Build branch htrnaseq/v0.12 with version v0.12.2 to htrnaseq on branch v0.12 (f0f85f5)

Build pipeline: viash-hub.htrnaseq.v0.12-j94lf Source commit: f0f85f5774 Source message: Bump version to v0.12.2
2025-09-23 13:05:57 +00:00
parent e6c08d3edf
commit 050b56eea2
118 changed files with 426 additions and 420 deletions
--- a/target/executable/eset/create_eset/.config.vsh.yaml
+++ b/target/executable/eset/create_eset/.config.vsh.yaml
@@ -1,6 +1,6 @@
 name: "create_eset"
 namespace: "eset"
-version: "v0.12.1"
+version: "v0.12.2"
 authors:
 - name: "Dries Schaumont"
  roles:
@@ -178,7 +178,7 @@ engines:
  id: "docker"
  image: "rocker/r2u:24.04"
  target_registry: "images.viash-hub.com"
-  target_tag: "v0.12.1"
+  target_tag: "v0.12.2"
  namespace_separator: "/"
  setup:
  - type: "r"
@@ -206,11 +206,11 @@ build_info:
  output: "target/executable/eset/create_eset"
  executable: "target/executable/eset/create_eset/create_eset"
  viash_version: "0.9.4"
-  git_commit: "32476d30426827c70014658cf0746ffcf55be62c"
+  git_commit: "f0f85f57744b71e17ee3c0afe1a221cd20903aef"
  git_remote: "https://github.com/viash-hub/htrnaseq"
 package_config:
  name: "htrnaseq"
-  version: "v0.12.1"
+  version: "v0.12.2"
  summary: "A workflow for high-throughput RNA-seq data analyses.\n"
  description: "This workflow is designed to process high-throughput RNA-seq data,\
    \ where every\nwell of a microarray plate is a sample. A fasta file provided as\
@@ -242,7 +242,7 @@ package_config:
    \ '_viash.yaml'}\n"
  - ".engines += { type: \"native\" }"
  - ".engines[.type == 'docker'].target_registry := 'images.viash-hub.com'"
-  - ".engines[.type == 'docker'].target_tag := 'v0.12.1'"
+  - ".engines[.type == 'docker'].target_tag := 'v0.12.2'"
  keywords:
  - "bioinformatics"
  - "sequencing"
--- a/target/executable/eset/create_eset/_viash.yaml
+++ b/target/executable/eset/create_eset/_viash.yaml
@@ -1,5 +1,5 @@
 name: htrnaseq
-version: v0.12.1
+version: v0.12.2
 summary: |
  A workflow for high-throughput RNA-seq data analyses.
 description: "This workflow is designed to process high-throughput RNA-seq data, where every\nwell of a microarray plate is a sample. A fasta file provided as input\ndefines the mapping between sample barcodes and wells.\n\nThe workflow is built in a modular fashion, where most of the base functionality\nis provided by components from [`biobox`](https://www.viash-hub.com/packages/biobox/latest)\nsupplemented by custom base components and workflow components in this package.\n\nThe full workflow is split in two major subworkflows that can be run independently:\n\n* **Well-demultiplexing:** Split the input (plate/pool level) fastq files per well.\n* **Mapping, counting and QC:** Run per-well mapping, counting and generate QC reports.\n\nEach of those can be started individually, or the full workflow can be run in two ways:\n\n1. Run the [main workflow](https://www.viash-hub.com/packages/htrnaseq/v0.3.0/components/workflows/htrnaseq) \ncontaining the main functionality.\n2. Run the [(opinionated) `runner`](https://www.viash-hub.com/packages/htrnaseq/v0.3.0/components/workflows/runner) where a\nnumber of choices (input/output structure and location) have been made.\n\nInput for the workflow has to be `fastq` files (zipped or not). For bcl or other formats, please consider running\n[demultiplex](https://www.viash-hub.com/packages/demultiplex) first.\n"
--- a/target/executable/eset/create_eset/create_eset
+++ b/target/executable/eset/create_eset/create_eset
@@ -1,6 +1,6 @@
 #!/usr/bin/env bash

-# create_eset v0.12.1
+# create_eset v0.12.2
 # 
 # This wrapper script is auto-generated by viash 0.9.4 and is thus a derivative
 # work thereof. This software comes with ABSOLUTELY NO WARRANTY from Data
@@ -456,10 +456,10 @@ RUN Rscript -e 'options(warn = 2); if (!requireNamespace("remotes", quietly = TR

 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="2025-09-19T07:50:15Z"
+LABEL org.opencontainers.image.created="2025-09-23T12:11:21Z"
 LABEL org.opencontainers.image.source="https://github.com/viash-hub/htrnaseq"
-LABEL org.opencontainers.image.revision="32476d30426827c70014658cf0746ffcf55be62c"
-LABEL org.opencontainers.image.version="v0.12.1"
+LABEL org.opencontainers.image.revision="f0f85f57744b71e17ee3c0afe1a221cd20903aef"
+LABEL org.opencontainers.image.version="v0.12.2"

 VIASHDOCKER
  fi
@@ -576,7 +576,7 @@ VIASH_DOCKER_RUN_ARGS=(-i --rm)

 # ViashHelp: Display helpful explanation about this executable
 function ViashHelp {
-  echo "create_eset v0.12.1"
+  echo "create_eset v0.12.2"
  echo ""
  echo "Arguments:"
  echo "    --pDataFile"
@@ -642,7 +642,7 @@ while [[ $# -gt 0 ]]; do
            shift 1
            ;;
        --version)
-            echo "create_eset v0.12.1"
+            echo "create_eset v0.12.2"
            exit
            ;;
        --pDataFile)
@@ -794,7 +794,7 @@ if [[ "$VIASH_ENGINE_TYPE" == "docker" ]]; then

  # determine docker image id
  if [[ "$VIASH_ENGINE_ID" == 'docker' ]]; then
-    VIASH_DOCKER_IMAGE_ID='images.viash-hub.com/vsh/htrnaseq/eset/create_eset:v0.12.1'
+    VIASH_DOCKER_IMAGE_ID='images.viash-hub.com/vsh/htrnaseq/eset/create_eset:v0.12.2'
  fi

  # print dockerfile
--- a/target/executable/eset/create_fdata/.config.vsh.yaml
+++ b/target/executable/eset/create_fdata/.config.vsh.yaml
@@ -1,6 +1,6 @@
 name: "create_fdata"
 namespace: "eset"
-version: "v0.12.1"
+version: "v0.12.2"
 authors:
 - name: "Dries Schaumont"
  roles:
@@ -154,7 +154,7 @@ engines:
  id: "docker"
  image: "python:3.12-slim"
  target_registry: "images.viash-hub.com"
-  target_tag: "v0.12.1"
+  target_tag: "v0.12.2"
  namespace_separator: "/"
  setup:
  - type: "apt"
@@ -183,11 +183,11 @@ build_info:
  output: "target/executable/eset/create_fdata"
  executable: "target/executable/eset/create_fdata/create_fdata"
  viash_version: "0.9.4"
-  git_commit: "32476d30426827c70014658cf0746ffcf55be62c"
+  git_commit: "f0f85f57744b71e17ee3c0afe1a221cd20903aef"
  git_remote: "https://github.com/viash-hub/htrnaseq"
 package_config:
  name: "htrnaseq"
-  version: "v0.12.1"
+  version: "v0.12.2"
  summary: "A workflow for high-throughput RNA-seq data analyses.\n"
  description: "This workflow is designed to process high-throughput RNA-seq data,\
    \ where every\nwell of a microarray plate is a sample. A fasta file provided as\
@@ -219,7 +219,7 @@ package_config:
    \ '_viash.yaml'}\n"
  - ".engines += { type: \"native\" }"
  - ".engines[.type == 'docker'].target_registry := 'images.viash-hub.com'"
-  - ".engines[.type == 'docker'].target_tag := 'v0.12.1'"
+  - ".engines[.type == 'docker'].target_tag := 'v0.12.2'"
  keywords:
  - "bioinformatics"
  - "sequencing"
--- a/target/executable/eset/create_fdata/_viash.yaml
+++ b/target/executable/eset/create_fdata/_viash.yaml
@@ -1,5 +1,5 @@
 name: htrnaseq
-version: v0.12.1
+version: v0.12.2
 summary: |
  A workflow for high-throughput RNA-seq data analyses.
 description: "This workflow is designed to process high-throughput RNA-seq data, where every\nwell of a microarray plate is a sample. A fasta file provided as input\ndefines the mapping between sample barcodes and wells.\n\nThe workflow is built in a modular fashion, where most of the base functionality\nis provided by components from [`biobox`](https://www.viash-hub.com/packages/biobox/latest)\nsupplemented by custom base components and workflow components in this package.\n\nThe full workflow is split in two major subworkflows that can be run independently:\n\n* **Well-demultiplexing:** Split the input (plate/pool level) fastq files per well.\n* **Mapping, counting and QC:** Run per-well mapping, counting and generate QC reports.\n\nEach of those can be started individually, or the full workflow can be run in two ways:\n\n1. Run the [main workflow](https://www.viash-hub.com/packages/htrnaseq/v0.3.0/components/workflows/htrnaseq) \ncontaining the main functionality.\n2. Run the [(opinionated) `runner`](https://www.viash-hub.com/packages/htrnaseq/v0.3.0/components/workflows/runner) where a\nnumber of choices (input/output structure and location) have been made.\n\nInput for the workflow has to be `fastq` files (zipped or not). For bcl or other formats, please consider running\n[demultiplex](https://www.viash-hub.com/packages/demultiplex) first.\n"
--- a/target/executable/eset/create_fdata/create_fdata
+++ b/target/executable/eset/create_fdata/create_fdata
@@ -1,6 +1,6 @@
 #!/usr/bin/env bash

