<h1 id="2024-02-19"><a aria-hidden="true" class="anchor-heading icon-link" href="#2024-02-19"></a>2024-02-19</h1>
<h1 id="this-is-pmass-commons-lab-daily-open-notebook"><a aria-hidden="true" class="anchor-heading icon-link" href="#this-is-pmass-commons-lab-daily-open-notebook"></a>This is PMAS's COMMONS Lab daily Open Notebook.</h1>
<p>Today is 2024.02.19</p>
<h2 id="todo-today"><a aria-hidden="true" class="anchor-heading icon-link" href="#todo-today"></a>Todo today</h2>
<h3 id="have-a-look-at-the-commons-research-discussion-forum"><a aria-hidden="true" class="anchor-heading icon-link" href="#have-a-look-at-the-commons-research-discussion-forum"></a>Have a look at the COMMONS research discussion forum</h3>
<pre><code>- https://github.com/orgs/commons-research/discussions
</code></pre>
<h3 id="daily-work-on-the-open-science-for-natural-products-research-viewpoint"><a aria-hidden="true" class="anchor-heading icon-link" href="#daily-work-on-the-open-science-for-natural-products-research-viewpoint"></a>Daily work on the Open Science for natural products research Viewpoint</h3>
<p>See <a href="/commons-dws-public/notes/43p60vv8btyhaclugl93jok">Viewpoint</a></p>
<h3 id=""><a aria-hidden="true" class="anchor-heading icon-link" href="#"></a></h3>
<h3 id="-1"><a aria-hidden="true" class="anchor-heading icon-link" href="#-1"></a></h3>
<h2 id="doing"><a aria-hidden="true" class="anchor-heading icon-link" href="#doing"></a>Doing</h2>
<h2 id="paused"><a aria-hidden="true" class="anchor-heading icon-link" href="#paused"></a>Paused</h2>
<h2 id="done"><a aria-hidden="true" class="anchor-heading icon-link" href="#done"></a>Done</h2>
<h2 id="notes"><a aria-hidden="true" class="anchor-heading icon-link" href="#notes"></a>Notes</h2>
<h2 id="todo-tomorrow-one-day--or-never"><a aria-hidden="true" class="anchor-heading icon-link" href="#todo-tomorrow-one-day--or-never"></a>Todo tomorrow, one day ... or never</h2>
<h3 id="-2"><a aria-hidden="true" class="anchor-heading icon-link" href="#-2"></a></h3>
<h3 id="-3"><a aria-hidden="true" class="anchor-heading icon-link" href="#-3"></a></h3>
<h2 id="today-i-learned-that"><a aria-hidden="true" class="anchor-heading icon-link" href="#today-i-learned-that"></a>Today I learned that</h2>
<ul>
<li>Cmd+shift+L flags/un-flags an mail in Mail (MacOS)</li>
<li><a href="https://github.com/mikefarah/yq">https://github.com/mikefarah/yq</a> is a lightweight and portable command-line YAML, JSON and XML processor. yq uses jq like syntax but works with yaml files as well as json, xml, properties, csv and tsv. It doesn't yet support everything jq does - but it does support the most common operations and functions, and more is being added continuously.</li>
</ul>

Daily work on the Open Science for natural products research Viewpoint

Have a look at the COMMONS research discussion forum

This is PMAS's COMMONS Lab daily Open Notebook.

2024-02-19

Concrete steps to access and contribute to the DBGI Dendron


![](/assets/images/allard-lab.jpg)

Welcome the the COMMONS Lab Open Dendron !

In the [COMMONS Lab](https://www.unifr.ch/bio/en/groups/allard/) we intent to follow the [Open Notebook Science](https://en.wikipedia.org/wiki/Open-notebook_science) approach to document our research.

For this we use the [Dendron](https://www.dendron.so/) system as a mean to efficiently capture notes and publish them.

## What is this note

This note is a succinct tutorial note aiming to get you started in the use of the COMMONS Lab Dendron.

## Tutorial

### Dendron. 

#### What is Dendron ?

> Dendron is an open-source, local-first, markdown-based, note-taking tool. Think of it as a cache for everything that you care about - if you've spent more then five minutes solving a problem, you should never spent any more time solving the same exact problem.
> 
> Dendron is a knowledge base built by and for developers and integrates natively with IDEs like VS Code and VSCodium.

#### Where to get more info on Dendron ?

- You can get more information in the Dendron system at the official website www.dendron.so
- All the Dendron documentation is hosted here https://wiki.dendron.so/. It is, obviously, a Dendron itself.

#### Concrete steps to access and contribute to the DBGI Dendron

1. Install [VSCode](https://code.visualstudio.com/download)
2. Install [Dendron](https://marketplace.visualstudio.com/items?itemName=dendron.dendron) from the VSCode marketplace 
3. Clone the COMMONS Dendron repo

    In your terminal
    ```
    git clone https://github.com/commons-research/commons-dws-public.git
    ```
4. In VSCode open (File/Open) the cloned repository.
5. Voila ! You should now be in the COMMONS Lab Open Dendron.

Feel free to explore and contribute.
A first, important step could be to configure VSCode so that you can easily add a daily note. See steps described at [[open-notebook.commons.setup]]


## Questions, comments, suggestions ?

Feel free to contribute here https://github.com/orgs/commons-research/discussions

