Perl YAML::XS is required to correctly parse YAML .moa/config files which can be slightly malformed by moa
Version 0.52 of YAML::XS works;
## Installing using cpan
$ cpan
get YAML::XS
make YAML::XS
install YAML::XS
quit
## Sanity check
perl -MYAML::XS -le 'print $YAML::XS::VERSION'
0.52
The GBS workshop in Palmerston North on 20 February 2014 used an example workflow which has been moa-fied.
PDFs of the workshop slides are available at;
http://www.genotypingbysequencing.org/GBS_Workshop_Feb_2014/
The pdf for the exercise is also available at;
http://ciedeakin.files.wordpress.com/2013/12/hands_on_exercise_20140219rje.pdf
-These pdfs could be added to this github repository so they are all in the one location.
Assuming moa is installed on the system, the approach is to clone the repository, and then run a bash script
to initialize each moa component of the workflow;
## Cloning the repository
git clone https://github.com/biospectrabysequencing/gbs_moa.git
cd gbs_moa
## Initialize each moa component
./buildMoa.sh
You should now be able to run any component of the workshop material (as long as it is in sequential order). For example;
## Traverse to first directory
cd cd 02_TagCounts/01_IndividualTagCounts/
## Check moa precommand/run/postcommands
moa status
## Run moa component
moa run
The GBS workshop in Palmerston North videos are available on youtube;