-# create_fdata v0.12.1
+# create_fdata v0.12.2
 # 
 # This wrapper script is auto-generated by viash 0.9.4 and is thus a derivative
 # work thereof. This software comes with ABSOLUTELY NO WARRANTY from Data
@@ -458,10 +458,10 @@ 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="2025-09-19T07:50:13Z"
+LABEL org.opencontainers.image.created="2025-09-23T12:11:20Z"
 LABEL org.opencontainers.image.source="https://github.com/viash-hub/htrnaseq"
-LABEL org.opencontainers.image.revision="32476d30426827c70014658cf0746ffcf55be62c"
-LABEL org.opencontainers.image.version="v0.12.1"
+LABEL org.opencontainers.image.revision="f0f85f57744b71e17ee3c0afe1a221cd20903aef"
+LABEL org.opencontainers.image.version="v0.12.2"

 VIASHDOCKER
  fi
@@ -578,7 +578,7 @@ VIASH_DOCKER_RUN_ARGS=(-i --rm)

 # ViashHelp: Display helpful explanation about this executable
 function ViashHelp {
-  echo "create_fdata v0.12.1"
+  echo "create_fdata v0.12.2"
  echo ""
  echo "Create a fdata file"
  echo ""
@@ -643,7 +643,7 @@ while [[ $# -gt 0 ]]; do
            shift 1
            ;;
        --version)
-            echo "create_fdata v0.12.1"
+            echo "create_fdata v0.12.2"
            exit
            ;;
        --gtf)
@@ -756,7 +756,7 @@ if [[ "$VIASH_ENGINE_TYPE" == "docker" ]]; then

  # determine docker image id
  if [[ "$VIASH_ENGINE_ID" == 'docker' ]]; then
-    VIASH_DOCKER_IMAGE_ID='images.viash-hub.com/vsh/htrnaseq/eset/create_fdata:v0.12.1'
+    VIASH_DOCKER_IMAGE_ID='images.viash-hub.com/vsh/htrnaseq/eset/create_fdata:v0.12.2'
  fi

  # print dockerfile
--- a/target/executable/eset/create_pdata/.config.vsh.yaml
+++ b/target/executable/eset/create_pdata/.config.vsh.yaml
@@ -1,6 +1,6 @@
 name: "create_pdata"
 namespace: "eset"
-version: "v0.12.1"
+version: "v0.12.2"
 authors:
 - name: "Dries Schaumont"
  roles:
@@ -168,7 +168,7 @@ engines:
  id: "docker"
  image: "python:3.12-slim"
  target_registry: "images.viash-hub.com"
-  target_tag: "v0.12.1"
+  target_tag: "v0.12.2"
  namespace_separator: "/"
  setup:
  - type: "apt"
@@ -197,11 +197,11 @@ build_info:
  output: "target/executable/eset/create_pdata"
  executable: "target/executable/eset/create_pdata/create_pdata"
  viash_version: "0.9.4"
-  git_commit: "32476d30426827c70014658cf0746ffcf55be62c"
+  git_commit: "f0f85f57744b71e17ee3c0afe1a221cd20903aef"
  git_remote: "https://github.com/viash-hub/htrnaseq"
 package_config:
  name: "htrnaseq"
-  version: "v0.12.1"
+  version: "v0.12.2"
  summary: "A workflow for high-throughput RNA-seq data analyses.\n"
  description: "This workflow is designed to process high-throughput RNA-seq data,\
    \ where every\nwell of a microarray plate is a sample. A fasta file provided as\
@@ -233,7 +233,7 @@ package_config:
    \ '_viash.yaml'}\n"
  - ".engines += { type: \"native\" }"
  - ".engines[.type == 'docker'].target_registry := 'images.viash-hub.com'"
-  - ".engines[.type == 'docker'].target_tag := 'v0.12.1'"
+  - ".engines[.type == 'docker'].target_tag := 'v0.12.2'"
  keywords:
  - "bioinformatics"
  - "sequencing"
--- a/target/executable/eset/create_pdata/_viash.yaml
+++ b/target/executable/eset/create_pdata/_viash.yaml
@@ -1,5 +1,5 @@
 name: htrnaseq
-version: v0.12.1
+version: v0.12.2
 summary: |
  A workflow for high-throughput RNA-seq data analyses.
 description: "This workflow is designed to process high-throughput RNA-seq data, where every\nwell of a microarray plate is a sample. A fasta file provided as input\ndefines the mapping between sample barcodes and wells.\n\nThe workflow is built in a modular fashion, where most of the base functionality\nis provided by components from [`biobox`](https://www.viash-hub.com/packages/biobox/latest)\nsupplemented by custom base components and workflow components in this package.\n\nThe full workflow is split in two major subworkflows that can be run independently:\n\n* **Well-demultiplexing:** Split the input (plate/pool level) fastq files per well.\n* **Mapping, counting and QC:** Run per-well mapping, counting and generate QC reports.\n\nEach of those can be started individually, or the full workflow can be run in two ways:\n\n1. Run the [main workflow](https://www.viash-hub.com/packages/htrnaseq/v0.3.0/components/workflows/htrnaseq) \ncontaining the main functionality.\n2. Run the [(opinionated) `runner`](https://www.viash-hub.com/packages/htrnaseq/v0.3.0/components/workflows/runner) where a\nnumber of choices (input/output structure and location) have been made.\n\nInput for the workflow has to be `fastq` files (zipped or not). For bcl or other formats, please consider running\n[demultiplex](https://www.viash-hub.com/packages/demultiplex) first.\n"
--- a/target/executable/eset/create_pdata/create_pdata
+++ b/target/executable/eset/create_pdata/create_pdata
@@ -1,6 +1,6 @@
 #!/usr/bin/env bash

-# create_pdata v0.12.1
+# create_pdata v0.12.2
 # 
 # This wrapper script is auto-generated by viash 0.9.4 and is thus a derivative
 # work thereof. This software comes with ABSOLUTELY NO WARRANTY from Data
@@ -458,10 +458,10 @@ 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="2025-09-19T07:50:13Z"
+LABEL org.opencontainers.image.created="2025-09-23T12:11:19Z"
 LABEL org.opencontainers.image.source="https://github.com/viash-hub/htrnaseq"
-LABEL org.opencontainers.image.revision="32476d30426827c70014658cf0746ffcf55be62c"
-LABEL org.opencontainers.image.version="v0.12.1"
+LABEL org.opencontainers.image.revision="f0f85f57744b71e17ee3c0afe1a221cd20903aef"
+LABEL org.opencontainers.image.version="v0.12.2"

 VIASHDOCKER
  fi
@@ -578,7 +578,7 @@ VIASH_DOCKER_RUN_ARGS=(-i --rm)

 # ViashHelp: Display helpful explanation about this executable
 function ViashHelp {
-  echo "create_pdata v0.12.1"
+  echo "create_pdata v0.12.2"
  echo ""
  echo "Create a pdata file by combining the mapping statistics"
  echo ""
@@ -653,7 +653,7 @@ while [[ $# -gt 0 ]]; do
            shift 1
            ;;
        --version)
-            echo "create_pdata v0.12.1"
+            echo "create_pdata v0.12.2"
            exit
            ;;
        --star_stats_file)
@@ -777,7 +777,7 @@ if [[ "$VIASH_ENGINE_TYPE" == "docker" ]]; then

  # determine docker image id
  if [[ "$VIASH_ENGINE_ID" == 'docker' ]]; then
-    VIASH_DOCKER_IMAGE_ID='images.viash-hub.com/vsh/htrnaseq/eset/create_pdata:v0.12.1'
+    VIASH_DOCKER_IMAGE_ID='images.viash-hub.com/vsh/htrnaseq/eset/create_pdata:v0.12.2'
  fi

