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mkdocs.yml
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site_name: training.nextflow.io
site_url: https://training.nextflow.io/
repo_url: https://github.com/nextflow-io/training
repo_name: nextflow-io/training
nav:
- Home: index.md
- Environment setup:
- envsetup/index.md
- envsetup/01_setup.md
- envsetup/02_local.md
- Fundamentals Training:
- basic_training/index.md
- basic_training/orientation.md
- basic_training/intro.md
- basic_training/rnaseq_pipeline.md
- basic_training/containers.md
- basic_training/channels.md
- basic_training/processes.md
- basic_training/operators.md
- basic_training/groovy.md
- basic_training/modules.md
- basic_training/config.md
- basic_training/executors.md
- basic_training/seqera_platform.md
- basic_training/cache_and_resume.md
- basic_training/debugging.md
- Advanced Training:
- advanced/index.md
- advanced/orientation.md
- advanced/operators.md
- advanced/metadata.md
- advanced/grouping.md
- advanced/groovy.md
- advanced/structure.md
- advanced/configuration.md
- advanced/summary.md
- advanced/support.md
- Hello Nextflow:
- hello_nextflow/index.md
- hello_nextflow/01_orientation.md
- hello_nextflow/02_hello_world.md
- hello_nextflow/03_hello_gatk.md
- hello_nextflow/04_hello_modules.md
- hello_nextflow/05_hello_nf-test.md
- hello_nextflow/06_hello_config.md
- Configure nf-core:
- nf_customize/index.md
- nf_customize/01_orientation.md
- nf_customize/02_nf-core.md
- nf_customize/03_execution.md
- nf_customize/04_config.md
- nf_customize/05_tools.md
- Develop nf-core:
- nf_develop/index.md
- nf_develop/1_01_orientation.md
- nf_develop/1_02_create.md
- nf_develop/1_03_pipeline.md
- nf_develop/1_04_parameters.md
- Simple RNA-seq:
- hands_on/index.md
- hands_on/01_datasets.md
- hands_on/02_workflow.md
- hands_on/03_setup.md
- hands_on/04_implementation.md
- Troubleshooting:
- troubleshoot/index.md
- troubleshoot/01_orientation.md
- troubleshoot/01_exercise.md
- troubleshoot/02_exercise.md
- troubleshoot/03_exercise.md
- troubleshoot/04_exercise.md
- troubleshoot/05_exercise.md
- troubleshoot/06_exercise.md
theme:
name: material
custom_dir: docs/assets/overrides
language: en
logo: assets/img/nextflow-logo-white.png
favicon: assets/img/nextflow-icon.png
palette:
# Palette toggle for dark mode
- media: "(prefers-color-scheme: dark)"
scheme: slate
toggle:
icon: material/weather-night
name: Switch to light mode
# Palette toggle for light mode
- media: "(prefers-color-scheme: light)"
scheme: default
toggle:
icon: material/weather-sunny
name: Switch to dark mode
font:
text: Inter
code: Roboto Mono
features:
- content.action.edit
- content.code.annotate
- content.code.copy
- navigation.footer
- navigation.tabs
- navigation.top
- navigation.tracking
- search.share
- toc.follow
icon:
repo: fontawesome/brands/github
extra_css:
- assets/stylesheets/fonts.css
- assets/stylesheets/extra.css
# Set in docs/assets/overrides/partials/copyright.html
# so that we can have links and stuff
# copyright: Seqera
extra:
# Announcement banner for upcoming training
announcement:
active: false
date_text: March 5-6, 2024
register_url: https://nf-co.re/events/2024/training-foundational-march
# Analytics
analytics:
provider: google
property: G-244N3GEN75
consent:
title: Cookie consent
description: >-
We use cookies to recognize your repeated visits and preferences, as well
as to measure the effectiveness of our documentation and whether users
find what they're searching for. With your consent, you're helping us to
make our documentation better.
# Overridden in docs/assets/overrides/partials/social.html
# Still needs to be set to something here so that the partial is used
social:
- icon: fontawesome/brands/twitter
link: https://twitter.com/nextflowio
name: Nextflow on twitter
markdown_extensions:
- admonition
- attr_list
- md_in_html
- pymdownx.details
- pymdownx.emoji:
emoji_index: !!python/name:material.extensions.emoji.twemoji
emoji_generator: !!python/name:material.extensions.emoji.to_svg
- pymdownx.highlight:
anchor_linenums: true
- pymdownx.inlinehilite
- pymdownx.keys
- pymdownx.snippets:
base_path: ["."]
- pymdownx.snippets
- pymdownx.superfences:
preserve_tabs: true
- pymdownx.tabbed:
alternate_style: true
- tables
- toc:
title: On this page
permalink: true
plugins:
- enumerate-headings:
restart_increment_after:
- envsetup/01_setup.md
- basic_training/orientation.md
- advanced/orientation.md
- hello_nextflow/01_orientation.md
- nf_customize/01_orientation.md
- nf_develop/1_01_orientation.md
- troubleshoot/01_orientation.md
- hands_on/01_datasets.md
exclude:
- index.md
- help.md
- envsetup/index.md
- basic_training/index.md
- advanced/index.md
- hello_nextflow/index.md
- nf_customize/index.md
- nf_develop/index.md
- troubleshoot/index.md
- hands_on/index.md
- hands_on/solutions/*md
- hello_nextflow/*.md
- i18n:
docs_structure: suffix
fallback_to_default: true
languages:
- build: true
default: true
locale: en
name: English
- build: true
default: false
locale: pt
name: Português
- build: true
default: false
locale: es
name: Español
- build: true
default: false
locale: fr
name: Français
reconfigure_material: true
reconfigure_search: true
- search