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Add README, NOTES and code of conduct
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128 changes: 128 additions & 0 deletions CODE_OF_CONDUCT.md
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# Contributor Covenant Code of Conduct

## Our Pledge

We as members, contributors, and leaders pledge to make participation in our
community a harassment-free experience for everyone, regardless of age, body
size, visible or invisible disability, ethnicity, sex characteristics, gender
identity and expression, level of experience, education, socio-economic status,
nationality, personal appearance, race, religion, or sexual identity
and orientation.

We pledge to act and interact in ways that contribute to an open, welcoming,
diverse, inclusive, and healthy community.

## Our Standards

Examples of behavior that contributes to a positive environment for our
community include:

* Demonstrating empathy and kindness toward other people
* Being respectful of differing opinions, viewpoints, and experiences
* Giving and gracefully accepting constructive feedback
* Accepting responsibility and apologizing to those affected by our mistakes,
and learning from the experience
* Focusing on what is best not just for us as individuals, but for the
overall community

Examples of unacceptable behavior include:

* The use of sexualized language or imagery, and sexual attention or
advances of any kind
* Trolling, insulting or derogatory comments, and personal or political attacks
* Public or private harassment
* Publishing others' private information, such as a physical or email
address, without their explicit permission
* Other conduct which could reasonably be considered inappropriate in a
professional setting

## Enforcement Responsibilities

Community leaders are responsible for clarifying and enforcing our standards of
acceptable behavior and will take appropriate and fair corrective action in
response to any behavior that they deem inappropriate, threatening, offensive,
or harmful.

Community leaders have the right and responsibility to remove, edit, or reject
comments, commits, code, wiki edits, issues, and other contributions that are
not aligned to this Code of Conduct, and will communicate reasons for
moderation decisions when appropriate.

## Scope

This Code of Conduct applies within all community spaces, and also applies when
an individual is officially representing the community in public spaces.
Examples of representing our community include using an official e-mail
address, posting via an official social media account, or acting as an
appointed representative at an online or offline event.

## Enforcement

Instances of abusive, harassing, or otherwise unacceptable behavior may be
reported to the community leaders responsible for enforcement at
<[email protected]>. All complaints will be reviewed and investigated
promptly and fairly.

All community leaders are obligated to respect the privacy and security of the
reporter of any incident.

## Enforcement Guidelines

Community leaders will follow these Community Impact Guidelines in determining
the consequences for any action they deem in violation of this Code of Conduct:

### 1. Correction

**Community Impact**: Use of inappropriate language or other behavior deemed
unprofessional or unwelcome in the community.

**Consequence**: A private, written warning from community leaders, providing
clarity around the nature of the violation and an explanation of why the
behavior was inappropriate. A public apology may be requested.

### 2. Warning

**Community Impact**: A violation through a single incident or series
of actions.

**Consequence**: A warning with consequences for continued behavior. No
interaction with the people involved, including unsolicited interaction with
those enforcing the Code of Conduct, for a specified period of time. This
includes avoiding interactions in community spaces as well as external channels
like social media. Violating these terms may lead to a temporary or
permanent ban.

### 3. Temporary Ban

**Community Impact**: A serious violation of community standards, including
sustained inappropriate behavior.

**Consequence**: A temporary ban from any sort of interaction or public
communication with the community for a specified period of time. No public or
private interaction with the people involved, including unsolicited interaction
with those enforcing the Code of Conduct, is allowed during this period.
Violating these terms may lead to a permanent ban.

### 4. Permanent Ban

**Community Impact**: Demonstrating a pattern of violation of community
standards, including sustained inappropriate behavior, harassment of an
individual, or aggression toward or disparagement of classes of individuals.

**Consequence**: A permanent ban from any sort of public interaction within
the community.

## Attribution

This Code of Conduct is adapted from the [Contributor Covenant][homepage],
version 2.0, available at
https://www.contributor-covenant.org/version/2/0/code_of_conduct.html.

Community Impact Guidelines were inspired by [Mozilla's code of conduct
enforcement ladder](https://github.com/mozilla/diversity).