  # print dockerfile
--- a/target/executable/integration_test_components/htrnaseq/check_eset/.config.vsh.yaml
+++ b/target/executable/integration_test_components/htrnaseq/check_eset/.config.vsh.yaml
@@ -1,6 +1,6 @@
 name: "check_eset"
 namespace: "integration_test_components/htrnaseq"
-version: "v0.12.1"
+version: "v0.12.2"
 authors:
 - name: "Dries Schaumont"
  roles:
@@ -134,7 +134,7 @@ engines:
  id: "docker"
  image: "bioconductor/bioconductor_docker:3.19"
  target_registry: "images.viash-hub.com"
-  target_tag: "v0.12.1"
+  target_tag: "v0.12.2"
  namespace_separator: "/"
  setup:
  - type: "r"
@@ -155,11 +155,11 @@ build_info:
  output: "target/executable/integration_test_components/htrnaseq/check_eset"
  executable: "target/executable/integration_test_components/htrnaseq/check_eset/check_eset"
  viash_version: "0.9.4"
-  git_commit: "32476d30426827c70014658cf0746ffcf55be62c"
+  git_commit: "f0f85f57744b71e17ee3c0afe1a221cd20903aef"
  git_remote: "https://github.com/viash-hub/htrnaseq"
 package_config:
  name: "htrnaseq"
-  version: "v0.12.1"
+  version: "v0.12.2"
  summary: "A workflow for high-throughput RNA-seq data analyses.\n"
  description: "This workflow is designed to process high-throughput RNA-seq data,\
    \ where every\nwell of a microarray plate is a sample. A fasta file provided as\
@@ -191,7 +191,7 @@ package_config:
    \ '_viash.yaml'}\n"
  - ".engines += { type: \"native\" }"
  - ".engines[.type == 'docker'].target_registry := 'images.viash-hub.com'"
-  - ".engines[.type == 'docker'].target_tag := 'v0.12.1'"
+  - ".engines[.type == 'docker'].target_tag := 'v0.12.2'"
  keywords:
  - "bioinformatics"
  - "sequencing"
--- a/target/executable/integration_test_components/htrnaseq/check_eset/_viash.yaml
+++ b/target/executable/integration_test_components/htrnaseq/check_eset/_viash.yaml
@@ -1,5 +1,5 @@
 name: htrnaseq
-version: v0.12.1
+version: v0.12.2
 summary: |
  A workflow for high-throughput RNA-seq data analyses.
 description: "This workflow is designed to process high-throughput RNA-seq data, where every\nwell of a microarray plate is a sample. A fasta file provided as input\ndefines the mapping between sample barcodes and wells.\n\nThe workflow is built in a modular fashion, where most of the base functionality\nis provided by components from [`biobox`](https://www.viash-hub.com/packages/biobox/latest)\nsupplemented by custom base components and workflow components in this package.\n\nThe full workflow is split in two major subworkflows that can be run independently:\n\n* **Well-demultiplexing:** Split the input (plate/pool level) fastq files per well.\n* **Mapping, counting and QC:** Run per-well mapping, counting and generate QC reports.\n\nEach of those can be started individually, or the full workflow can be run in two ways:\n\n1. Run the [main workflow](https://www.viash-hub.com/packages/htrnaseq/v0.3.0/components/workflows/htrnaseq) \ncontaining the main functionality.\n2. Run the [(opinionated) `runner`](https://www.viash-hub.com/packages/htrnaseq/v0.3.0/components/workflows/runner) where a\nnumber of choices (input/output structure and location) have been made.\n\nInput for the workflow has to be `fastq` files (zipped or not). For bcl or other formats, please consider running\n[demultiplex](https://www.viash-hub.com/packages/demultiplex) first.\n"
--- a/target/executable/integration_test_components/htrnaseq/check_eset/check_eset
+++ b/target/executable/integration_test_components/htrnaseq/check_eset/check_eset
@@ -1,6 +1,6 @@
 #!/usr/bin/env bash

-# check_eset v0.12.1
+# check_eset v0.12.2
 # 
 # This wrapper script is auto-generated by viash 0.9.4 and is thus a derivative
 # work thereof. This software comes with ABSOLUTELY NO WARRANTY from Data
@@ -455,10 +455,10 @@ RUN Rscript -e 'options(warn = 2); if (!requireNamespace("remotes", quietly = TR

 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="2025-09-19T07:50:15Z"
+LABEL org.opencontainers.image.created="2025-09-23T12:11:21Z"
 LABEL org.opencontainers.image.source="https://github.com/viash-hub/htrnaseq"
-LABEL org.opencontainers.image.revision="32476d30426827c70014658cf0746ffcf55be62c"
-LABEL org.opencontainers.image.version="v0.12.1"
+LABEL org.opencontainers.image.revision="f0f85f57744b71e17ee3c0afe1a221cd20903aef"
+LABEL org.opencontainers.image.version="v0.12.2"

 VIASHDOCKER
  fi
@@ -575,7 +575,7 @@ VIASH_DOCKER_RUN_ARGS=(-i --rm)

 # ViashHelp: Display helpful explanation about this executable
 function ViashHelp {
-  echo "check_eset v0.12.1"
+  echo "check_eset v0.12.2"
  echo ""
  echo "This component test the ExpressionSet object as output by the main pipeline."
  echo ""
@@ -635,7 +635,7 @@ while [[ $# -gt 0 ]]; do
            shift 1
            ;;
        --version)
-            echo "check_eset v0.12.1"
+            echo "check_eset v0.12.2"
            exit
            ;;
        --eset)
@@ -754,7 +754,7 @@ if [[ "$VIASH_ENGINE_TYPE" == "docker" ]]; then

  # determine docker image id
  if [[ "$VIASH_ENGINE_ID" == 'docker' ]]; then
-    VIASH_DOCKER_IMAGE_ID='images.viash-hub.com/vsh/htrnaseq/integration_test_components/htrnaseq/check_eset:v0.12.1'
+    VIASH_DOCKER_IMAGE_ID='images.viash-hub.com/vsh/htrnaseq/integration_test_components/htrnaseq/check_eset:v0.12.2'
  fi

  # print dockerfile
--- a/target/executable/integration_test_components/well_demultiplexing/check_cutadapt_output/.config.vsh.yaml
+++ b/target/executable/integration_test_components/well_demultiplexing/check_cutadapt_output/.config.vsh.yaml
@@ -1,6 +1,6 @@
 name: "check_cutadapt_output"
 namespace: "integration_test_components/well_demultiplexing"
-version: "v0.12.1"
+version: "v0.12.2"
 authors:
 - name: "Dries Schaumont"
  roles:
@@ -141,7 +141,7 @@ engines:
  id: "docker"
  image: "python:3.12-slim"
  target_registry: "images.viash-hub.com"
-  target_tag: "v0.12.1"
+  target_tag: "v0.12.2"
  namespace_separator: "/"
  setup:
  - type: "apt"
@@ -164,11 +164,11 @@ build_info:
  output: "target/executable/integration_test_components/well_demultiplexing/check_cutadapt_output"
  executable: "target/executable/integration_test_components/well_demultiplexing/check_cutadapt_output/check_cutadapt_output"
  viash_version: "0.9.4"
-  git_commit: "32476d30426827c70014658cf0746ffcf55be62c"
+  git_commit: "f0f85f57744b71e17ee3c0afe1a221cd20903aef"
  git_remote: "https://github.com/viash-hub/htrnaseq"
 package_config:
  name: "htrnaseq"
-  version: "v0.12.1"
+  version: "v0.12.2"
  summary: "A workflow for high-throughput RNA-seq data analyses.\n"
  description: "This workflow is designed to process high-throughput RNA-seq data,\
    \ where every\nwell of a microarray plate is a sample. A fasta file provided as\
@@ -200,7 +200,7 @@ package_config:
    \ '_viash.yaml'}\n"
  - ".engines += { type: \"native\" }"
  - ".engines[.type == 'docker'].target_registry := 'images.viash-hub.com'"
-  - ".engines[.type == 'docker'].target_tag := 'v0.12.1'"
+  - ".engines[.type == 'docker'].target_tag := 'v0.12.2'"
  keywords:
  - "bioinformatics"
  - "sequencing"
--- a/target/executable/integration_test_components/well_demultiplexing/check_cutadapt_output/_viash.yaml
+++ b/target/executable/integration_test_components/well_demultiplexing/check_cutadapt_output/_viash.yaml
@@ -1,5 +1,5 @@
 name: htrnaseq
-version: v0.12.1
+version: v0.12.2
 summary: |
  A workflow for high-throughput RNA-seq data analyses.
 description: "This workflow is designed to process high-throughput RNA-seq data, where every\nwell of a microarray plate is a sample. A fasta file provided as input\ndefines the mapping between sample barcodes and wells.\n\nThe workflow is built in a modular fashion, where most of the base functionality\nis provided by components from [`biobox`](https://www.viash-hub.com/packages/biobox/latest)\nsupplemented by custom base components and workflow components in this package.\n\nThe full workflow is split in two major subworkflows that can be run independently:\n\n* **Well-demultiplexing:** Split the input (plate/pool level) fastq files per well.\n* **Mapping, counting and QC:** Run per-well mapping, counting and generate QC reports.\n\nEach of those can be started individually, or the full workflow can be run in two ways:\n\n1. Run the [main workflow](https://www.viash-hub.com/packages/htrnaseq/v0.3.0/components/workflows/htrnaseq) \ncontaining the main functionality.\n2. Run the [(opinionated) `runner`](https://www.viash-hub.com/packages/htrnaseq/v0.3.0/components/workflows/runner) where a\nnumber of choices (input/output structure and location) have been made.\n\nInput for the workflow has to be `fastq` files (zipped or not). For bcl or other formats, please consider running\n[demultiplex](https://www.viash-hub.com/packages/demultiplex) first.\n"
--- a/target/executable/integration_test_components/well_demultiplexing/check_cutadapt_output/check_cutadapt_output
+++ b/target/executable/integration_test_components/well_demultiplexing/check_cutadapt_output/check_cutadapt_output
@@ -1,6 +1,6 @@
 #!/usr/bin/env bash

-# check_cutadapt_output v0.12.1
+# check_cutadapt_output v0.12.2
 # 
 # This wrapper script is auto-generated by viash 0.9.4 and is thus a derivative
 # work thereof. This software comes with ABSOLUTELY NO WARRANTY from Data
@@ -457,10 +457,10 @@ RUN pip install --upgrade pip && \

 LABEL org.opencontainers.image.authors="Dries Schaumont"
 LABEL org.opencontainers.image.description="Companion container for running component integration_test_components/well_demultiplexing check_cutadapt_output"
-LABEL org.opencontainers.image.created="2025-09-19T07:50:14Z"
+LABEL org.opencontainers.image.created="2025-09-23T12:11:21Z"
 LABEL org.opencontainers.image.source="https://github.com/viash-hub/htrnaseq"
-LABEL org.opencontainers.image.revision="32476d30426827c70014658cf0746ffcf55be62c"
-LABEL org.opencontainers.image.version="v0.12.1"
+LABEL org.opencontainers.image.revision="f0f85f57744b71e17ee3c0afe1a221cd20903aef"
+LABEL org.opencontainers.image.version="v0.12.2"

