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Docker.md

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Use the Docker version

Install Docker

Please refer to Docker's manual page.

Pull the image of MultiBarcodePipeline

docker pull taobioinfo/multibarcodepipeline:latest

Run

# Get testing data from GitHub
git clone https://github.com/billzt/MultiBarcodePipeline.git
cd MultiBarcodePipeline/test

# run
# the parameter (TSV table) must be in relative path starting from the current working directory
docker run --rm --workdir=/home -v $(pwd):/home docker.io/taobioinfo/multibarcodepipeline amplicon_fish85_primers34.tsv

Limitations

  • Running speed is much slower than that on native Linux OS.
  • Paths of the inputted TSV table must be in relative path starting from the current working directory. That is, ./amplicon_fish85_primers34.tsv is OK, but /home/user/data/amplicon_fish85_primers34.tsv cannot be used.