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1) Talked with NCI, Spyridon and Tahsin and discussed hardware requirements and things to keep in mind for future challenges.

Planned for next month

1) Document installation of epad and caMicroscope

2) Learn how to use ePAD and caMicroscope within MedICI (CodaLab).


Things that went well:

  • We ran the dockers successfully. 

    • Do we want to continue using docker containers? Yes

  • Participants were able to submit their resultant *.csv files relatively easily.

  • *.tiff files are better to hide meta-data and are more simple. 

Things that could be improved:

  • The participant dockers seemed to be able to delete a couple of images. I think participants shouldn’t be able to adjust files their containers are mounted to. This might be as simple as read-only permissions. Cuong says we can mount files to dockers with read-only permissions.

  • We should finalize metrics for the script so that the final leaderboard columns are as we expected.

  • We should know if we will need to use shm (shared memory size) before hand:

$ sudo docker run --runtime=nvidia --shm-size 50G -v /home/bbearce/input_images:/data/images -v /home/bbearce/yunzhe_docker_run/output_result:/data/output xyzacademic/njit_datasci:cpmv

  • Remember to delete the index.html files that come with a curl or wget command. This caused some errors and confusion for participants.

  • Docker worker container needs updated python for certain scikit-learn methods.

  • Is there any way to check if a team has multiple screen names or accounts ahead of time?

  • FTP:

    • Server on same VM as CodaLab.

    • Have data available all year so participants have more time. 

Bi-weekly Meeting #1


Bi-weekly Meeting #2



Installed caMicrscope10/03/2019
Installed ePAD10/08/2019
Generated 2 sets of participant results to check that even though results are different between runs, they are generally the same between runs.

Ongoing but should be finished  


DescriptionResolutionStatusCreation DateClose Date
Figure out how to run a docker through CodaLabIn ProgressIn progress10/09/2019--
Finish ePAD tutorials (they are online)In ProgressIn progress10/09/201910/15/2019
Contact Ryan Birmingham for caMicroscope tutorialIn ProgressCoordinating with Ryan




DescriptionMitigationRankStatusCreation DateRealizationClose Date

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