[homepage]: https://www.contributor-covenant.org

For answers to common questions about this code of conduct, see the FAQ at
https://www.contributor-covenant.org/faq. Translations are available at
https://www.contributor-covenant.org/translations.
157 changes: 157 additions & 0 deletions NOTES.md
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# Notes

This docker stack uses modified startup scripts from
[jupyter/docker-stacks](https://github.com/jupyter/docker-stacks).
:information_source: Nevertheless, all [Docker Options](https://github.com/jupyter/docker-stacks/blob/main/docs/using/common.md#docker-options)
and [Permission-specific configurations](https://github.com/jupyter/docker-stacks/blob/main/docs/using/common.md#permission-specific-configurations)
can be used for the images of this docker stack.

## Tweaks

In comparison to
[pangeo-data/jupyter-earth](https://github.com/pangeo-data/jupyter-earth), these
images are tweaked as follows:

### Jupyter startup scripts

Shell script [/usr/local/bin/start.sh](base/scripts/usr/local/bin/start.sh) is
modified to

* allow *bind mounting* of a home directory.

### Jupyter startup hooks

The following startup hooks are put in place:

* [/usr/local/bin/start-notebook.d/populate.sh](base/scripts/usr/local/bin/start-notebook.d/populate.sh)
to populate a *bind mounted* home directory `/home/jovyan`.
* [/usr/local/bin/before-notebook.d/init.sh](base/scripts/usr/local/bin/before-notebook.d/init.sh) to
* update timezone according to environment variable `TZ`.
* add locales according to environment variable `LANGS`.
* set locale according to environment variable `LANG`.
* use custom xinitrc (Xfce).
* set font to MesloLGS NF (Xfce Terminal).
* put inital settings in place (QGIS Desktop).
* copy plugin 'Processing Saga NextGen Provider' (QGIS Desktop).

### Custom scripts

[/usr/local/bin/busy](base/scripts/usr/local/bin/busy) is executed during
`screen`/`tmux` sessions to update the last-activity timestamps on JupyterHub.
:information_source: This prevents the [JupyterHub Idle Culler Service](https://github.com/jupyterhub/jupyterhub-idle-culler)
from shutting down idle or long-running Jupyter Notebook servers, allowing for
unattended computations.

### Environment variables

**Versions**

* `QGIS_VERSION`
* `JUPYTERHUB_VERSION`
* `JUPYTERLAB_VERSION`
* `PYTHON_VERSION`
* `GIT_VERSION`
* `OTB_VERSION`
* `TURBOVNC_VERSION`

**GRASS GIS**

* `GRASS_PYTHON`: Set to `/usr/bin/python3`

Otherwise, `grass` would use `/user/local/bin/python3`.
:information_source: `grass` was built against Python and packages from the distro's package repository.

**Orfeo Toolbox**

* `GDAL_DRIVER_PATH`: Set to `disable` (amd64 only)
* `OTB_APPLICATION_PATH`: Set to `/usr/local/lib/otb/applications` (amd64 only)
* `PYTHONPATH`: Set to `/usr/local/lib/otb/python` (amd64 only)

A subset of the environment variables used in [`otbenv.profile`](https://github.com/orfeotoolbox/OTB/blob/develop/Packaging/Files/otbenv.profile).

**Miscellaneous**

* `BASE_IMAGE`: Its very base, a [Docker Official Image](https://hub.docker.com/search?q=&type=image&image_filter=official).
* `PARENT_IMAGE`: The image it was derived from.
* `BUILD_DATE`: The date it was built (ISO 8601 format).

