Closed ealsop closed 4 years ago
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
)
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
)
— You are receiving this because you authored the thread. Reply to this email directly, view it on GitHub https://github.com/YeoLab/eclip/issues/9#issuecomment-659684752, or unsubscribe https://github.com/notifications/unsubscribe-auth/AGNPPFV53SY2HEGPZQIBRI3R35WOZANCNFSM4O42KMVA .
--
Eric Alsop
Computational Scientist
Translational Genomics Research Institute
445 North 5th Street, Phoenix, AZ 85004
ealsop@tgen.org | Ph: 602.343.8817 |
--
This electronic message is intended to be for the use only of the named recipient, and may contain information that is confidential or privileged, including patient health information. If you are not the intended recipient, you are hereby notified that any disclosure, copying, distribution or use of the contents of this message is strictly prohibited. If you have received this message in error or are not the named recipient, please notify us immediately by contacting the sender at the electronic mail address noted above, and delete and destroy all copies of this message. Thank you.
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?