| layout | carpentry | venue | address | country | language | latlng | humandate | humantime | startdate | enddate | instructor | helper | collaborative_notes | eventbrite | ||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
workshop |
swc |
University of Illinois |
1030 National Center for Supercomputing Applications |
us |
en |
40.1149832,-88.2271851 |
Feb 7–8, 2019 |
9:00 am - 4:30 pm |
2019-02-07 |
2019-02-08 |
|
53441740685 |
{% 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 %} 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 %}
<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 page.carpentry == "swc" %} {% include sc/intro.html %} {% elsif page.carpentry == "dc" %} {% include dc/intro.html %} {% elsif page.carpentry == "lc" %} {% include lc/intro.html %} {% 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 page.carpentry == "swc" %} {% include sc/who.html %} {% elsif page.carpentry == "dc" %} {% include dc/who.html %} {% elsif page.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 http://itouchmap.com/latlong.html to find the lat/long of an address. {% endcomment %} {% if page.latlng %}
Where: {{page.address}}. Get directions with OpenStreetMap or Google Maps.
{% 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: Participants must 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). They are also required to abide by {% if page.carpentry == "swc" %} Software Carpentry's {% elsif page.carpentry == "dc" %} Data Carpentry's {% elsif page.carpentry == "lc" %} Library Carpentry's {% endif %} Code of Conduct.
{% comment %} ACCESSIBILITY
Modify the block below if there are any barriers to accessibility or special instructions. {% endcomment %}
Accessibility: We are committed to making this workshop accessible to everybody. The workshop organisers 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.
Acknowledgments: Local Software Carpentry and Data Carpentry workshops are made possible by the generous support of Computational Science and Engineering, Technology Services, the National Center for Supercomputing Applications, HPCBio at the Roy J. Carver Biotechnology Center with support through the Office of the Vice Chancellor for Research, and the home units of each of our instructors.
{% 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.
{% comment %} SCHEDULE
Show the workshop's schedule. 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. {% endcomment %}
{% comment %} DO NOT EDIT SURVEY LINKS {% endcomment %}
Surveys
{% if page.carpentry == "swc" %}Please be sure to complete these surveys before and after the workshop.
{% elsif page.carpentry == "dc" %}Please be sure to complete these surveys before and after the workshop.
{% elsif page.carpentry == "lc" %}Ask your instructor about pre- and post-workshop Survey details.
{% endif %}{% if page.carpentry == "swc" %} {% include sc/schedule.html %} {% elsif page.carpentry == "dc" %} {% include dc/schedule.html %} {% elsif page.carpentry == "lc" %} {% include lc/schedule.html %} {% endif %}
{% comment %} Collaborative Notes
If you want to use an Etherpad, go to
http://pad.software-carpentry.org/YYYY-MM-DD-site
where 'YYYY-MM-DD-site' is the identifier for your workshop, e.g., '2015-06-10-esu'. {% endcomment %} {% if page.collaborative_notes %}
We will use this collaborative document for chatting, taking notes, and sharing URLs and bits of code.
Supplementary materials for the workshop are available at go.illinois.edu/dc-genomics-supp.
{% endif %}{% comment %} SYLLABUS
Show what topics will be covered.
- If your workshop is R rather than Python, remove the comment around that section and put a comment around the Python section.
- Some workshops will delete SQL.
- Please make sure the list of topics is synchronized with what you intend to teach.
- You may need to move the div's with class="col-md-6" around inside the div's with class="row" to balance the multi-column layout.
This is one of the places where people frequently make mistakes, so please preview your site before committing, and make sure to run 'tools/check' as well. {% endcomment %}
{% if page.carpentry == "swc" %} {% include sc/syllabus.html %} {% elsif page.carpentry == "dc" %} {% include dc/syllabus.html %} {% elsif page.carpentry == "lc" %} {% include lc/syllabus.html %} {% 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 page.carpentry == "swc" %} Software Carpentry {% elsif page.carpentry == "dc" %} Data Carpentry {% elsif page.carpentry == "lc" %} Library Carpentry {% endif %} workshop, you will need access to the software described below. In addition, you will need an up-to-date web browser and a spreadsheet program such as Microsoft Excel or LibreOffice.
Bash is a commonly-used shell that gives you the power to do simple tasks more quickly.
- Download the Git for Windows installer.
