From 7915b47b4672b8bb27d0bd996f7f2b5eb2b363a8 Mon Sep 17 00:00:00 2001
From: mirpedrol <mirp.julia@gmail.com>
Date: Wed, 22 Feb 2023 09:38:57 +0100
Subject: [PATCH 1/2] add repository_type to .nf-core.yml

---
 README.md | 16 ++++++++++++++--
 1 file changed, 14 insertions(+), 2 deletions(-)

diff --git a/README.md b/README.md
index 60dc102996..5c47e815d9 100644
--- a/README.md
+++ b/README.md
@@ -1032,6 +1032,8 @@ To list subworkflows installed in a local pipeline directory you can use `nf-cor
 
 <!-- RICH-CODEX
 working_dir: tmp/nf-core-nextbigthing
+before_command: >
+  echo "repository_type: pipeline" >> .nf-core.yml
 head: 25
 -->
 
@@ -1056,6 +1058,8 @@ A subworkflow installed this way will be installed to the `./subworkflows/nf-cor
 
 <!-- RICH-CODEX
 working_dir: tmp/nf-core-nextbigthing
+before_command: >
+  echo "repository_type: pipeline" >> .nf-core.yml
 -->
 
 ![`nf-core subworkflows install bam_rseqc`](docs/images/nf-core-subworkflows-install.svg)
@@ -1075,6 +1079,8 @@ You can update subworkflows installed from a remote repository in your pipeline
 
 <!-- RICH-CODEX
 working_dir: tmp/nf-core-nextbigthing
+before_command: >
+  echo "repository_type: pipeline" >> .nf-core.yml
 -->
 
 ![`nf-core subworkflows update --all --no-preview`](docs/images/nf-core-subworkflows-update.svg)
@@ -1134,6 +1140,8 @@ To delete a subworkflow from your pipeline, run `nf-core subworkflows remove`.
 
 <!-- RICH-CODEX
 working_dir: tmp/nf-core-nextbigthing
+before_command: >
+  echo "repository_type: pipeline" >> .nf-core.yml
 -->
 
 ![`nf-core subworkflows remove bam_rseqc`](docs/images/nf-core-subworkflows-remove.svg)
@@ -1162,10 +1170,10 @@ The `nf-core subworkflows create` command will prompt you with the relevant ques
 <!-- RICH-CODEX
 working_dir: tmp
 before_command: git clone https://github.com/nf-core/modules.git && cd modules
-fake_command: nf-core subworkflows create bam_stats_samtools --author @nf-core-bot  --label process_low --meta --force
+fake_command: nf-core subworkflows create bam_stats_samtools --author @nf-core-bot --force
 -->
 
-![`cd modules && nf-core subworkflows create bam_stats_samtools --author @nf-core-bot  --label process_low --meta --force`](docs/images/nf-core-subworkflows-create.svg)
+![`cd modules && nf-core subworkflows create bam_stats_samtools --author @nf-core-bot --force`](docs/images/nf-core-subworkflows-create.svg)
 
 ### Create a subworkflow test config file
 
@@ -1177,6 +1185,8 @@ After you have written a minimal Nextflow script to test your subworkflow in `/t
 working_dir: tmp/subworkflows
 extra_env:
   PROFILE: 'conda'
+before_command: >
+  echo "repository_type: modules" >> .nf-core.yml
 -->
 
 ![`nf-core subworkflows create-test-yml bam_stats_samtools --no-prompts --force`](docs/images/nf-core-subworkflows-create-test.svg)
@@ -1192,6 +1202,8 @@ working_dir: tmp/subworkflows
 timeout: 30
 extra_env:
   PROFILE: 'conda'
+before_command: >
+  echo "repository_type: pipeline" >> .nf-core.yml
 -->
 
 ![`nf-core subworkflows test bam_rseqc --no-prompts`](docs/images/nf-core-subworkflows-test.svg)

From c569daaed17d9a1e67a3887a92d45c8b4965904b Mon Sep 17 00:00:00 2001
From: mirpedrol <mirp.julia@gmail.com>
Date: Wed, 22 Feb 2023 09:44:40 +0100
Subject: [PATCH 2/2] add repository_type to .nf-core.yml

---
 README.md | 2 ++
 1 file changed, 2 insertions(+)

diff --git a/README.md b/README.md
index 5c47e815d9..fa4fc96d0e 100644
--- a/README.md
+++ b/README.md
@@ -1047,6 +1047,8 @@ This shows documentation about the subworkflow on the command line, similar to w
 
 <!-- RICH-CODEX
 working_dir: tmp/nf-core-nextbigthing
+before_command: >
+  echo "repository_type: pipeline" >> .nf-core.yml
 -->
 
 ![`nf-core subworkflows info bam_rseqc`](docs/images/nf-core-subworkflows-info.svg)