 VIASHDOCKER
  fi
@@ -577,7 +577,7 @@ VIASH_DOCKER_RUN_ARGS=(-i --rm)

 # ViashHelp: Display helpful explanation about this executable
 function ViashHelp {
-  echo "check_cutadapt_output v0.12.1"
+  echo "check_cutadapt_output v0.12.2"
  echo ""
  echo "This component test the cutadapt output from the well_demultiplex subworkflow."
  echo ""
@@ -641,7 +641,7 @@ while [[ $# -gt 0 ]]; do
            shift 1
            ;;
        --version)
-            echo "check_cutadapt_output v0.12.1"
+            echo "check_cutadapt_output v0.12.2"
            exit
            ;;
        --fastq_r1)
@@ -783,7 +783,7 @@ if [[ "$VIASH_ENGINE_TYPE" == "docker" ]]; then

  # determine docker image id
  if [[ "$VIASH_ENGINE_ID" == 'docker' ]]; then
-    VIASH_DOCKER_IMAGE_ID='images.viash-hub.com/vsh/htrnaseq/integration_test_components/well_demultiplexing/check_cutadapt_output:v0.12.1'
+    VIASH_DOCKER_IMAGE_ID='images.viash-hub.com/vsh/htrnaseq/integration_test_components/well_demultiplexing/check_cutadapt_output:v0.12.2'
  fi

  # print dockerfile
--- a/target/executable/io/publish_fastqs/.config.vsh.yaml
+++ b/target/executable/io/publish_fastqs/.config.vsh.yaml
@@ -1,6 +1,6 @@
 name: "publish_fastqs"
 namespace: "io"
-version: "v0.12.1"
+version: "v0.12.2"
 argument_groups:
 - name: "Input arguments"
  arguments:
@@ -121,7 +121,7 @@ engines:
  id: "docker"
  image: "debian:stable-slim"
  target_registry: "images.viash-hub.com"
-  target_tag: "v0.12.1"
+  target_tag: "v0.12.2"
  namespace_separator: "/"
  setup:
  - type: "apt"
@@ -139,11 +139,11 @@ build_info:
  output: "target/executable/io/publish_fastqs"
  executable: "target/executable/io/publish_fastqs/publish_fastqs"
  viash_version: "0.9.4"
-  git_commit: "32476d30426827c70014658cf0746ffcf55be62c"
+  git_commit: "f0f85f57744b71e17ee3c0afe1a221cd20903aef"
  git_remote: "https://github.com/viash-hub/htrnaseq"
 package_config:
  name: "htrnaseq"
-  version: "v0.12.1"
+  version: "v0.12.2"
  summary: "A workflow for high-throughput RNA-seq data analyses.\n"
  description: "This workflow is designed to process high-throughput RNA-seq data,\
    \ where every\nwell of a microarray plate is a sample. A fasta file provided as\
@@ -175,7 +175,7 @@ package_config:
    \ '_viash.yaml'}\n"
  - ".engines += { type: \"native\" }"
  - ".engines[.type == 'docker'].target_registry := 'images.viash-hub.com'"
-  - ".engines[.type == 'docker'].target_tag := 'v0.12.1'"
+  - ".engines[.type == 'docker'].target_tag := 'v0.12.2'"
  keywords:
  - "bioinformatics"
  - "sequencing"
--- a/target/executable/io/publish_fastqs/_viash.yaml
+++ b/target/executable/io/publish_fastqs/_viash.yaml
@@ -1,5 +1,5 @@
 name: htrnaseq
-version: v0.12.1
+version: v0.12.2
 summary: |
  A workflow for high-throughput RNA-seq data analyses.
 description: "This workflow is designed to process high-throughput RNA-seq data, where every\nwell of a microarray plate is a sample. A fasta file provided as input\ndefines the mapping between sample barcodes and wells.\n\nThe workflow is built in a modular fashion, where most of the base functionality\nis provided by components from [`biobox`](https://www.viash-hub.com/packages/biobox/latest)\nsupplemented by custom base components and workflow components in this package.\n\nThe full workflow is split in two major subworkflows that can be run independently:\n\n* **Well-demultiplexing:** Split the input (plate/pool level) fastq files per well.\n* **Mapping, counting and QC:** Run per-well mapping, counting and generate QC reports.\n\nEach of those can be started individually, or the full workflow can be run in two ways:\n\n1. Run the [main workflow](https://www.viash-hub.com/packages/htrnaseq/v0.3.0/components/workflows/htrnaseq) \ncontaining the main functionality.\n2. Run the [(opinionated) `runner`](https://www.viash-hub.com/packages/htrnaseq/v0.3.0/components/workflows/runner) where a\nnumber of choices (input/output structure and location) have been made.\n\nInput for the workflow has to be `fastq` files (zipped or not). For bcl or other formats, please consider running\n[demultiplex](https://www.viash-hub.com/packages/demultiplex) first.\n"
--- a/target/executable/io/publish_fastqs/publish_fastqs
+++ b/target/executable/io/publish_fastqs/publish_fastqs
@@ -1,6 +1,6 @@
 #!/usr/bin/env bash

-# publish_fastqs v0.12.1
+# publish_fastqs v0.12.2
 # 
 # This wrapper script is auto-generated by viash 0.9.4 and is thus a derivative
 # work thereof. This software comes with ABSOLUTELY NO WARRANTY from Data
@@ -450,10 +450,10 @@ RUN apt-get update && \
  rm -rf /var/lib/apt/lists/*

 LABEL org.opencontainers.image.description="Companion container for running component io publish_fastqs"
-LABEL org.opencontainers.image.created="2025-09-19T07:50:15Z"
+LABEL org.opencontainers.image.created="2025-09-23T12:11:21Z"
 LABEL org.opencontainers.image.source="https://github.com/viash-hub/htrnaseq"
-LABEL org.opencontainers.image.revision="32476d30426827c70014658cf0746ffcf55be62c"
-LABEL org.opencontainers.image.version="v0.12.1"
+LABEL org.opencontainers.image.revision="f0f85f57744b71e17ee3c0afe1a221cd20903aef"
+LABEL org.opencontainers.image.version="v0.12.2"

 VIASHDOCKER
  fi
@@ -570,7 +570,7 @@ VIASH_DOCKER_RUN_ARGS=(-i --rm)

 # ViashHelp: Display helpful explanation about this executable
 function ViashHelp {
-  echo "publish_fastqs v0.12.1"
+  echo "publish_fastqs v0.12.2"
  echo ""
  echo "Publish the fastq files per well"
  echo ""
@@ -631,7 +631,7 @@ while [[ $# -gt 0 ]]; do
            shift 1
            ;;
        --version)
-            echo "publish_fastqs v0.12.1"
+            echo "publish_fastqs v0.12.2"
            exit
            ;;
        --input)
@@ -750,7 +750,7 @@ if [[ "$VIASH_ENGINE_TYPE" == "docker" ]]; then

  # determine docker image id
  if [[ "$VIASH_ENGINE_ID" == 'docker' ]]; then
-    VIASH_DOCKER_IMAGE_ID='images.viash-hub.com/vsh/htrnaseq/io/publish_fastqs:v0.12.1'
+    VIASH_DOCKER_IMAGE_ID='images.viash-hub.com/vsh/htrnaseq/io/publish_fastqs:v0.12.2'
  fi

  # print dockerfile
--- a/target/executable/io/publish_results/.config.vsh.yaml
+++ b/target/executable/io/publish_results/.config.vsh.yaml
@@ -1,6 +1,6 @@
 name: "publish_results"
 namespace: "io"
-version: "v0.12.1"
+version: "v0.12.2"
 argument_groups:
 - name: "Input arguments"
  arguments:
@@ -261,7 +261,7 @@ engines:
  id: "docker"
  image: "debian:stable-slim"
  target_registry: "images.viash-hub.com"
-  target_tag: "v0.12.1"
+  target_tag: "v0.12.2"
  namespace_separator: "/"
  setup:
  - type: "apt"
@@ -279,11 +279,11 @@ build_info:
  output: "target/executable/io/publish_results"
  executable: "target/executable/io/publish_results/publish_results"
  viash_version: "0.9.4"
-  git_commit: "32476d30426827c70014658cf0746ffcf55be62c"
+  git_commit: "f0f85f57744b71e17ee3c0afe1a221cd20903aef"
  git_remote: "https://github.com/viash-hub/htrnaseq"
 package_config:
  name: "htrnaseq"
-  version: "v0.12.1"
+  version: "v0.12.2"
  summary: "A workflow for high-throughput RNA-seq data analyses.\n"
  description: "This workflow is designed to process high-throughput RNA-seq data,\
    \ where every\nwell of a microarray plate is a sample. A fasta file provided as\
@@ -315,7 +315,7 @@ package_config:
    \ '_viash.yaml'}\n"
  - ".engines += { type: \"native\" }"
  - ".engines[.type == 'docker'].target_registry := 'images.viash-hub.com'"
-  - ".engines[.type == 'docker'].target_tag := 'v0.12.1'"
+  - ".engines[.type == 'docker'].target_tag := 'v0.12.2'"
  keywords:
  - "bioinformatics"
  - "sequencing"
--- a/target/executable/io/publish_results/_viash.yaml
+++ b/target/executable/io/publish_results/_viash.yaml
@@ -1,5 +1,5 @@
 name: htrnaseq
-version: v0.12.1
+version: v0.12.2
 summary: |
  A workflow for high-throughput RNA-seq data analyses.
 description: "This workflow is designed to process high-throughput RNA-seq data, where every\nwell of a microarray plate is a sample. A fasta file provided as input\ndefines the mapping between sample barcodes and wells.\n\nThe workflow is built in a modular fashion, where most of the base functionality\nis provided by components from [`biobox`](https://www.viash-hub.com/packages/biobox/latest)\nsupplemented by custom base components and workflow components in this package.\n\nThe full workflow is split in two major subworkflows that can be run independently:\n\n* **Well-demultiplexing:** Split the input (plate/pool level) fastq files per well.\n* **Mapping, counting and QC:** Run per-well mapping, counting and generate QC reports.\n\nEach of those can be started individually, or the full workflow can be run in two ways:\n\n1. Run the [main workflow](https://www.viash-hub.com/packages/htrnaseq/v0.3.0/components/workflows/htrnaseq) \ncontaining the main functionality.\n2. Run the [(opinionated) `runner`](https://www.viash-hub.com/packages/htrnaseq/v0.3.0/components/workflows/runner) where a\nnumber of choices (input/output structure and location) have been made.\n\nInput for the workflow has to be `fastq` files (zipped or not). For bcl or other formats, please consider running\n[demultiplex](https://www.viash-hub.com/packages/demultiplex) first.\n"
--- a/target/executable/io/publish_results/publish_results
+++ b/target/executable/io/publish_results/publish_results
@@ -1,6 +1,6 @@
 #!/usr/bin/env bash

