NIH | National Cancer Institute | NCI Wiki  

Versions Compared

Old Version 2

changes.mady.by.user Unknown User (bearceba)

Saved on

compared with

New Version 3

changes.mady.by.user Unknown User (bearceba)

Saved on

Key

  • This line was added.
  • This line was removed.
  • Formatting was changed.
Activities completed this month
  1. Added Okta as supported feature in MedICI GitHub and website.
  2. Wrapped up the SPIE-AAPM Breast Challenge and collect final scores for the challenge organizers. 
  3. Add support link and message regarding using the api for image and metadata downloads.
  4. Investigated Kheops and am finishing the report.
Planned for next month
  • Add Okta as supported feature in MedICI GitHub and website.
  • Wraped up the SPIE-AAPM Breast Challenge and collect final scores for the challenge organizers. 


    1. Continued ascertaining the validity of v2 codalab (codabench). I honestly haven't had too much time because of the covid challenge platform.
    2. Finished creating the MedNIST sample challenge on COVID-Kubernetes deployment and addressed some bugs listed below:
      1. FIXED: In results table the "FILENAME" is always "trackingid", needs to be the image that was submitted.
      2. FIXED: Image Uploads are slow and we need to address that. The solution we chose was to upload instructions for building an image and have it built on our server and then push it. Before we were sending 6+GB over HTTP. That was slow. Now we only send a couple MB and then we can build the image and send at much faster speeds. 
      3. NOT FIXED: Sometimes deleting an image from the repo changes the image upload html and I have to reset it. This shouldn't happen. This is quite elusive and I haven't spent a ton of time on it. It's really east to reset so it should never fully break the platform, but I do need to reset it every once in a while. I imagine this will become annoying over time and especially weekends.
    3. Setup DL-sparse-view CT Grand Challenge (I'm a little behind on this)
    Comments

    Things that went well:

    SPIE-AAPM Challenge for reference:

    1. . 
      UPDATE: I have a site setup: http://aapmchallenges.cloudapp.net/competitions/38
      Image Added


    Comments

    Things that went well:

    • NO UPDATE:
    spie-aapm-nci-dair.westus2.cloudapp.azure.com/
    • We won't need to go with plan-b anymore as it seems the kubernetes cluster deployment is working well.
    • Scoring program integration for SPIE-AAPM was seamless. Mateusz Buda, a data scientist working on the Breast challenge, created an easy to use evaluation script that I could tie into codalab and is being used to score submissions.
    • I have the start of the codabench deployed and it almost works. There is a problem with the static files not being able to be found so there is no style on the web app when browsed to.
    • The forum and issue tracker were used in the SPIE-AAPM challenge

    Things that could be improved:

    SPIE challenge test phase leader board was showing multiple submissions by participants and should only show their best score. I can and did fix it manually but it's not ideal.


    MeetingDate
    Bi-weekly Meeting #1
    07 Jan

     

    Bi-weekly Meeting #2
    21 Jan

    Milestones

    DescriptionDate
    • UI for uploading docker images is created.Fixed Image Upload Problem

     

    • COVID challenge plan-a is up and working

     

    ...