From 6f7313230e57e44855b1b3e9353f0b96cffd622c Mon Sep 17 00:00:00 2001 From: Dominik <dominik.brilhaus@hhu.de> Date: Fri, 26 Aug 2022 11:00:01 +0200 Subject: [PATCH] rm cwl-dev --- runs/kallisto_collect/README.md | 2 +- runs/kallisto_collect/run.cwl | 2 +- runs/kallisto_index/README.md | 2 +- runs/kallisto_index/run.cwl | 2 +- runs/kallisto_quant/README.md | 2 +- runs/kallisto_quant/run.cwl | 2 +- runs/kallisto_sleuth/README.md | 2 +- runs/kallisto_sleuth/run.cwl | 2 +- runs/shiny_prep/README.md | 2 +- runs/shiny_prep/run.cwl | 2 +- workflows/kallisto_collect/workflow.cwl | 2 +- workflows/kallisto_index/workflow.cwl | 2 +- workflows/kallisto_quant/workflow.cwl | 2 +- workflows/kallisto_sleuth/workflow.cwl | 2 +- workflows/shiny_prep/workflow.cwl | 2 +- 15 files changed, 15 insertions(+), 15 deletions(-) diff --git a/runs/kallisto_collect/README.md b/runs/kallisto_collect/README.md index 644698a..08cf228 100644 --- a/runs/kallisto_collect/README.md +++ b/runs/kallisto_collect/README.md @@ -9,5 +9,5 @@ cd /Users/dominikbrilhaus/gitlab_dataplant/samplearc_rnaseq_adrian/runs/kallisto ```bash ### run with cwltool -cwltool --enable-dev run.cwl kallisto_collect.yml +cwltool run.cwl kallisto_collect.yml ``` diff --git a/runs/kallisto_collect/run.cwl b/runs/kallisto_collect/run.cwl index 3bd1e37..2736cc4 100644 --- a/runs/kallisto_collect/run.cwl +++ b/runs/kallisto_collect/run.cwl @@ -1,5 +1,5 @@ #!/usr/bin/env cwl-runner -cwlVersion: v1.2.0-dev1 +cwlVersion: v1.2 class: Workflow inputs: in_kallisto_results: diff --git a/runs/kallisto_index/README.md b/runs/kallisto_index/README.md index 2271f59..ac67bff 100644 --- a/runs/kallisto_index/README.md +++ b/runs/kallisto_index/README.md @@ -9,5 +9,5 @@ cd /Users/dominikbrilhaus/gitlab_dataplant/samplearc_rnaseq_adrian/runs/kallisto ```bash ### run with cwltool -cwltool --enable-dev run.cwl kallisto_index.yml +cwltool run.cwl kallisto_index.yml ``` diff --git a/runs/kallisto_index/run.cwl b/runs/kallisto_index/run.cwl index 848b96d..a115ab7 100644 --- a/runs/kallisto_index/run.cwl +++ b/runs/kallisto_index/run.cwl @@ -1,5 +1,5 @@ #!/usr/bin/env cwl-runner -cwlVersion: v1.2.0-dev1 +cwlVersion: v1.2 class: Workflow inputs: in_genome_ref: diff --git a/runs/kallisto_quant/README.md b/runs/kallisto_quant/README.md index b3a3ac8..86c10cd 100644 --- a/runs/kallisto_quant/README.md +++ b/runs/kallisto_quant/README.md @@ -9,5 +9,5 @@ cd /Users/dominikbrilhaus/gitlab_dataplant/samplearc_rnaseq_adrian/runs/kallisto ```bash ### run with cwltool -cwltool --enable-dev run.cwl kallisto_quant.yml +cwltool run.cwl kallisto_quant.yml ``` diff --git a/runs/kallisto_quant/run.cwl b/runs/kallisto_quant/run.cwl index 87cc30f..af2bc99 100644 --- a/runs/kallisto_quant/run.cwl +++ b/runs/kallisto_quant/run.cwl @@ -1,5 +1,5 @@ #!