-# publish_results v0.12.1
+# publish_results v0.12.2
 # 
 # This wrapper script is auto-generated by viash 0.9.4 and is thus a derivative
 # work thereof. This software comes with ABSOLUTELY NO WARRANTY from Data
@@ -450,10 +450,10 @@ RUN apt-get update && \
  rm -rf /var/lib/apt/lists/*

 LABEL org.opencontainers.image.description="Companion container for running component io publish_results"
-LABEL org.opencontainers.image.created="2025-09-19T07:50:15Z"
+LABEL org.opencontainers.image.created="2025-09-23T12:11:21Z"
 LABEL org.opencontainers.image.source="https://github.com/viash-hub/htrnaseq"
-LABEL org.opencontainers.image.revision="32476d30426827c70014658cf0746ffcf55be62c"
-LABEL org.opencontainers.image.version="v0.12.1"
+LABEL org.opencontainers.image.revision="f0f85f57744b71e17ee3c0afe1a221cd20903aef"
+LABEL org.opencontainers.image.version="v0.12.2"

 VIASHDOCKER
  fi
@@ -570,7 +570,7 @@ VIASH_DOCKER_RUN_ARGS=(-i --rm)

 # ViashHelp: Display helpful explanation about this executable
 function ViashHelp {
-  echo "publish_results v0.12.1"
+  echo "publish_results v0.12.2"
  echo ""
  echo "Publish the results"
  echo ""
@@ -683,7 +683,7 @@ while [[ $# -gt 0 ]]; do
            shift 1
            ;;
        --version)
-            echo "publish_results v0.12.1"
+            echo "publish_results v0.12.2"
            exit
            ;;
        --star_output)
@@ -986,7 +986,7 @@ if [[ "$VIASH_ENGINE_TYPE" == "docker" ]]; then

  # determine docker image id
  if [[ "$VIASH_ENGINE_ID" == 'docker' ]]; then
-    VIASH_DOCKER_IMAGE_ID='images.viash-hub.com/vsh/htrnaseq/io/publish_results:v0.12.1'
+    VIASH_DOCKER_IMAGE_ID='images.viash-hub.com/vsh/htrnaseq/io/publish_results:v0.12.2'
  fi

  # print dockerfile
--- a/target/executable/parallel_map/.config.vsh.yaml
+++ b/target/executable/parallel_map/.config.vsh.yaml
@@ -1,5 +1,5 @@
 name: "parallel_map"
-version: "v0.12.1"
+version: "v0.12.2"
 authors:
 - name: "Dries Schaumont"
  roles:
@@ -248,7 +248,7 @@ engines:
  id: "docker"
  image: "debian:stable-slim"
  target_registry: "images.viash-hub.com"
-  target_tag: "v0.12.1"
+  target_tag: "v0.12.2"
  namespace_separator: "/"
  setup:
  - type: "apt"
@@ -285,11 +285,11 @@ build_info:
  output: "target/executable/parallel_map"
  executable: "target/executable/parallel_map/parallel_map"
  viash_version: "0.9.4"
-  git_commit: "32476d30426827c70014658cf0746ffcf55be62c"
+  git_commit: "f0f85f57744b71e17ee3c0afe1a221cd20903aef"
  git_remote: "https://github.com/viash-hub/htrnaseq"
 package_config:
  name: "htrnaseq"
-  version: "v0.12.1"
+  version: "v0.12.2"
  summary: "A workflow for high-throughput RNA-seq data analyses.\n"
  description: "This workflow is designed to process high-throughput RNA-seq data,\
    \ where every\nwell of a microarray plate is a sample. A fasta file provided as\
@@ -321,7 +321,7 @@ package_config:
    \ '_viash.yaml'}\n"
  - ".engines += { type: \"native\" }"
  - ".engines[.type == 'docker'].target_registry := 'images.viash-hub.com'"
-  - ".engines[.type == 'docker'].target_tag := 'v0.12.1'"
+  - ".engines[.type == 'docker'].target_tag := 'v0.12.2'"
  keywords:
  - "bioinformatics"
  - "sequencing"
--- a/target/executable/parallel_map/_viash.yaml
+++ b/target/executable/parallel_map/_viash.yaml
@@ -1,5 +1,5 @@
 name: htrnaseq
-version: v0.12.1
+version: v0.12.2
 summary: |
  A workflow for high-throughput RNA-seq data analyses.
 description: "This workflow is designed to process high-throughput RNA-seq data, where every\nwell of a microarray plate is a sample. A fasta file provided as input\ndefines the mapping between sample barcodes and wells.\n\nThe workflow is built in a modular fashion, where most of the base functionality\nis provided by components from [`biobox`](https://www.viash-hub.com/packages/biobox/latest)\nsupplemented by custom base components and workflow components in this package.\n\nThe full workflow is split in two major subworkflows that can be run independently:\n\n* **Well-demultiplexing:** Split the input (plate/pool level) fastq files per well.\n* **Mapping, counting and QC:** Run per-well mapping, counting and generate QC reports.\n\nEach of those can be started individually, or the full workflow can be run in two ways:\n\n1. Run the [main workflow](https://www.viash-hub.com/packages/htrnaseq/v0.3.0/components/workflows/htrnaseq) \ncontaining the main functionality.\n2. Run the [(opinionated) `runner`](https://www.viash-hub.com/packages/htrnaseq/v0.3.0/components/workflows/runner) where a\nnumber of choices (input/output structure and location) have been made.\n\nInput for the workflow has to be `fastq` files (zipped or not). For bcl or other formats, please consider running\n[demultiplex](https://www.viash-hub.com/packages/demultiplex) first.\n"
--- a/target/executable/parallel_map/parallel_map
+++ b/target/executable/parallel_map/parallel_map
@@ -1,6 +1,6 @@
 #!/usr/bin/env bash

-# parallel_map v0.12.1
+# parallel_map v0.12.2
 # 
 # This wrapper script is auto-generated by viash 0.9.4 and is thus a derivative
 # work thereof. This software comes with ABSOLUTELY NO WARRANTY from Data
@@ -461,10 +461,10 @@ 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="2025-09-19T07:50:14Z"
+LABEL org.opencontainers.image.created="2025-09-23T12:11:20Z"
 LABEL org.opencontainers.image.source="https://github.com/viash-hub/htrnaseq"
-LABEL org.opencontainers.image.revision="32476d30426827c70014658cf0746ffcf55be62c"
-LABEL org.opencontainers.image.version="v0.12.1"
+LABEL org.opencontainers.image.revision="f0f85f57744b71e17ee3c0afe1a221cd20903aef"
+LABEL org.opencontainers.image.version="v0.12.2"

 VIASHDOCKER
  fi
@@ -581,7 +581,7 @@ VIASH_DOCKER_RUN_ARGS=(-i --rm)

 # ViashHelp: Display helpful explanation about this executable
 function ViashHelp {
-  echo "parallel_map v0.12.1"
+  echo "parallel_map v0.12.2"
  echo ""
  echo "Map wells in batch, using STAR"
  echo "Spliced Transcripts Alignment to a Reference (C) Alexander Dobin"
@@ -705,7 +705,7 @@ while [[ $# -gt 0 ]]; do
            shift 1
            ;;
        --version)
-            echo "parallel_map v0.12.1"
+            echo "parallel_map v0.12.2"
            exit
            ;;
        --input_r1)
@@ -907,7 +907,7 @@ if [[ "$VIASH_ENGINE_TYPE" == "docker" ]]; then

  # determine docker image id
  if [[ "$VIASH_ENGINE_ID" == 'docker' ]]; then
-    VIASH_DOCKER_IMAGE_ID='images.viash-hub.com/vsh/htrnaseq/parallel_map:v0.12.1'
+    VIASH_DOCKER_IMAGE_ID='images.viash-hub.com/vsh/htrnaseq/parallel_map:v0.12.2'
  fi

