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ncihtan / HTAN-data-curator

HTAN Data Ingest Shiny App
https://sagebio.shinyapps.io/HTAN-data-curator/
Apache License 2.0
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Data Dashboard causes disconnect for HTAN TNP - TMA #57

Open adamjtaylor opened 2 years ago

adamjtaylor commented 2 years ago

Logs

2022-11-29T10:59:37.253573+00:00 shinyapps[5806160]: ERROR: [2022-11-29 10:59:37] root - For the attribute 'Specimen Laterality', on row 1440, 'unknown' is not one of ['Bilateral', 'Not Applicable', 'Unknown', 'Right', 'Not Reported', 'Left'].
2022-11-29T10:59:37.254638+00:00 shinyapps[5806160]: ERROR: [2022-11-29 10:59:37] root - For the attribute 'Specimen Laterality', on row 1441, 'unknown' is not one of ['Bilateral', 'Not Applicable', 'Unknown', 'Right', 'Not Reported', 'Left', ''].
2022-11-29T10:59:37.254671+00:00 shinyapps[5806160]: ERROR: [2022-11-29 10:59:37] root - For the attribute 'Specimen Laterality', on row 1441, 'unknown' is not one of ['Bilateral', 'Not Applicable', 'Unknown', 'Right', 'Not Reported', 'Left'].
2022-11-29T10:59:37.255803+00:00 shinyapps[5806160]: ERROR: [2022-11-29 10:59:37] root - For the attribute 'Specimen Laterality', on row 1442, 'unknown' is not one of ['Bilateral', 'Not Applicable', 'Unknown', 'Right', 'Not Reported', 'Left', ''].
2022-11-29T10:59:37.255848+00:00 shinyapps[5806160]: ERROR: [2022-11-29 10:59:37] root - For the attribute 'Specimen Laterality', on row 1442, 'unknown' is not one of ['Bilateral', 'Not Applicable', 'Unknown', 'Right', 'Not Reported', 'Left'].
2022-11-29T10:59:37.256970+00:00 shinyapps[5806160]: ERROR: [2022-11-29 10:59:37] root - For the attribute 'Specimen Laterality', on row 1443, 'unknown' is not one of ['Bilateral', 'Not Applicable', 'Unknown', 'Right', 'Not Reported', 'Left', ''].
2022-11-29T10:59:37.257030+00:00 shinyapps[5806160]: ERROR: [2022-11-29 10:59:37] root - For the attribute 'Specimen Laterality', on row 1443, 'unknown' is not one of ['Bilateral', 'Not Applicable', 'Unknown', 'Right', 'Not Reported', 'Left'].
2022-11-29T10:59:37.258124+00:00 shinyapps[5806160]: ERROR: [2022-11-29 10:59:37] root - For the attribute 'Specimen Laterality', on row 1444, 'unknown' is not one of ['Bilateral', 'Not Applicable', 'Unknown', 'Right', 'Not Reported', 'Left', ''].
2022-11-29T10:59:37.258134+00:00 shinyapps[5806160]: ERROR: [2022-11-29 10:59:37] root - For the attribute 'Specimen Laterality', on row 1444, 'unknown' is not one of ['Bilateral', 'Not Applicable', 'Unknown', 'Right', 'Not Reported', 'Left'].
2022-11-29T10:59:37.259265+00:00 shinyapps[5806160]: ERROR: [2022-11-29 10:59:37] root - For the attribute 'Specimen Laterality', on row 1445, 'unknown' is not one of ['Bilateral', 'Not Applicable', 'Unknown', 'Right', 'Not Reported', 'Left', ''].
2022-11-29T10:59:37.259271+00:00 shinyapps[5806160]: ERROR: [2022-11-29 10:59:37] root - For the attribute 'Specimen Laterality', on row 1445, 'unknown' is not one of ['Bilateral', 'Not Applicable', 'Unknown', 'Right', 'Not Reported', 'Left'].
2022-11-29T10:59:37.260345+00:00 shinyapps[5806160]: ERROR: [2022-11-29 10:59:37] root - For the attribute 'Specimen Laterality', on row 1446, 'unknown' is not one of ['Bilateral', 'Not Applicable', 'Unknown', 'Right', 'Not Reported', 'Left', ''].
2022-11-29T10:59:37.260399+00:00 shinyapps[5806160]: ERROR: [2022-11-29 10:59:37] root - For the attribute 'Specimen Laterality', on row 1446, 'unknown' is not one of ['Bilateral', 'Not Applicable', 'Unknown', 'Right', 'Not Reported', 'Left'].
2022-11-29T10:59:37.261460+00:00 shinyapps[5806160]: ERROR: [2022-11-29 10:59:37] root - For the attribute 'Specimen Laterality', on row 1447, 'unknown' is not one of ['Bilateral', 'Not Applicable', 'Unknown', 'Right', 'Not Reported', 'Left', ''].
2022-11-29T10:59:37.261483+00:00 shinyapps[5806160]: ERROR: [2022-11-29 10:59:37] root - For the attribute 'Specimen Laterality', on row 1447, 'unknown' is not one of ['Bilateral', 'Not Applicable', 'Unknown', 'Right', 'Not Reported', 'Left'].
