| layout | venue | address | country | language | latitude | longitude | humandate | humantime | startdate | enddate | instructor | helper | collaborative_notes | eventbrite | ||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
workshop |
Max Planck Institute for Evolutionary Biology |
August Thienemann Strasse 2, 24306 Plön, Germany |
de |
en |
54 |
10 |
Nov 18-22, 2024 |
09:00 - 16:00 CEST |
2024-11-18 |
2023-11-22 |
|
|
|
{% comment %} See instructions in the comments below for how to edit specific sections of this workshop template. {% endcomment %}
{% comment %} HEADER
Edit the values in the block above to be appropriate for your workshop. If the value is not 'true', 'false', 'null', or a number, please use double quotation marks around the value, unless specified otherwise. And run 'make workshop-check' before committing to make sure that changes are good. {% endcomment %}
{% comment %} Check DC curriculum {% endcomment %}
{% if site.carpentry == "dc" %} {% unless site.curriculum == "dc-astronomy" or site.curriculum == "dc-ecology" or site.curriculum == "dc-genomics" or site.curriculum == "dc-socsci" or site.curriculum == "dc-geospatial" %}
_config.yml file (current value in _config.yml: "{{ site.curriculum }}", possible values: dc-astronomy, dc-ecology, dc-genomics, dc-socsci, or dc-geospatial). After editing this file, you need to run make serve again to see the changes reflected.
{% comment %} Check SWC curriculum {% endcomment %}
{% if site.carpentry == "swc" %} {% unless site.curriculum == "swc-inflammation" or site.curriculum == "swc-gapminder" %}
_config.yml file (current value in _config.yml: "{{ site.curriculum }}", possible values: swc-inflammation, or swc-gapminder). After editing this file, you need to run make serve again to see the changes reflected.
{% comment %} EVENTBRITE
This block includes the Eventbrite registration widget if 'eventbrite' has been set in the header. You can delete it if you are not using Eventbrite, or leave it in, since it will not be displayed if the 'eventbrite' field in the header is not set. {% endcomment %} {% if page.eventbrite %} Some adblockers block the registration window. If you do not see the registration box below, please check your adblocker settings.
<iframe src="https://www.eventbrite.com/tickets-external?eid={{page.eventbrite}}&ref=etckt" frameborder="0" width="100%" height="280px" scrolling="auto"> </iframe> {% endif %}{% comment %} INTRODUCTION
Edit the general explanatory paragraph below if you want to change the pitch. {% endcomment %} {% if site.carpentry == "swc" %} {% include swc/intro.html %} {% elsif site.carpentry == "dc" %} {% include dc/intro.html %} {% elsif site.carpentry == "lc" %} {% include lc/intro.html %} {% endif %}
{% if site.pilot %} This is a pilot workshop, testing out a lesson that is still under development. The lesson authors would appreciate any feedback you can give them about the lesson content and suggestions for how it could be further improved. {% endif %}
{% comment %} AUDIENCE
Explain who your audience is. (In particular, tell readers if the workshop is only open to people from a particular institution. {% endcomment %} {% if site.carpentry == "swc" %} {% include swc/who.html %} {% elsif site.carpentry == "dc" %} {% include dc/who.html %} {% elsif site.carpentry == "lc" %} {% include lc/who.html %} {% endif %}
{% comment %} LOCATION
This block displays the address and links to maps showing directions if the latitude and longitude of the workshop have been set. You can use https://www.latlong.net/ to find the lat/long of an address. {% endcomment %} {% assign begin_address = page.address | slice: 0, 4 | downcase %} {% if page.address == "online" %} {% assign online = "true_private" %} {% elsif begin_address contains "http" %} {% assign online = "true_public" %} {% else %} {% assign online = "false" %} {% endif %} {% if page.latitude and page.longitude and online == "false" %}
Where: {{page.address}}. Get directions with OpenStreetMap or Google Maps.
{% elsif online == "true_public" %}Where: online at {{page.address}}. If you need a password or other information to access the training, the instructor will pass it on to you before the workshop.
{% elsif online == "true_private" %}Where: This training will take place online. The instructors will provide you with the information you will need to connect to this meeting.
{% endif %}{% comment %} DATE
This block displays the date and links to Google Calendar. {% endcomment %} {% if page.humandate %}
When: {{page.humandate}}. {% include workshop_calendar.html %}
{% endif %}{% comment %} SPECIAL REQUIREMENTS
Modify the block below if there are any special requirements. {% endcomment %}
Requirements: {% if online == "false" %} We provide a standard PC with all required software installed.