  # print dockerfile
--- a/target/executable/report/create_report/.config.vsh.yaml
+++ b/target/executable/report/create_report/.config.vsh.yaml
@@ -1,6 +1,6 @@
 name: "create_report"
 namespace: "report"
-version: "v0.12.1"
+version: "v0.12.2"
 authors:
 - name: "Dries Schaumont"
  roles:
@@ -159,7 +159,7 @@ engines:
  id: "docker"
  image: "rocker/r2u:24.04"
  target_registry: "images.viash-hub.com"
-  target_tag: "v0.12.1"
+  target_tag: "v0.12.2"
  namespace_separator: "/"
  setup:
  - type: "apt"
@@ -215,11 +215,11 @@ build_info:
  output: "target/executable/report/create_report"
  executable: "target/executable/report/create_report/create_report"
  viash_version: "0.9.4"
-  git_commit: "32476d30426827c70014658cf0746ffcf55be62c"
+  git_commit: "f0f85f57744b71e17ee3c0afe1a221cd20903aef"
  git_remote: "https://github.com/viash-hub/htrnaseq"
 package_config:
  name: "htrnaseq"
-  version: "v0.12.1"
+  version: "v0.12.2"
  summary: "A workflow for high-throughput RNA-seq data analyses.\n"
  description: "This workflow is designed to process high-throughput RNA-seq data,\
    \ where every\nwell of a microarray plate is a sample. A fasta file provided as\
@@ -251,7 +251,7 @@ package_config:
    \ '_viash.yaml'}\n"
  - ".engines += { type: \"native\" }"
  - ".engines[.type == 'docker'].target_registry := 'images.viash-hub.com'"
-  - ".engines[.type == 'docker'].target_tag := 'v0.12.1'"
+  - ".engines[.type == 'docker'].target_tag := 'v0.12.2'"
  keywords:
  - "bioinformatics"
  - "sequencing"
--- a/target/executable/report/create_report/_viash.yaml
+++ b/target/executable/report/create_report/_viash.yaml
@@ -1,5 +1,5 @@
 name: htrnaseq
-version: v0.12.1
+version: v0.12.2
 summary: |
  A workflow for high-throughput RNA-seq data analyses.
 description: "This workflow is designed to process high-throughput RNA-seq data, where every\nwell of a microarray plate is a sample. A fasta file provided as input\ndefines the mapping between sample barcodes and wells.\n\nThe workflow is built in a modular fashion, where most of the base functionality\nis provided by components from [`biobox`](https://www.viash-hub.com/packages/biobox/latest)\nsupplemented by custom base components and workflow components in this package.\n\nThe full workflow is split in two major subworkflows that can be run independently:\n\n* **Well-demultiplexing:** Split the input (plate/pool level) fastq files per well.\n* **Mapping, counting and QC:** Run per-well mapping, counting and generate QC reports.\n\nEach of those can be started individually, or the full workflow can be run in two ways:\n\n1. Run the [main workflow](https://www.viash-hub.com/packages/htrnaseq/v0.3.0/components/workflows/htrnaseq) \ncontaining the main functionality.\n2. Run the [(opinionated) `runner`](https://www.viash-hub.com/packages/htrnaseq/v0.3.0/components/workflows/runner) where a\nnumber of choices (input/output structure and location) have been made.\n\nInput for the workflow has to be `fastq` files (zipped or not). For bcl or other formats, please consider running\n[demultiplex](https://www.viash-hub.com/packages/demultiplex) first.\n"
--- a/target/executable/report/create_report/create_report
+++ b/target/executable/report/create_report/create_report
@@ -1,6 +1,6 @@
 #!/usr/bin/env bash

-# create_report v0.12.1
+# create_report v0.12.2
 # 
 # This wrapper script is auto-generated by viash 0.9.4 and is thus a derivative
 # work thereof. This software comes with ABSOLUTELY NO WARRANTY from Data
@@ -465,10 +465,10 @@ RUN Rscript -e 'options(warn = 2); if (!requireNamespace("remotes", quietly = TR

 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="2025-09-19T07:50:14Z"
+LABEL org.opencontainers.image.created="2025-09-23T12:11:21Z"
 LABEL org.opencontainers.image.source="https://github.com/viash-hub/htrnaseq"
-LABEL org.opencontainers.image.revision="32476d30426827c70014658cf0746ffcf55be62c"
-LABEL org.opencontainers.image.version="v0.12.1"
+LABEL org.opencontainers.image.revision="f0f85f57744b71e17ee3c0afe1a221cd20903aef"
+LABEL org.opencontainers.image.version="v0.12.2"

 VIASHDOCKER
  fi
@@ -585,7 +585,7 @@ VIASH_DOCKER_RUN_ARGS=(-i --rm)

 # ViashHelp: Display helpful explanation about this executable
 function ViashHelp {
-  echo "create_report v0.12.1"
+  echo "create_report v0.12.2"
  echo ""
  echo "Create a basic QC report in HTML format based on a number of esets."
  echo ""
@@ -644,7 +644,7 @@ while [[ $# -gt 0 ]]; do
            shift 1
            ;;
        --version)
-            echo "create_report v0.12.1"
+            echo "create_report v0.12.2"
            exit
            ;;
        --eset)
@@ -763,7 +763,7 @@ if [[ "$VIASH_ENGINE_TYPE" == "docker" ]]; then

  # determine docker image id
  if [[ "$VIASH_ENGINE_ID" == 'docker' ]]; then
-    VIASH_DOCKER_IMAGE_ID='images.viash-hub.com/vsh/htrnaseq/report/create_report:v0.12.1'
+    VIASH_DOCKER_IMAGE_ID='images.viash-hub.com/vsh/htrnaseq/report/create_report:v0.12.2'
  fi

  # print dockerfile
--- a/target/executable/stats/combine_star_logs/.config.vsh.yaml
+++ b/target/executable/stats/combine_star_logs/.config.vsh.yaml
@@ -1,6 +1,6 @@
 name: "combine_star_logs"
 namespace: "stats"
-version: "v0.12.1"
+version: "v0.12.2"
 authors:
 - name: "Dries Schaumont"
  roles:
@@ -175,7 +175,7 @@ engines:
  id: "docker"
  image: "python:3.12-slim"
  target_registry: "images.viash-hub.com"
-  target_tag: "v0.12.1"
+  target_tag: "v0.12.2"
  namespace_separator: "/"
  setup:
  - type: "apt"
@@ -204,11 +204,11 @@ build_info:
  output: "target/executable/stats/combine_star_logs"
  executable: "target/executable/stats/combine_star_logs/combine_star_logs"
  viash_version: "0.9.4"
-  git_commit: "32476d30426827c70014658cf0746ffcf55be62c"
+  git_commit: "f0f85f57744b71e17ee3c0afe1a221cd20903aef"
  git_remote: "https://github.com/viash-hub/htrnaseq"
 package_config:
  name: "htrnaseq"
-  version: "v0.12.1"
+  version: "v0.12.2"
  summary: "A workflow for high-throughput RNA-seq data analyses.\n"
  description: "This workflow is designed to process high-throughput RNA-seq data,\
    \ where every\nwell of a microarray plate is a sample. A fasta file provided as\
@@ -240,7 +240,7 @@ package_config:
    \ '_viash.yaml'}\n"
  - ".engines += { type: \"native\" }"
  - ".engines[.type == 'docker'].target_registry := 'images.viash-hub.com'"
-  - ".engines[.type == 'docker'].target_tag := 'v0.12.1'"
+  - ".engines[.type == 'docker'].target_tag := 'v0.12.2'"
  keywords:
  - "bioinformatics"
  - "sequencing"
--- a/target/executable/stats/combine_star_logs/_viash.yaml
+++ b/target/executable/stats/combine_star_logs/_viash.yaml
@@ -1,5 +1,5 @@
 name: htrnaseq
-version: v0.12.1
+version: v0.12.2
 summary: |
  A workflow for high-throughput RNA-seq data analyses.
 description: "This workflow is designed to process high-throughput RNA-seq data, where every\nwell of a microarray plate is a sample. A fasta file provided as input\ndefines the mapping between sample barcodes and wells.\n\nThe workflow is built in a modular fashion, where most of the base functionality\nis provided by components from [`biobox`](https://www.viash-hub.com/packages/biobox/latest)\nsupplemented by custom base components and workflow components in this package.\n\nThe full workflow is split in two major subworkflows that can be run independently:\n\n* **Well-demultiplexing:** Split the input (plate/pool level) fastq files per well.\n* **Mapping, counting and QC:** Run per-well mapping, counting and generate QC reports.\n\nEach of those can be started individually, or the full workflow can be run in two ways:\n\n1. Run the [main workflow](https://www.viash-hub.com/packages/htrnaseq/v0.3.0/components/workflows/htrnaseq) \ncontaining the main functionality.\n2. Run the [(opinionated) `runner`](https://www.viash-hub.com/packages/htrnaseq/v0.3.0/components/workflows/runner) where a\nnumber of choices (input/output structure and location) have been made.\n\nInput for the workflow has to be `fastq` files (zipped or not). For bcl or other formats, please consider running\n[demultiplex](https://www.viash-hub.com/packages/demultiplex) first.\n"
--- a/target/executable/stats/combine_star_logs/combine_star_logs
+++ b/target/executable/stats/combine_star_logs/combine_star_logs
@@ -1,6 +1,6 @@
 #!/usr/bin/env bash

-# combine_star_logs v0.12.1
+# combine_star_logs v0.12.2
 # 
 # This wrapper script is auto-generated by viash 0.9.4 and is thus a derivative
 # work thereof. This software comes with ABSOLUTELY NO WARRANTY from Data
@@ -457,10 +457,10 @@ 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="2025-09-19T07:50:14Z"
+LABEL org.opencontainers.image.created="2025-09-23T12:11:20Z"
 LABEL org.opencontainers.image.source="https://github.com/viash-hub/htrnaseq"
-LABEL org.opencontainers.image.revision="32476d30426827c70014658cf0746ffcf55be62c"
-LABEL org.opencontainers.image.version="v0.12.1"
+LABEL org.opencontainers.image.revision="f0f85f57744b71e17ee3c0afe1a221cd20903aef"
+LABEL org.opencontainers.image.version="v0.12.2"

