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Last pushed: 2 years ago
Short Description
Velvet 0.7.01 genome assembler
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##DOCKER FILE

FROM debian:wheezy

COPY velvet_0.7.01 velvet_0.7.01

ENV PACKAGES make gcc g++ libc6-dev zlib1g-dev

RUN apt-get update -y && apt-get install -y --no-install-recommends ${PACKAGES}

RUN make -C /velvet_0.7.01

RUN mv /velvet_0.7.01/velvet* /usr/bin

##Some use informations/recommendations

###To use this tool you should run the following command:

docker run -v /host/path/:/container/path/:rw ngspipes/velvet0.7 [velvet commands] [velvet arguments]

###Notes:

  • /host/path/: folder must have adapters of trimmomatic you want to use and all de data you need to use while running the trimmomatic tool.

  • /container/path/: directory path inside docker container to communicate directly with /host/path/.

We recommend to define output parameters /container/path/outputParameterValue.

###Example for usecase:

docker run -v /home/results/:/output/:rw ngspipes/velvet0.7 velveth /output/velvetdir 21 -fastq /output/.fastq

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ngspipes

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