From 3838928d2f17e73a972f31290a6d6600407e01af Mon Sep 17 00:00:00 2001 From: FranBonath Date: Wed, 20 Mar 2024 15:13:42 +0100 Subject: [PATCH] adding page navigation for tools training --- .../nf_core_basic_training/add_custom_module.md | 9 +++++++++ .../nf_core_basic_training/add_nf_core_module.md | 9 +++++++++ .../nf_core_basic_training/gitpod_environment.md | 8 ++++++++ .../docs/contributing/nf_core_basic_training/index.md | 10 +++++----- .../nf_core_basic_training/linting_modules.md | 9 +++++++++ .../nf_core_basic_training/nf_core_create_tool.md | 9 +++++++++ .../contributing/nf_core_basic_training/nf_schema.md | 9 +++++++++ .../nf_core_basic_training/template_walk_through.md | 9 +++++++++ 8 files changed, 67 insertions(+), 5 deletions(-) diff --git a/src/content/docs/contributing/nf_core_basic_training/add_custom_module.md b/src/content/docs/contributing/nf_core_basic_training/add_custom_module.md index 3812f9946c..e78c92cc6b 100644 --- a/src/content/docs/contributing/nf_core_basic_training/add_custom_module.md +++ b/src/content/docs/contributing/nf_core_basic_training/add_custom_module.md @@ -301,3 +301,12 @@ In the directory `exercise_6` you will find the custom script `print_hello.py`, ::: + +

+ + < go to Chapter 4 + + + go to Chapter 6 > + +

diff --git a/src/content/docs/contributing/nf_core_basic_training/add_nf_core_module.md b/src/content/docs/contributing/nf_core_basic_training/add_nf_core_module.md index 110b68f77a..3612c0492f 100644 --- a/src/content/docs/contributing/nf_core_basic_training/add_nf_core_module.md +++ b/src/content/docs/contributing/nf_core_basic_training/add_nf_core_module.md @@ -452,3 +452,12 @@ comparison to simple nextflow pipeline from the basic Nextflow training would be ::: + +

+ + < go to Chapter 3 + + + go to Chapter 5 > + +

diff --git a/src/content/docs/contributing/nf_core_basic_training/gitpod_environment.md b/src/content/docs/contributing/nf_core_basic_training/gitpod_environment.md index 511ee6dab8..fc36f7ebba 100644 --- a/src/content/docs/contributing/nf_core_basic_training/gitpod_environment.md +++ b/src/content/docs/contributing/nf_core_basic_training/gitpod_environment.md @@ -68,3 +68,11 @@ If you have lost your environment, you can find the main scripts used in this tu To save any file locally from the explorer panel, right-click the file and select Download. +

+ + < go to training index + + + go to Chapter 2 > + +

diff --git a/src/content/docs/contributing/nf_core_basic_training/index.md b/src/content/docs/contributing/nf_core_basic_training/index.md index 96945c70b9..48492afcac 100644 --- a/src/content/docs/contributing/nf_core_basic_training/index.md +++ b/src/content/docs/contributing/nf_core_basic_training/index.md @@ -59,7 +59,7 @@ c) Running the pipeline using the test profile d) Linting the pipeline

- + Chapter 3 - Exploring the nf-core template files

@@ -67,22 +67,22 @@ d) Linting the pipeline The template contains a range of important files and directories. This chapter is giving explanations to all the template content important to beginners.

- + Chapter 4 - Adding a nf-core module to your pipeline

- + Chapter 5 - Adding a local custom module to your pipeline

- + Chapter 6 - Working with Nextflow schema

- + Chapter 7 - Linting your modules

diff --git a/src/content/docs/contributing/nf_core_basic_training/linting_modules.md b/src/content/docs/contributing/nf_core_basic_training/linting_modules.md index b80abf407f..2f627e29c0 100644 --- a/src/content/docs/contributing/nf_core_basic_training/linting_modules.md +++ b/src/content/docs/contributing/nf_core_basic_training/linting_modules.md @@ -12,3 +12,12 @@ As well as the pipeline template you can lint individual or all modules with a s nf-core modules lint --all ``` + +

+ + < go to Chapter 6 + + + go to training index > + +

diff --git a/src/content/docs/contributing/nf_core_basic_training/nf_core_create_tool.md b/src/content/docs/contributing/nf_core_basic_training/nf_core_create_tool.md index 18debb141a..79846a01ad 100644 --- a/src/content/docs/contributing/nf_core_basic_training/nf_core_create_tool.md +++ b/src/content/docs/contributing/nf_core_basic_training/nf_core_create_tool.md @@ -357,3 +357,12 @@ nf-core lint ::: + +

+ + < go to Chapter 1 + + + go to Chapter 3 > + +

diff --git a/src/content/docs/contributing/nf_core_basic_training/nf_schema.md b/src/content/docs/contributing/nf_core_basic_training/nf_schema.md index 4bde325e93..3c2e267ee6 100644 --- a/src/content/docs/contributing/nf_core_basic_training/nf_schema.md +++ b/src/content/docs/contributing/nf_core_basic_training/nf_schema.md @@ -62,3 +62,12 @@ Here in the schema editor you can edit: ::: + +

+ + < go to Chapter 5 + + + go to Chapter 7 > + +

diff --git a/src/content/docs/contributing/nf_core_basic_training/template_walk_through.md b/src/content/docs/contributing/nf_core_basic_training/template_walk_through.md index 21f7d67f97..a24fea20cc 100644 --- a/src/content/docs/contributing/nf_core_basic_training/template_walk_through.md +++ b/src/content/docs/contributing/nf_core_basic_training/template_walk_through.md @@ -196,3 +196,12 @@ This file keeps track of modules installed using nf-core tools from the nf-core/ [MORE QUESTIONS CAN BE ADDED HERE] ::: + +

+ + < go to Chapter 2 + + + go to Chapter 4 > + +