 VIASHDOCKER
  fi
@@ -577,7 +577,7 @@ VIASH_DOCKER_RUN_ARGS=(-i --rm)

 # ViashHelp: Display helpful explanation about this executable
 function ViashHelp {
-  echo "combine_star_logs v0.12.1"
+  echo "combine_star_logs v0.12.2"
  echo ""
  echo "Arguments:"
  echo "    --barcodes"
@@ -655,7 +655,7 @@ while [[ $# -gt 0 ]]; do
            shift 1
            ;;
        --version)
-            echo "combine_star_logs v0.12.1"
+            echo "combine_star_logs v0.12.2"
            exit
            ;;
        --barcodes)
@@ -825,7 +825,7 @@ if [[ "$VIASH_ENGINE_TYPE" == "docker" ]]; then

  # determine docker image id
  if [[ "$VIASH_ENGINE_ID" == 'docker' ]]; then
-    VIASH_DOCKER_IMAGE_ID='images.viash-hub.com/vsh/htrnaseq/stats/combine_star_logs:v0.12.1'
+    VIASH_DOCKER_IMAGE_ID='images.viash-hub.com/vsh/htrnaseq/stats/combine_star_logs:v0.12.2'
  fi

  # print dockerfile
--- a/target/executable/stats/generate_pool_statistics/.config.vsh.yaml
+++ b/target/executable/stats/generate_pool_statistics/.config.vsh.yaml
@@ -1,6 +1,6 @@
 name: "generate_pool_statistics"
 namespace: "stats"
-version: "v0.12.1"
+version: "v0.12.2"
 authors:
 - name: "Dries Schaumont"
  roles:
@@ -159,7 +159,7 @@ engines:
  id: "docker"
  image: "python:3.12-slim"
  target_registry: "images.viash-hub.com"
-  target_tag: "v0.12.1"
+  target_tag: "v0.12.2"
  namespace_separator: "/"
  setup:
  - type: "apt"
@@ -188,11 +188,11 @@ build_info:
  output: "target/executable/stats/generate_pool_statistics"
  executable: "target/executable/stats/generate_pool_statistics/generate_pool_statistics"
  viash_version: "0.9.4"
-  git_commit: "32476d30426827c70014658cf0746ffcf55be62c"
+  git_commit: "f0f85f57744b71e17ee3c0afe1a221cd20903aef"
  git_remote: "https://github.com/viash-hub/htrnaseq"
 package_config:
  name: "htrnaseq"
-  version: "v0.12.1"
+  version: "v0.12.2"
  summary: "A workflow for high-throughput RNA-seq data analyses.\n"
  description: "This workflow is designed to process high-throughput RNA-seq data,\
    \ where every\nwell of a microarray plate is a sample. A fasta file provided as\
@@ -224,7 +224,7 @@ package_config:
    \ '_viash.yaml'}\n"
  - ".engines += { type: \"native\" }"
  - ".engines[.type == 'docker'].target_registry := 'images.viash-hub.com'"
-  - ".engines[.type == 'docker'].target_tag := 'v0.12.1'"
+  - ".engines[.type == 'docker'].target_tag := 'v0.12.2'"
  keywords:
  - "bioinformatics"
  - "sequencing"
--- a/target/executable/stats/generate_pool_statistics/_viash.yaml
+++ b/target/executable/stats/generate_pool_statistics/_viash.yaml
@@ -1,5 +1,5 @@
 name: htrnaseq
-version: v0.12.1
+version: v0.12.2
 summary: |
  A workflow for high-throughput RNA-seq data analyses.
 description: "This workflow is designed to process high-throughput RNA-seq data, where every\nwell of a microarray plate is a sample. A fasta file provided as input\ndefines the mapping between sample barcodes and wells.\n\nThe workflow is built in a modular fashion, where most of the base functionality\nis provided by components from [`biobox`](https://www.viash-hub.com/packages/biobox/latest)\nsupplemented by custom base components and workflow components in this package.\n\nThe full workflow is split in two major subworkflows that can be run independently:\n\n* **Well-demultiplexing:** Split the input (plate/pool level) fastq files per well.\n* **Mapping, counting and QC:** Run per-well mapping, counting and generate QC reports.\n\nEach of those can be started individually, or the full workflow can be run in two ways:\n\n1. Run the [main workflow](https://www.viash-hub.com/packages/htrnaseq/v0.3.0/components/workflows/htrnaseq) \ncontaining the main functionality.\n2. Run the [(opinionated) `runner`](https://www.viash-hub.com/packages/htrnaseq/v0.3.0/components/workflows/runner) where a\nnumber of choices (input/output structure and location) have been made.\n\nInput for the workflow has to be `fastq` files (zipped or not). For bcl or other formats, please consider running\n[demultiplex](https://www.viash-hub.com/packages/demultiplex) first.\n"
--- a/target/executable/stats/generate_pool_statistics/generate_pool_statistics
+++ b/target/executable/stats/generate_pool_statistics/generate_pool_statistics
@@ -1,6 +1,6 @@
 #!/usr/bin/env bash

-# generate_pool_statistics v0.12.1
+# generate_pool_statistics v0.12.2
 # 
 # This wrapper script is auto-generated by viash 0.9.4 and is thus a derivative
 # work thereof. This software comes with ABSOLUTELY NO WARRANTY from Data
@@ -458,10 +458,10 @@ 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="2025-09-19T07:50:14Z"
+LABEL org.opencontainers.image.created="2025-09-23T12:11:20Z"
 LABEL org.opencontainers.image.source="https://github.com/viash-hub/htrnaseq"
-LABEL org.opencontainers.image.revision="32476d30426827c70014658cf0746ffcf55be62c"
-LABEL org.opencontainers.image.version="v0.12.1"
+LABEL org.opencontainers.image.revision="f0f85f57744b71e17ee3c0afe1a221cd20903aef"
+LABEL org.opencontainers.image.version="v0.12.2"

 VIASHDOCKER
  fi
@@ -578,7 +578,7 @@ VIASH_DOCKER_RUN_ARGS=(-i --rm)

 # ViashHelp: Display helpful explanation about this executable
 function ViashHelp {
-  echo "generate_pool_statistics v0.12.1"
+  echo "generate_pool_statistics v0.12.2"
  echo ""
  echo "Arguments:"
  echo "    --nrReadsNrGenesPerChrom"
@@ -648,7 +648,7 @@ while [[ $# -gt 0 ]]; do
            shift 1
            ;;
        --version)
-            echo "generate_pool_statistics v0.12.1"
+            echo "generate_pool_statistics v0.12.2"
            exit
            ;;
        --nrReadsNrGenesPerChrom)
@@ -767,7 +767,7 @@ if [[ "$VIASH_ENGINE_TYPE" == "docker" ]]; then

  # determine docker image id
  if [[ "$VIASH_ENGINE_ID" == 'docker' ]]; then
-    VIASH_DOCKER_IMAGE_ID='images.viash-hub.com/vsh/htrnaseq/stats/generate_pool_statistics:v0.12.1'
+    VIASH_DOCKER_IMAGE_ID='images.viash-hub.com/vsh/htrnaseq/stats/generate_pool_statistics:v0.12.2'
  fi

  # print dockerfile
--- a/target/executable/stats/generate_well_statistics/.config.vsh.yaml
+++ b/target/executable/stats/generate_well_statistics/.config.vsh.yaml
@@ -1,6 +1,6 @@
 name: "generate_well_statistics"
 namespace: "stats"
-version: "v0.12.1"
+version: "v0.12.2"
 authors:
 - name: "Dries Schaumont"
  roles:
@@ -230,7 +230,7 @@ engines:
  id: "docker"
  image: "python:3.13-trixie"
  target_registry: "images.viash-hub.com"
-  target_tag: "v0.12.1"
+  target_tag: "v0.12.2"
  namespace_separator: "/"
  setup:
  - type: "apt"
@@ -260,11 +260,11 @@ build_info:
  output: "target/executable/stats/generate_well_statistics"
  executable: "target/executable/stats/generate_well_statistics/generate_well_statistics"
  viash_version: "0.9.4"
-  git_commit: "32476d30426827c70014658cf0746ffcf55be62c"
+  git_commit: "f0f85f57744b71e17ee3c0afe1a221cd20903aef"
  git_remote: "https://github.com/viash-hub/htrnaseq"
 package_config:
  name: "htrnaseq"
-  version: "v0.12.1"
+  version: "v0.12.2"
  summary: "A workflow for high-throughput RNA-seq data analyses.\n"
  description: "This workflow is designed to process high-throughput RNA-seq data,\
    \ where every\nwell of a microarray plate is a sample. A fasta file provided as\
@@ -296,7 +296,7 @@ package_config:
    \ '_viash.yaml'}\n"
  - ".engines += { type: \"native\" }"
  - ".engines[.type == 'docker'].target_registry := 'images.viash-hub.com'"
-  - ".engines[.type == 'docker'].target_tag := 'v0.12.1'"
+  - ".engines[.type == 'docker'].target_tag := 'v0.12.2'"
  keywords:
  - "bioinformatics"
  - "sequencing"
--- a/target/executable/stats/generate_well_statistics/_viash.yaml
+++ b/target/executable/stats/generate_well_statistics/_viash.yaml
@@ -1,5 +1,5 @@
 name: htrnaseq
-version: v0.12.1
+version: v0.12.2
 summary: |
  A workflow for high-throughput RNA-seq data analyses.
 description: "This workflow is designed to process high-throughput RNA-seq data, where every\nwell of a microarray plate is a sample. A fasta file provided as input\ndefines the mapping between sample barcodes and wells.\n\nThe workflow is built in a modular fashion, where most of the base functionality\nis provided by components from [`biobox`](https://www.viash-hub.com/packages/biobox/latest)\nsupplemented by custom base components and workflow components in this package.\n\nThe full workflow is split in two major subworkflows that can be run independently:\n\n* **Well-demultiplexing:** Split the input (plate/pool level) fastq files per well.\n* **Mapping, counting and QC:** Run per-well mapping, counting and generate QC reports.\n\nEach of those can be started individually, or the full workflow can be run in two ways:\n\n1. Run the [main workflow](https://www.viash-hub.com/packages/htrnaseq/v0.3.0/components/workflows/htrnaseq) \ncontaining the main functionality.\n2. Run the [(opinionated) `runner`](https://www.viash-hub.com/packages/htrnaseq/v0.3.0/components/workflows/runner) where a\nnumber of choices (input/output structure and location) have been made.\n\nInput for the workflow has to be `fastq` files (zipped or not). For bcl or other formats, please consider running\n[demultiplex](https://www.viash-hub.com/packages/demultiplex) first.\n"
--- a/target/executable/stats/generate_well_statistics/generate_well_statistics
+++ b/target/executable/stats/generate_well_statistics/generate_well_statistics
@@ -1,6 +1,6 @@
 #!/usr/bin/env bash

