Hi Team,
Can you please assist me with this error which I got after submitting the results to the validation phase.
subprocess.CalledProcessError: Command '['/work/CaPTk/bin/Utilities', '-i', 'RSNA_ASNR_MICCAI_BraTS2021_ValidationGT/BraTS2021_00153_seg.nii.gz', '-lsb', '3428993_predictions_sub_2/BraTS2021_00153.nii.gz', '-o', 'tmp.csv']' died with .
[job score.cwl] Max memory used: 1110MiB
INFO:cwltool:[job score.cwl] Max memory used: 1110MiB
[job score.cwl] Job error:
("Error collecting output for parameter 'results':\nbrats-dream-challenge-infra-main/score.cwl:46:7: Did not find output file with glob pattern: '['results.json']'", {})
ERROR:cwltool:[job score.cwl] Job error:
("Error collecting output for parameter 'results':\nbrats-dream-challenge-infra-main/score.cwl:46:7: Did not find output file with glob pattern: '['results.json']'", {})
Thanks
Himashi
Created by Himashi Peiris himashi @saruarlive Image size is 3 x 240 x 240 x 155. Here 3 refers to 3 classes(ET, TC, WT). I used data type float16 for the current submission. But I guess you can modify the data type to np.uint8 too. Hi, @himashi ,
What is your image size, 240x240x155 or 240x240x240x1? did you include channel dimension while saving the file? What data type have you used; np.uint8 or np.int16 or ?
Could you say a bit more?
@waliafarzana Initially my submission status was invalid and then I contacted BRATS about the issue. It took more than 24 hrs to get an evaluation. (I guess there was an issue from the server-side, but I am not sure) @himashi Can you see your submission immediately after submission is received or it takes some time to see the received submission in the leaderboard.? @ujjwalbaid Thank You.
@Monibor I included all of my ID.nii.gz files inside a single zip file. Hi @himashi
The leaderboard shows your results. Can you please elaborate on your submission file format?
Thanks
Monibor
Hi @himashi,
The issue is sorted out now. I could verify that your submission is evaluated now.
Ujjwal. Same error with me. Any update from BraTS team? No they haven't contacted me yet. I contained *.nii.gz files inside of a single zip and submitted the zip for evaluation. Did you get any solution from the BraTS team? I got similar errors while uploading ***.tar.gz file having the files named as "BraTS2021_00027.nii.gz", and so on.
STDERR: 2021-08-02T21:09:50.451497251Z 9cfa2b2fa408 2021-08-02 21:09:50,451 MainThread INFO cwltool: Resolved '/var/lib/docker/volumes/workflow_orchestrator_shared/_data/67b54dc2-ffb3-425d-8fa6-bf93d4e13234/brats-dream-challenge-infra-main/validation-phase-workflow.cwl' to 'file:///var/lib/docker/volumes/workflow_orchestrator_shared/_data/67b54dc2-ffb3-425d-8fa6-bf93d4e13234/brats-dream-challenge-infra-main/validation-phase-workflow.cwl'
STDERR: 2021-08-02T21:09:54.011750865Z 9cfa2b2fa408 2021-08-02 21:09:54,011 MainThread WARNING cwltool: Workflow checker warning:
Any update on this? I tried several times and gives me the same error. Is it a data issue on my side?
Thanks,
Himashi
Drop files to upload
Submission Evaluation INVALID due to an unknown error. page is loading…