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feat: gsalib tables #16

Merged
merged 12 commits into from
Dec 12, 2023
Merged

feat: gsalib tables #16

merged 12 commits into from
Dec 12, 2023

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drernie
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@drernie drernie commented Dec 12, 2023

Fixes #13

@drernie drernie linked an issue Dec 12, 2023 that may be closed by this pull request
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drernie commented Dec 12, 2023

DownloadURI.data: 1213443
/tmp/tmp06ih_buh/NA12878.hg38.recal_data.csv
s3:/omics-quilt-omicsquiltckaoutput712023778557useast-1r7hdb9111n3i/outputs/8637245/Arguments.csv
[ERROR] OSError: Cannot save file into a non-existent directory: 's3:/omics-quilt-omicsquiltckaoutput712023778557useast-1r7hdb9111n3i/outputs/8637245'
Traceback (most recent call last):

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drernie commented Dec 12, 2023

packageFolder.meta: {'options': {'region': 'us-east-1', 'time': '2023-12-11T23:01:23.456Z', 'type': 'ObjectCreated:Put', 'bucket': 'omics-quilt-omicsquiltckaoutput712023778557useast-1r7hdb9111n3i', 'key': 'outputs/8637245/out/bqsr_report/NA12878.hg38.recal_data.csv', 'package': 'outputs/8637245', 'debug': False}, 'context': {}}
[ERROR] S3NoValidClientError: S3 AccessDenied for S3Api.LIST_OBJECT_VERSIONS on bucket: omics-quilt-omicsquiltckaoutput712023778557useast-1r7hdb9111n3i
Traceback (most recent call last):
  File "/var/task/packager/index.py", line 9, in handler
    return handler.handleEvent(event)
  File "/var/task/packager/handler.py", line 65, in handleEvent
    meta = self.packageFolder(root, opts)

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drernie commented Dec 12, 2023

Apparently this is Quilt-specific error.

@drernie drernie merged commit b06b3b3 into main Dec 12, 2023
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@drernie drernie deleted the 13-gsalib-tables branch December 12, 2023 06:00
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Gsalib tables
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