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Last pushed: 3 years ago
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Ray Assembler

Signature: ray:[fastq A] -> contigs B, scaffolds C

Quickstart

  1. git clone https://github.com/bioboxes/ray
  2. cd ray
  3. docker build -t ray .
  4. sudo docker run -v /path/to/your/assembler.yaml:/bbx/input/biobox.yaml -v /path/to/reads.fastq.gz:/bbx/input/test1/reads.fastq.gz -v /path/to/output:/bbx/output ray default

Example biobox.yaml:

---
version: 0.9.0
arguments:
    - fastq:
      - id: "pe" 
        value: "/bbx/input/test1/reads.fastq.gz"
        type: paired

Required

  • gzipped reads with the path provided in biobox.yaml
  • mount your input files to /bbx/input.
  • mount your output directory to /bbx/output
  • mount your .yaml to /bbx/input/biobox.yaml
  • "default" task at the end of your docker run command
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bioboxes
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