-# generate_well_statistics v0.12.1
+# generate_well_statistics v0.12.2
 # 
 # This wrapper script is auto-generated by viash 0.9.4 and is thus a derivative
 # work thereof. This software comes with ABSOLUTELY NO WARRANTY from Data
@@ -458,10 +458,10 @@ 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="2025-09-19T07:50:14Z"
+LABEL org.opencontainers.image.created="2025-09-23T12:11:20Z"
 LABEL org.opencontainers.image.source="https://github.com/viash-hub/htrnaseq"
-LABEL org.opencontainers.image.revision="32476d30426827c70014658cf0746ffcf55be62c"
-LABEL org.opencontainers.image.version="v0.12.1"
+LABEL org.opencontainers.image.revision="f0f85f57744b71e17ee3c0afe1a221cd20903aef"
+LABEL org.opencontainers.image.version="v0.12.2"

 VIASHDOCKER
  fi
@@ -578,7 +578,7 @@ VIASH_DOCKER_RUN_ARGS=(-i --rm)

 # ViashHelp: Display helpful explanation about this executable
 function ViashHelp {
-  echo "generate_well_statistics v0.12.1"
+  echo "generate_well_statistics v0.12.2"
  echo ""
  echo "Generate summary statistics from BAM files generated by STAR solo."
  echo ""
@@ -682,7 +682,7 @@ while [[ $# -gt 0 ]]; do
            shift 1
            ;;
        --version)
-            echo "generate_well_statistics v0.12.1"
+            echo "generate_well_statistics v0.12.2"
            exit
            ;;
        --input)
@@ -861,7 +861,7 @@ if [[ "$VIASH_ENGINE_TYPE" == "docker" ]]; then

  # determine docker image id
  if [[ "$VIASH_ENGINE_ID" == 'docker' ]]; then
-    VIASH_DOCKER_IMAGE_ID='images.viash-hub.com/vsh/htrnaseq/stats/generate_well_statistics:v0.12.1'
+    VIASH_DOCKER_IMAGE_ID='images.viash-hub.com/vsh/htrnaseq/stats/generate_well_statistics:v0.12.2'
  fi

  # print dockerfile
--- a/target/executable/utils/save_params/.config.vsh.yaml
+++ b/target/executable/utils/save_params/.config.vsh.yaml
@@ -1,6 +1,6 @@
 name: "save_params"
 namespace: "utils"
-version: "v0.12.1"
+version: "v0.12.2"
 argument_groups:
 - name: "Inputs"
  arguments:
@@ -128,7 +128,7 @@ engines:
  id: "docker"
  image: "python:3.12-slim"
  target_registry: "images.viash-hub.com"
-  target_tag: "v0.12.1"
+  target_tag: "v0.12.2"
  namespace_separator: "/"
  setup:
  - type: "apt"
@@ -151,11 +151,11 @@ build_info:
  output: "target/executable/utils/save_params"
  executable: "target/executable/utils/save_params/save_params"
  viash_version: "0.9.4"
-  git_commit: "32476d30426827c70014658cf0746ffcf55be62c"
+  git_commit: "f0f85f57744b71e17ee3c0afe1a221cd20903aef"
  git_remote: "https://github.com/viash-hub/htrnaseq"
 package_config:
  name: "htrnaseq"
-  version: "v0.12.1"
+  version: "v0.12.2"
  summary: "A workflow for high-throughput RNA-seq data analyses.\n"
  description: "This workflow is designed to process high-throughput RNA-seq data,\
    \ where every\nwell of a microarray plate is a sample. A fasta file provided as\
@@ -187,7 +187,7 @@ package_config:
    \ '_viash.yaml'}\n"
  - ".engines += { type: \"native\" }"
  - ".engines[.type == 'docker'].target_registry := 'images.viash-hub.com'"
-  - ".engines[.type == 'docker'].target_tag := 'v0.12.1'"
+  - ".engines[.type == 'docker'].target_tag := 'v0.12.2'"
  keywords:
  - "bioinformatics"
  - "sequencing"
--- a/target/executable/utils/save_params/_viash.yaml
+++ b/target/executable/utils/save_params/_viash.yaml
@@ -1,5 +1,5 @@
 name: htrnaseq
-version: v0.12.1
+version: v0.12.2
 summary: |
  A workflow for high-throughput RNA-seq data analyses.
 description: "This workflow is designed to process high-throughput RNA-seq data, where every\nwell of a microarray plate is a sample. A fasta file provided as input\ndefines the mapping between sample barcodes and wells.\n\nThe workflow is built in a modular fashion, where most of the base functionality\nis provided by components from [`biobox`](https://www.viash-hub.com/packages/biobox/latest)\nsupplemented by custom base components and workflow components in this package.\n\nThe full workflow is split in two major subworkflows that can be run independently:\n\n* **Well-demultiplexing:** Split the input (plate/pool level) fastq files per well.\n* **Mapping, counting and QC:** Run per-well mapping, counting and generate QC reports.\n\nEach of those can be started individually, or the full workflow can be run in two ways:\n\n1. Run the [main workflow](https://www.viash-hub.com/packages/htrnaseq/v0.3.0/components/workflows/htrnaseq) \ncontaining the main functionality.\n2. Run the [(opinionated) `runner`](https://www.viash-hub.com/packages/htrnaseq/v0.3.0/components/workflows/runner) where a\nnumber of choices (input/output structure and location) have been made.\n\nInput for the workflow has to be `fastq` files (zipped or not). For bcl or other formats, please consider running\n[demultiplex](https://www.viash-hub.com/packages/demultiplex) first.\n"
--- a/target/executable/utils/save_params/save_params
+++ b/target/executable/utils/save_params/save_params
@@ -1,6 +1,6 @@
 #!/usr/bin/env bash

-# save_params v0.12.1
+# save_params v0.12.2
 # 
 # This wrapper script is auto-generated by viash 0.9.4 and is thus a derivative
 # work thereof. This software comes with ABSOLUTELY NO WARRANTY from Data
@@ -453,10 +453,10 @@ RUN pip install --upgrade pip && \
  pip install --upgrade --no-cache-dir "pyyaml"

 LABEL org.opencontainers.image.description="Companion container for running component utils save_params"
-LABEL org.opencontainers.image.created="2025-09-19T07:50:13Z"
+LABEL org.opencontainers.image.created="2025-09-23T12:11:20Z"
 LABEL org.opencontainers.image.source="https://github.com/viash-hub/htrnaseq"
-LABEL org.opencontainers.image.revision="32476d30426827c70014658cf0746ffcf55be62c"
-LABEL org.opencontainers.image.version="v0.12.1"
+LABEL org.opencontainers.image.revision="f0f85f57744b71e17ee3c0afe1a221cd20903aef"
+LABEL org.opencontainers.image.version="v0.12.2"

 VIASHDOCKER
  fi
@@ -573,7 +573,7 @@ VIASH_DOCKER_RUN_ARGS=(-i --rm)

 # ViashHelp: Display helpful explanation about this executable
 function ViashHelp {
-  echo "save_params v0.12.1"
+  echo "save_params v0.12.2"
  echo ""
  echo "Save parameters to a YAML file"
  echo ""
@@ -639,7 +639,7 @@ while [[ $# -gt 0 ]]; do
            shift 1
            ;;
        --version)
-            echo "save_params v0.12.1"
+            echo "save_params v0.12.2"
            exit
            ;;
        --id)
@@ -763,7 +763,7 @@ if [[ "$VIASH_ENGINE_TYPE" == "docker" ]]; then

  # determine docker image id
  if [[ "$VIASH_ENGINE_ID" == 'docker' ]]; then
-    VIASH_DOCKER_IMAGE_ID='images.viash-hub.com/vsh/htrnaseq/utils/save_params:v0.12.1'
+    VIASH_DOCKER_IMAGE_ID='images.viash-hub.com/vsh/htrnaseq/utils/save_params:v0.12.2'
  fi

  # print dockerfile