Software and materials for the Boot Camp at Suranaree University of
Technology, 19-30 August
Before the workshop
Before the workshop, please do the following:
- Complete the Knowledge Survey and email back to
or print it out and hand it in when you
arrive at the Boot Camp venue.
- Prepare ONE PowerPoint SLIDE to introduce yourself and your
work, and send
We'll put those together and show them during the introductions
at the beginning of the workshop. The aspect ratio should be
4:3; go to Page Setup and select Slides sized for: On-screen
- Check the operating system on your LAPTOP: you should have
Windows 7, 8 or 10 or Mac 10.11 (El Capitan) or later. Linux
distros such as Ubuntu Xenial or Bionic should also work. Our software will not work on Windows XP or
'big cat' versions on Mac. If you have a Mac, you will need the XQuartz utility installed.
- Download and install the necessary software (see
below) on your laptop, in particular the R and JAGS
programs. If you need help from the IT department to install
software, ask them to go to http://bcss.org.my/software/
for more details. If you already have these installed, check
that you have recent versions.
- Download and preview the workshop materials (see
below). Look at the PDFs and the internet links. We don't
expect you to have read everything - and we won't actually use
everything - but you should know what's
in the folders.
You will need the following software installed on your laptop:
R, JAGS and
You should have R version 3.5.1 or later; if you have an older version please
install the newest. (Version 3.6.1 was released on 5 July.) You should have JAGS
version 4.2.0 or later, current version is 4.3.0. Uninstall old versions before
- You must have Windows 7, 8 or 10.
- Go to
page. and download the latest version, currently R-3.6.1-win.exe.
- Download and install
JAGS: look for the download link
just below the menu bar
here, or go
here and download the latest version, currently JAGS-4.3.0.exe.
- You must have Mac 10.11 (El Capitan) or later with the XQuartz utility.
- Go to
this web page. and go to "Latest release" section. The first link is
usually the one you want, currently R-3.6.1.pkg. Download and run this.
- When you first open R, you may get warning messages such as
During startup - Warning messages:
1: Setting LC_CTYPE failed, using "C"
2: Setting LC_COLLATE failed, using "C" ...etc
In that case run this line in R:
system("defaults write org.R-project.R force.LANG en_US.UTF-8")
then close R. When you open R again there should be no warnings.
- Download and install
this page. Read the installation information and download the latest
.dmg file, currently JAGS-4.3.0.dmg.
- JAGS does not appear in the Applications listed in Finder. To check that
it's installed, go to Finder > Applications > Utilities > Terminal and type
"jags". You should get a message with the version of JAGS.
Other R packages
- Open R and copy/paste the following line into the Console:
If you get a message asking "Do you want to install from
sources...", just click "No" or type "n" and press enter.
install.packages(c("wiqid", "shiny", "secr", "beeswarm", "jagsUI"))
If you have problems installing R packages, don't worry: we
can fix this at the beginning of the workshop.
A spreadsheet program
You should have either
Calc (which is free software) or Microsoft Excel 2010 or later;
other programs are likely ok but the instructors may not be familiar
A PDF reader
You need a PDF Reader which allows you to annotate PDFs, such as
The provisional schedule for the workshop is
Click here to download
materials for Days 1 to 3 (ZIP, 1.69MB)
Materials for the rest of the Boot Camp will be distributed later.
extract the files and put them in a folder on your hard disk, eg, in
Documents. Don't put them on the Desktop as some programs can't easily access the
Please "think before you print"! Paper copies of
the files beginning "PRN_..." will be distributed at the workshop.
The instructor team
Ngumbang Juat, BCSS staff and gibbon researcher.
Lukmann Haqeem bin Alen ("Bob"), WWF
Colin Strine, Suranaree University