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mkdocs.yml
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mkdocs.yml
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site_name: 'UPPMAX: Singularity workshop'
repo_url: https://github.com/pmitev/UPPMAX-Singularity-workshop
edit_uri: edit/main/docs/
nav:
- Home: index.md
- How to install: installation.md
- Building remotely: remote_builder.md
- Building with --fakeroot: fakeroot.md
- First steps:
- 1.Running containrs from online repositories: remote_repositories.md
- 2.Running Singularity container: running_singularity.md
- 3.Building a container: build_container.md
- 4.Something easy - exercise: exercise_00.md
- 5.Build own container - exercise: own_container.md
- 6.Inspect containers: inspect.md
- Additional:
- Building interactively (sandbox): sandbox.md
- NVIDIA Deep Learning Frameworks: PyTorch_NVIDIA.md
- Upload to Sylabs container library: exercise_02.md
- Goods and bads: goods_bads.md
- Ubuntu template: ubuntu_template.md
- Case Studies:
- Portable BioTools: CaseStudies/portable_biotools.md
- R.ROSETTA - R, wine, 32 bit: CaseStudies/R.ROSETTA.md
- SLURM in container: CaseStudies/SLURM_in_container.md
- Offline conda installer: CaseStudies/conda-offline.md
- ORFfinder on Rackham: CaseStudies/ORFfinder.md
- arcasHLA in Singularity: CaseStudies/arcasHLA.md
- VESPA (conda, python2): CaseStudies/VESPA.md
- gapseq enviroment: CaseStudies/gapseq.md
- Jamovi Server: CaseStudies/jamovi.md
- GitHub2Docker2Singularity: CaseStudies/github2docker2singularity.md
- VSCode in Singularity: CaseStudies/VScode.md
- MariaDB Server: CaseStudies/mariadb.md
- FUSE overlayfs: CaseStudies/fuse-overlayfs.md
- QEMU-utils: CaseStudies/qemu-utils.md
- Advanced:
- Singularity and MPI: mpi_applications.md
- Gromacs in a container: mpi_gromacs.md
- Singularity MPI@Kebnekaise: openmpi-benchmark.md
- Convert Docker image to Singularity container: docker2singularity.md
- Building from Singularity image: localimage.md
- Multi-Stage Builds: multi-stage_builds.md
- Indirect calls: indirect-call.md
- UPPMAX in a can: uppmax_in_a_can.md
- Practical information: practical_information.md
- About: about.md
theme:
palette:
# Light mode
- media: "(prefers-color-scheme: light)"
scheme: default
primary: indigo
accent: indigo
toggle:
icon: material/toggle-switch-off-outline
name: Switch to dark mode
# Dark mode
- media: "(prefers-color-scheme: dark)"
scheme: slate
primary: blue
accent: blue
toggle:
icon: material/toggle-switch
name: Switch to light mode
name: material
custom_dir: overrides
features:
- search.highlight
- content.code.annotate
- content.code.copy
markdown_extensions:
- admonition
- footnotes
- pymdownx.details
- pymdownx.superfences
- pymdownx.inlinehilite
- pymdownx.keys
- pymdownx.snippets
- pymdownx.tabbed
- pymdownx.smartsymbols
- footnotes
- attr_list
- def_list
- meta
- pymdownx.caret
- pymdownx.mark
- pymdownx.tilde
- pymdownx.highlight:
use_pygments: true
- pymdownx.tasklist:
custom_checkbox: true
- pymdownx.arithmatex:
generic: true
- pymdownx.emoji:
emoji_index: !!python/name:material.extensions.emoji.twemoji
emoji_generator: !!python/name:material.extensions.emoji.to_svg
extra_javascript:
- javascripts/config.js
- https://polyfill.io/v3/polyfill.min.js?features=es6
- https://cdn.jsdelivr.net/npm/mathjax@3/es5/tex-mml-chtml.js
site_url: https://pmitev.github.io/UPPMAX-Singularity-workshop/