/usr/bin/env cwl-runner -cwlVersion: v1.2.0-dev1 +cwlVersion: v1.2 class: Workflow inputs: out_folder: diff --git a/runs/kallisto_sleuth/README.md b/runs/kallisto_sleuth/README.md index ade0a1e..8fc5582 100644 --- a/runs/kallisto_sleuth/README.md +++ b/runs/kallisto_sleuth/README.md @@ -9,5 +9,5 @@ cd /Users/dominikbrilhaus/gitlab_dataplant/samplearc_rnaseq_adrian/runs/kallisto ```bash ### run with cwltool -cwltool --enable-dev run.cwl kallisto_sleuth.yml +cwltool run.cwl kallisto_sleuth.yml ``` diff --git a/runs/kallisto_sleuth/run.cwl b/runs/kallisto_sleuth/run.cwl index 8035414..dc8b77a 100644 --- a/runs/kallisto_sleuth/run.cwl +++ b/runs/kallisto_sleuth/run.cwl @@ -1,5 +1,5 @@ #!/usr/bin/env cwl-runner -cwlVersion: v1.2.0-dev1 +cwlVersion: v1.2 class: Workflow inputs: in_sleuth: diff --git a/runs/shiny_prep/README.md b/runs/shiny_prep/README.md index d27503b..75aee01 100644 --- a/runs/shiny_prep/README.md +++ b/runs/shiny_prep/README.md @@ -9,5 +9,5 @@ cd /Users/dominikbrilhaus/gitlab_dataplant/samplearc_rnaseq_adrian/runs/kallisto ```bash ### run with cwltool -cwltool --enable-dev run.cwl shiny_prep.yml +cwltool run.cwl shiny_prep.yml ``` diff --git a/runs/shiny_prep/run.cwl b/runs/shiny_prep/run.cwl index 13e324a..4f5b2ad 100644 --- a/runs/shiny_prep/run.cwl +++ b/runs/shiny_prep/run.cwl @@ -1,5 +1,5 @@ #!/usr/bin/env cwl-runner -cwlVersion: v1.2.0-dev1 +cwlVersion: v1.2 class: Workflow inputs: out_folder: diff --git a/workflows/kallisto_collect/workflow.cwl b/workflows/kallisto_collect/workflow.cwl index a109fb0..b5ed0f7 100644 --- a/workflows/kallisto_collect/workflow.cwl +++ b/workflows/kallisto_collect/workflow.cwl @@ -1,5 +1,5 @@ #!/usr/bin/env cwl-runner -cwlVersion: v1.2.0-dev1 +cwlVersion: v1.2 class: CommandLineTool hints: DockerRequirement: diff --git a/workflows/kallisto_index/workflow.cwl b/workflows/kallisto_index/workflow.cwl index f102e5c..32635f7 100644 --- a/workflows/kallisto_index/workflow.cwl +++ b/workflows/kallisto_index/workflow.cwl @@ -1,5 +1,5 @@ #!/usr/bin/env cwl-runner -cwlVersion: v1.2.0-dev1 +cwlVersion: v1.2 class: CommandLineTool hints: DockerRequirement: diff --git a/workflows/kallisto_quant/workflow.cwl b/workflows/kallisto_quant/workflow.cwl index 90aa9da..1041d73 100644 --- a/workflows/kallisto_quant/workflow.cwl +++ b/workflows/kallisto_quant/workflow.cwl @@ -1,5 +1,5 @@ #!/usr/bin/env cwl-runner -cwlVersion: v1.2.0-dev1 +cwlVersion: v1.2 class: CommandLineTool hints: DockerRequirement: diff --git a/workflows/kallisto_sleuth/workflow.cwl b/workflows/kallisto_sleuth/workflow.cwl index ec2800b..48ac0b1 100644 --- a/workflows/kallisto_sleuth/workflow.cwl +++ b/workflows/kallisto_sleuth/workflow.cwl @@ -1,6 +1,6 @@ #!/usr/bin/env cwl-runner -cwlVersion: v1.2.0-dev1 +cwlVersion: v1.2 class: CommandLineTool hints: DockerRequirement: diff --git a/workflows/shiny_prep/workflow.cwl b/workflows/shiny_prep/workflow.cwl index 4caf713..0e059d4 100644 --- a/workflows/shiny_prep/workflow.cwl +++ b/workflows/shiny_prep/workflow.cwl @@ -1,5 +1,5 @@ #!/usr/bin/env cwl-runner -cwlVersion: v1.2.0-dev1 +cwlVersion: v1.2 class: CommandLineTool hints: DockerRequirement: -- GitLab