Please visit this page once you have done things necessary here: https://mskcc.github.io/on-boarding/
The best place to start would be to understand the data flow:
LIMS/SMILE -> Voyager -> JUNO
Learn more about the codebases listed below that form Voyager
Learn about the codebases the form mPATH
Projects, who to speak with, slack channel
MPath & CVR (Aijazuddin Syed/Anoop Balakrishnan Rema)
Voyager Projects [Beagle/Seqosystem/Ridgeback] (Sinisa Ivkovic/Nikhil Kumar/Allan Bolipata)
#voyager
LIMS (David Mcmanamon)
MDB (Angelica Ochoa/Benjamin Gross/Allan Bolipata)
#metadb-informatics
Toil/CWL (Nikhil Kumar)
ACCESS (Ronak Shah)
#msk-access
ACCESS Servers (HPC Request/Neeraj Paramasivam)
Resource | URL |
---|---|
Application | URL |
---|---|
ACCESS/Voyager team uses this to manage sprints/stories. In addition, ACCESS uses this to keep track of the statuses of samples.
Auto Track Sample Status
Internal Gitlab where MPath and other software is hosted.
http://crux.mskcc.org:8929/mpath
http://crux.mskcc.org:8929/access (forked from mpath repositories)
Code specific to ACCESS team pipelines.
Code for other CMO/MSK teams
Information on HPC/LSF
Beagle
Hermes
Ridgeback
LIMS
For Authentication ask your Manager: https://igolims.mskcc.org:8443/LimsRest/swagger-ui.html
Beagle API
http://silo:4001 (Staging)
http://voyager:5001 (Production)
Ridgeback API
http://silo:4003 (Staging)
http://voyager:5003 (Production)
Flower (Celery Task UI) for Voyager, for Production only
http://voyager:4001
ELK for Voyager
MPath (for Clinical)
MPath (for Research)
http://access01:7331/api/ui/
CVR (to be replaced by MPath)
cvr.mskcc.org:8083/