### Shell

The default shell is Zsh, further enhanced with

* Framework: [Oh My Zsh](https://ohmyz.sh/)
* Theme: [Powerlevel10k](https://github.com/romkatv/powerlevel10k#oh-my-zsh)
* Font: [MesloLGS NF](https://github.com/romkatv/powerlevel10k#fonts)

## Settings

### Default

* [Terminal IPython](base/conf/ipython/usr/local/etc/ipython/ipython_config.py):
* Only enable figure formats `svg` and `pdf` for Terminal IPython.
* [IPython kernel](base/conf/ipython/usr/local/etc/ipython/ipython_kernel_config.py):
* Only enable figure formats `svg` and `pdf` for IPython Kernel (Jupyter
Notebooks).
* [JupyterLab](base/conf/jupyterlab/usr/local/share/jupyter/lab/settings/overrides.json):
* Theme > Selected Theme: JupyterLab Dark
* Terminal > Font family: MesloLGS NF
* Python LSP Server: Example settings according to [jupyter-lsp/jupyterlab-lsp > Installation > Configuring the servers](https://github.com/jupyter-lsp/jupyterlab-lsp#configuring-the-servers)
* [Xfce xinitrc](base/conf/user/var/backups/skel/.config/xfce4/xinitrc):
* Allow users to set `LANG` in `~/.i18n` to change the system language.
* [Xfce Panel](base/conf/xfce/etc/xdg/xfce4/xfconf/xfce-perchannel-xml/xfce4-panel.xml):
* Hide 'Lock Screen' and 'Log Out...' because those kill the session.
(Removed: 'Log Out' from Applications)
(Disabled: Ctrl+Alt+Del to trigger session logout)
* [Xfce Terminal](base/conf/user/var/backups/skel/.config/xfce4/terminal/terminalrc):
* Set `FontName=MesloLGS NF 12` and `Encoding=UTF-8`.
* [QGIS Desktop](base/conf/user/var/backups/skel/.local/share/QGIS/QGIS3/profiles/default/QGIS/QGIS3.ini):
* Append `/usr/lib/python3/dist-packages` to `PYTHONPATH`.
:information_source: One distro refused to find the Python bindings to QGIS (at `/usr/lib/python3/dist-packages/qgis`)...
* Zsh
* Oh My Zsh: `~/.zshrc`
* Set PATH so it includes user's private bin if it exists
* Update last-activity timestamps while in screen/tmux session
* [Powerlevel10k](base/conf/user/var/backups/skel/.p10k.zsh): `p10k configure`
* Does this look like a diamond (rotated square)?: (y) Yes.
* Does this look like a lock?: (y) Yes.
* Does this look like a Debian logo (swirl/spiral)?: (y) Yes.
* Do all these icons fit between the crosses?: (y) Yes.
* Prompt Style: (3) Rainbow.
* Character Set: (1) Unicode.
* Show current time?: (2) 24-hour format.
* Prompt Separators: (1) Angled.
* Prompt Heads: (1) Sharp.
* Prompt Tails: (1) Flat.
* Prompt Height: (2) Two lines.
* Prompt Connection: (2) Dotted.
* Prompt Frame: (2) Left.
* Connection & Frame Color: (2) Light.
* Prompt Spacing: (2) Sparse.
* Icons: (2) Many icons.
* Prompt Flow: (1) Concise.
* Enable Transient Prompt?: (n) No.
* Instant Prompt Mode: (3) Off.

### Customise

* Terminal IPython: Create file `~/.ipython/profile_default/ipython_config.py`
* Valid figure formats: `png`, `retina`, `jpeg`, `svg`, `pdf`.
* IPython kernel: Create file
`~/.ipython/profile_default/ipython_kernel_config.py`
* Valid figure formats: `png`, `retina`, `jpeg`, `svg`, `pdf`.
* JupyterLab: Settings > Advanced Settings Editor
* code-server: Manage > Settings

* Zsh
* Oh My Zsh: Edit `~/.zshrc`.
* Powerlevel10k: Run `p10k configure` or edit `~/.p10k.zsh`.
* Update command:
`git -C ${ZSH_CUSTOM:-$HOME/.oh-my-zsh/custom}/themes/powerlevel10k pull`

## Python

The Python version is selected as follows:

* The latest [Python version numba is compatible with](https://numba.readthedocs.io/en/stable/user/installing.html#compatibility).

This Python version is installed at `/user/local/bin`.
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