# How to start docker
=====================
Pull the docker image:
```docker pull binpro/concoct_cami```
And then run the docker container:
```docker run -v /data/location/:/bbx/input:ro \
-v /output/location/:/bbx/output:rw cami-concoct```
The input directory needs to have a file named ```biobox.yaml``` with contents similar to:
---
version: 0.9.0
arguments:
- fasta:
id: "fasta"
value: "/bbx/input/contigs/contigs.fasta"
type: "contig"
- fastq:
- id: "Sample116"
value: "/bbx/input/reads/Sample118.fq"
type: paired
- id: "Sample120"
value: "/bbx/input/reads/Sample120.fq"
type: paired
- id: "Sample127"
value: "/bbx/input/reads/Sample127.fq"
type: paired
- id: "Sample134"
value: "/bbx/input/reads/Sample134.fq"
type: paired
- id: "Sample177"
value: "/bbx/input/reads/Sample177.fq"
type: paired
If you wish to build the docker image from scratch:
```cd ~/repos/cami_15_03/
docker build -t binpro/concoct_cami .```