Participants may bring a laptop with a Mac, Linux, or Windows operating system (not a tablet, Chromebook, etc.) that they have administrative privileges on. They should have a few specific software packages installed (listed below).
{% else %} Participants must have access to a computer with a {% endif %}{% comment %} ACCESSIBILITY
Modify the block below if there are any barriers to accessibility or special instructions. {% endcomment %}
Accessibility: {% if online == "false" %} We are committed to making this workshop accessible to everybody. For workshops at a physical location, the workshop organizers have checked that:
- The room is wheelchair / scooter accessible.
- Accessible restrooms are available.
Materials will be provided in advance of the workshop and large-print handouts are available if needed by notifying the organizers in advance. If we can help making learning easier for you (e.g. sign-language interpreters, lactation facilities) please get in touch (using contact details below) and we will attempt to provide them.
{% else %} We are dedicated to providing a positive and accessible learning environment for all. Please notify the instructors in advance of the workshop if you require any accommodations or if there is anything we can do to make this workshop more accessible to you. {% endif %}{% comment %} CONTACT EMAIL ADDRESS
Display the contact email address set in the configuration file. {% endcomment %}
Contact: Please email {% if page.email %} {% for email in page.email %} {% if forloop.last and page.email.size > 1 %} or {% else %} {% unless forloop.first %} , {% endunless %} {% endif %} {{email}} {% endfor %} {% else %} to-be-announced {% endif %} for more information.
Roles: To learn more about the roles at the workshop (who will be doing what), refer to our Workshop FAQ.
{% comment %} WHO CAN ATTEND?
If you would like to specify who can attend the workshop, you can use the section below.
Move the 'endcomment' tag above the beginning of the following
tag to make this section visible.
Edit the text to match who can attend the workshop. For instance:
- This workshop is open to affiliates to ABC university.
- This workshop is open to the public.
- If you are interested in attending this workshop, contact me@example.com for more information
{% endcomment %}
Who can attend?: This workshop is primarily targeted at early career scientists and students (Master or PhD students, early PostDocs) at MPI for Evolutionary Biology or affiliated institutions within the IMPRS graduate school. Should the allocated 24 seats not fill up, individuals from other institutions may apply as well. This will be communicated in due time.
1. **Introducing the Shell:** What is a command shell and why would I use one? 1. **Navigating Files and Directories**: How can I move around on my computer? How can I see what files and directories I have? How can I specify the location of a file or directory on my computer? 1. **Working With Files and Directories**: How can I create, copy, and delete files and directories? How can I edit files? 1. **Pipes and Filters**: How can I combine existing commands to do new things? 1. **Loops**: How can I perform the same actions on many different files? 1. **Shell Scripts**: How can I save and re-use commands? 1. **Finding Things**: How can I find files? How can I find things in files? 1. **Automated Version Control**: What is version control and why should I use it? 1. **Setting Up Git**: How do I get set up to use Git? 1. **Creating a Repository**: Where does Git store information? 1. **Tracking Changes**: How do I record changes in Git? How do I check the status of my version control repository? How do I record notes about what changes I made and why? 1. **Exploring History**: How can I identify old versions of files? How do I review my changes? How can I recover old versions of files? 1. **Ignoring Things**: How can I tell Git to ignore files I don’t want to track? 1. **Remotes in GitHub**: How do I share my changes with others on the web? 1. **Collaborating**: How can I use version control to collaborate with other people? 1. **Conflicts**: What do I do when my changes conflict with someone else’s? 1. **Open Science**: How can version control help me make my work more open? 1. **Licensing**: What licensing information should I include with my work? 1. **Citation**: How can I make my work easier to cite? 1. **Hosting**: Where should I host my version control repositories? 1. **Running and Quitting**: How can I run Python programs? 1. **Variables and Assignment**: How can I store data in programs? 1. **Data Types and Type Conversion**: What kinds of data do programs store? How can I convert one type to another? 1. **Built-in Functions and Help**: How can I use built-in functions? How can I find out what they do? What kind of errors can occur in programs? 1. **Libraries**: How can I use software that other people have written? How can I find out what that software does? 1. **Reading Tabular Data into DataFrames**: How can I read tabular data? 1. **Pandas DataFrames**: How can I do statistical analysis of tabular data? 1. **Plotting**: How can I plot my data? How can I save my plot for publishing? 1. **Lists**: How can I store multiple values? 1. **For Loops**: How can I make a program do many things? 1. **Conditionals**: How can programs do different things for different data? 1. **Looping Over Data Sets**: How can I process many data sets with a single command? 1. **Writing Functions**: How can I create my own functions? 1. **Variable Scope**: How do function calls actually work? How can I determine where errors occurred? 1. **Programming Style**: How can I make my programs more readable? How do most programmers format their code? How can programs check their own operation?
