Dockerfiles

[ealsop]

I am attempting to run the eCLIP pipeline but it appears to require a docker container. Further, docker would be my preferred execution methods. However, the Dockerfiles link in the readme (https://github.com/YeoLab/wrapped_tools) does not exist. Has the docker image been renamed or relocated?

[byee4]

Hi, I've been working on providing containers for each step as opposed to having one container for the entire pipeline. So if you can install CWL and Docker, the cwl-runner should be able to recognize and pull the necessary image required at each step. Otherwise, each CWL document should point to a tag that can also be used to refer to the image (ie.

hints:
  - class: DockerRequirement
    dockerPull: brianyee/clipper:997fe25532a5bdcf5957f2a467ca283bbd550303

)

[ealsop]

Thank you! This has resolved my issue.

On Thu, Jul 16, 2020 at 2:30 PM Brian Yee notifications@github.com wrote:

Hi, I've been working on providing containers for each step as opposed to having one container for the entire pipeline. So if you can install CWL and Docker, the cwl-runner should be able to recognize and pull the necessary image required at each step. Otherwise, each CWL document should point to a tag that can also be used to refer to the image (ie.

hints:

• class: DockerRequirement dockerPull: brianyee/clipper:997fe25532a5bdcf5957f2a467ca283bbd550303

)

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Eric Alsop

Computational Scientist

Translational Genomics Research Institute

445 North 5th Street, Phoenix, AZ 85004

ealsop@tgen.org | Ph: 602.343.8817 |

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