- Run the installer and follow the steps bellow:
-
{% comment %} Git 2.8.2 Setup {% endcomment %}
{% comment %} Information {% endcomment %}
- Click on "Next". {% comment %} Select Components {% endcomment %}
- Click on "Next". {% comment %} Adjusting your PATH environment {% endcomment %}
- Keep "Use Git from the Windows Command Prompt" selected and click on "Next". If you forgot to do this programs that you need for the workshop will not work properly. If this happens rerun the installer and select the appropriate option. {% comment %} Choosing the SSH executable {% endcomment %}
- Click on "Next". {% comment %} Configuring the line ending conversions {% endcomment %}
- Keep "Checkout Windows-style, commit Unix-style line endings" selected and click on "Next". {% comment %} Configuring the terminal emulator to use with Git Bash {% endcomment %}
- Keep "Use Windows' default console window" selected and click on "Next". {% comment %} Configuring experimental performance tweaks {% endcomment %}
- Click on "Install". {% comment %} Installing {% endcomment %} {% comment %} Completing the Git Setup Wizard {% endcomment %}
- Click on "Finish".
-
If your "HOME" environment variable is not set (or you don't know what this is):
- Open command prompt (Open Start Menu then type
cmdand press [Enter]) -
Type the following line into the command prompt window exactly as shown:
setx HOME "%USERPROFILE%" - Press [Enter], you should see
SUCCESS: Specified value was saved. - Quit command prompt by typing
exitthen pressing [Enter]
- Open command prompt (Open Start Menu then type
This will provide you with both Git and Bash in the Git Bash program.
The default shell in all versions of macOS is Bash, so no
need to install anything. You access Bash from the Terminal
(found in
/Applications/Utilities).
See the Git installation video tutorial
for an example on how to open the Terminal.
You may want to keep
Terminal in your dock for this workshop.
Git is a version control system that lets you track who made changes to what when and has options for easily updating a shared or public version of your code on github.com. You will need a supported web browser (current versions of Chrome, Firefox or Safari, or Internet Explorer version 9 or above).
You will need an account at github.com for parts of the Git lesson. Basic GitHub accounts are free. We encourage you to create a GitHub account if you don't have one already. Please consider what personal information you'd like to reveal. For example, you may want to review these instructions for keeping your email address private provided at GitHub.
For OS X 10.9 and higher, install Git for Mac
by downloading and running the most recent "mavericks" installer from
this list.
After installing Git, there will not be anything in your /Applications folder,
as Git is a command line program.
For older versions of OS X (10.5-10.8) use the
most recent available installer labelled "snow-leopard"
available here.
When you're writing code, it's nice to have a text editor that is
optimized for writing code, with features like automatic
color-coding of key words. The default text editor on macOS and
Linux is usually set to Vim, which is not famous for being
intuitive. If you accidentally find yourself stuck in it, try
typing the escape key, followed by :q! (colon, lower-case 'q',
exclamation mark), then hitting Return to return to the shell.
nano is a basic editor and the default that instructors use in the workshop. To install it, download the {% if page.carpentry == "swc" %} Software Carpentry {% elsif page.carpentry == "dc" %} Data Carpentry {% elsif page.carpentry == "lc" %} Library Carpentry {% endif %} Windows installer and double click on the file to run it. This installer requires an active internet connection.
Others editors that you can use are Notepad++ or Sublime Text. Be aware that you must add its installation directory to your system path. Please ask your instructor to help you do this.
nano is a basic editor and the default that instructors use in the workshop. See the Git installation video tutorial for an example on how to open nano. It should be pre-installed.
Others editors that you can use are Text Wrangler or Sublime Text.
nano is a basic editor and the default that instructors use in the workshop. It should be pre-installed.
Others editors that you can use are Gedit, Kate or Sublime Text.
R is a programming language that is especially powerful for data exploration, visualization, and statistical analysis. To interact with R, we use RStudio.
Install R by downloading and running this .exe file from CRAN. Also, please install the RStudio IDE. Note that if you have separate user and admin accounts, you should run the installers as administrator (right-click on .exe file and select "Run as administrator" instead of double-clicking). Otherwise problems may occur later, for example when installing R packages.
Install R by downloading and running this .pkg file from CRAN. Also, please install the RStudio IDE.
You can download the binary files for your distribution
from CRAN. Or
you can use your package manager (e.g. for Debian/Ubuntu
run sudo apt-get install r-base and for Fedora run
sudo dnf install R). Also, please install the
RStudio IDE.
SQL is a specialized programming language used with databases. We use a simple database manager called SQLite in our lessons.
SQLite Studio is available for Windows, Mac, and Linux in either an installable or a portable form. (The portable form is helpful if you don't have installation rights on the computer you're using, or if you'd like to put it on a thumb drive to move from computer to computer.) SQLite Studio allows you a command line's power with a GUI's helpful visual reference.