- Image data management
- Getting around in OMERO.web
- Getting data into OMERO
- Annotations: Add meaning to your data
- Producing publication ready figures
- Image data analysis in OMERO
- OMERO on the command line
Everyone who participates in Carpentries activities is required to conform to the Code of Conduct. This document also outlines how to report an incident if needed.
Report a Code of Conduct Incident
{% comment %} Collaborative Notes
If you want to use an Etherpad, go to
https://pad.carpentries.org/YYYY-MM-DD-site
where 'YYYY-MM-DD-site' is the identifier for your workshop, e.g., '2015-06-10-esu'.
Note we also have a CodiMD (the open-source version of HackMD) available at https://codimd.carpentries.org {% endcomment %} {% if page.collaborative_notes %}
We will use this collaborative document for chatting, taking notes, and sharing URLs and bits of code.
{% endif %}
{% comment %} SURVEYS - DO NOT EDIT SURVEY LINKS {% endcomment %}
Please be sure to complete these surveys before and after the workshop.
{% if site.carpentry == "incubator" %} {% elsif site.incubator_pre_survey or site.incubator_post_survey %}{% comment %} SCHEDULE
Show the workshop's schedule.
Small changes to the schedule can be made by modifying the
schedule.html found in the _includes folder for your
workshop type (swc, lc, or dc). Edit the items and
times in the table to match your plans. You may also want to
change 'Day 1' and 'Day 2' to be actual dates or days of the
week.
For larger changes, a blank template for a 4-day workshop
(useful for online teaching for instance) can be found in
_includes/custom-schedule.html. Add the times, and what
you will be teaching to this file. You may also want to add
rows to the table if you wish to break down the schedule
further. To use this custom schedule here, replace the block
of code below the Schedule <h2> header below with
{% include custom-schedule.html %}.
{% endcomment %}
{% comment %} Edit/replace the text above if you want to include a schedule table. See the contents of the _includes/custom-schedule.html file for an example of how one of these schedule tables is constructed. {% endcomment %}
{% if site.pilot %} The lesson taught in this workshop is being piloted and a precise schedule is yet to be established. The workshop will include regular breaks. Please contact the workshop organisers if you would like more information about the planned schedule. {% endif %}
{% comment %} SETUP
Delete irrelevant sections from the setup instructions. Each section is inside a 'div' without any classes to make the beginning and end easier to find.
This is the other place where people frequently make mistakes, so please preview your site before committing, and make sure to run 'tools/check' as well. {% endcomment %}
To participate in a {% if site.carpentry == "swc" %} Software Carpentry {% elsif site.carpentry == "dc" %} Data Carpentry {% elsif site.carpentry == "lc" %} Library Carpentry {% endif %} workshop, you will need access to software as described below. In addition, you will need an up-to-date web browser.
We maintain a list of common issues that occur during installation as a reference for instructors that may be useful on the Configuration Problems and Solutions wiki page.
{% comment %} For online workshops, the section below provides:
- installation instructions for the Zoom client
- recommendations for setting up Learners' workspace so they can follow along the instructions and the videoconferencing
If you do not use Zoom for your online workshop, edit the file
_includes/install_instructions/videoconferencing.html
to include the relevant installation instructions.
{% endcomment %}
{% if online != "false" %}
{% include install_instructions/videoconferencing.html %}
{% endif %}
{% comment %} These are the installation instructions for the tools used during the workshop. {% endcomment %}
{% if site.carpentry == "swc" %} {% include swc/setup.html %} {% elsif site.carpentry == "dc" %} {% include dc/setup.html %} {% elsif site.carpentry == "lc" %} {% include lc/setup.html %} {% elsif site.carpentry == "incubator" %} Please check the "Setup" page of [the lesson site]({{ site.incubator_lesson_site }}) for instructions to follow to obtain the software and data you will need to follow the lesson. {% endif %}