
     "output" : "target/nextflow/workflows/well_demultiplex",
     "viash_version" : "0.9.0",
-    "git_commit" : "da935587f3496228b8486d1cce6f368a28eb8443",
-    "git_remote" : "https://x-access-token:ghs_oGmMqoqpugW8Vx1b40vPl2y04BQppa1bMrOI@github.com/viash-hub/htrnaseq"
+    "git_commit" : "f6cf9bf06a6b2ff974abc1a20c6fcd4cd413a582",
+    "git_remote" : "https://x-access-token:ghs_RDdNKgc3SasBNW6yAiKUCtvC07L9Tt3Ov5Cj@github.com/viash-hub/htrnaseq"
   },
   "package_config" : {
     "name" : "htrnaseq",
@@ -3178,7 +3178,7 @@ meta = [
 
 // resolve dependencies dependencies (if any)
 meta["root_dir"] = getRootDir()
-include { cutadapt } from "${meta.root_dir}/dependencies/vsh/vsh/biobox/main/nextflow/cutadapt/main.nf"
+include { cutadapt } from "${meta.root_dir}/dependencies/vsh/vsh/biobox/v0.2.0/nextflow/cutadapt/main.nf"
 include { concat_text } from "${meta.root_dir}/dependencies/vsh/vsh/craftbox/v0.1.0/nextflow/concat_text/main.nf"
 
 // inner workflow