[Redundans] v0.14a with de novo assembly module

[l.p.p...@gmail.com]

Dear all, 

I've just pushed development branch of Redundans with new de novo assembly module. It allows launching Redundans just with FastQ reads alone (without contigs) - contigs will be assembled in step 0. 

Note, this is very early version and errors/issues are expected, so don't waste time running very large genomes!  

To try it, just do: 

git clone -b de_novo --recursive https://github.com/lpryszcz/redundans.git && cd redundans && bin/.compile.sh

# run with de novo assembly step

./redundans.py -v -i test/*.fq.gz -o test/run.denovo

I've pushed it also to docker:

docker run -it -w /root/src/redundans lpryszcz/redundans:v0.14a ./redundans.py -v -i test/{600,5000}_{1,2}.fq.gz -o test/run.denovo

I'll be grateful for feedback! 

Bests, 

L.