2022-11-29T10:59:37.262535+00:00 shinyapps[5806160]: ERROR: [2022-11-29 10:59:37] root - For the attribute 'Specimen Laterality', on row 1448, 'unknown' is not one of ['Bilateral', 'Not Applicable', 'Unknown', 'Right', 'Not Reported', 'Left', ''].
2022-11-29T10:59:37.262576+00:00 shinyapps[5806160]: ERROR: [2022-11-29 10:59:37] root - For the attribute 'Specimen Laterality', on row 1448, 'unknown' is not one of ['Bilateral', 'Not Applicable', 'Unknown', 'Right', 'Not Reported', 'Left'].
2022-11-29T10:59:37.263682+00:00 shinyapps[5806160]: ERROR: [2022-11-29 10:59:37] root - For the attribute 'Specimen Laterality', on row 1449, 'unknown' is not one of ['Bilateral', 'Not Applicable', 'Unknown', 'Right', 'Not Reported', 'Left', ''].
2022-11-29T10:59:37.264682+00:00 shinyapps[5806160]: ERROR: [2022-11-29 10:59:37] root - For the attribute 'Specimen Laterality', on row 1450, 'unknown' is not one of ['Bilateral', 'Not Applicable', 'Unknown', 'Right', 'Not Reported', 'Left', ''].
2022-11-29T10:59:37.265748+00:00 shinyapps[5806160]: ERROR: [2022-11-29 10:59:37] root - For the attribute 'Specimen Laterality', on row 1451, 'unknown' is not one of ['Bilateral', 'Not Applicable', 'Unknown', 'Right', 'Not Reported', 'Left', ''].
2022-11-29T10:59:37.265771+00:00 shinyapps[5806160]: ERROR: [2022-11-29 10:59:37] root - For the attribute 'Specimen Laterality', on row 1451, 'unknown' is not one of ['Bilateral', 'Not Applicable', 'Unknown', 'Right', 'Not Reported', 'Left'].
2022-11-29T10:59:37.266851+00:00 shinyapps[5806160]: ERROR: [2022-11-29 10:59:37] root - For the attribute 'Specimen Laterality', on row 1452, 'unknown' is not one of ['Bilateral', 'Not Applicable', 'Unknown', 'Right', 'Not Reported', 'Left', ''].
2022-11-29T10:59:37.266886+00:00 shinyapps[5806160]: ERROR: [2022-11-29 10:59:37] root - For the attribute 'Specimen Laterality', on row 1452, 'unknown' is not one of ['Bilateral', 'Not Applicable', 'Unknown', 'Right', 'Not Reported', 'Left'].
2022-11-29T10:59:37.267976+00:00 shinyapps[5806160]: ERROR: [2022-11-29 10:59:37] root - For the attribute 'Specimen Laterality', on row 1453, 'unknown' is not one of ['Bilateral', 'Not Applicable', 'Unknown', 'Right', 'Not Reported', 'Left', ''].
2022-11-29T10:59:37.268014+00:00 shinyapps[5806160]: ERROR: [2022-11-29 10:59:37] root - For the attribute 'Specimen Laterality', on row 1453, 'unknown' is not one of ['Bilateral', 'Not Applicable', 'Unknown', 'Right', 'Not Reported', 'Left'].
2022-11-29T10:59:37.269009+00:00 shinyapps[5806160]: ERROR: [2022-11-29 10:59:37] root - For the attribute 'Specimen Laterality', on row 1454, 'unknown' is not one of ['Bilateral', 'Not Applicable', 'Unknown', 'Right', 'Not Reported', 'Left', ''].
2022-11-29T10:59:37.270036+00:00 shinyapps[5806160]: ERROR: [2022-11-29 10:59:37] root - For the attribute 'Specimen Laterality', on row 1455, 'unknown' is not one of ['Bilateral', 'Not Applicable', 'Unknown', 'Right', 'Not Reported', 'Left', ''].
2022-11-29T10:59:37.270066+00:00 shinyapps[5806160]: ERROR: [2022-11-29 10:59:37] root - For the attribute 'Specimen Laterality', on row 1455, 'unknown' is not one of ['Bilateral', 'Not Applicable', 'Unknown', 'Right', 'Not Reported', 'Left'].
2022-11-29T10:59:37.271205+00:00 shinyapps[5806160]: ERROR: [2022-11-29 10:59:37] root - For the attribute 'Specimen Laterality', on row 1456, 'unknown' is not one of ['Bilateral', 'Not Applicable', 'Unknown', 'Right', 'Not Reported', 'Left', ''].
2022-11-29T10:59:37.271254+00:00 shinyapps[5806160]: ERROR: [2022-11-29 10:59:37] root - For the attribute 'Specimen Laterality', on row 1456, 'unknown' is not one of ['Bilateral', 'Not Applicable', 'Unknown', 'Right', 'Not Reported', 'Left'].
2022-11-29T10:59:37.272337+00:00 shinyapps[5806160]: ERROR: [2022-11-29 10:59:37] root - For the attribute 'Specimen Laterality', on row 1457, 'unknown' is not one of ['Bilateral', 'Not Applicable', 'Unknown', 'Right', 'Not Reported', 'Left', ''].
2022-11-29T10:59:37.272399+00:00 shinyapps[5806160]: ERROR: [2022-11-29 10:59:37] root - For the attribute 'Specimen Laterality', on row 1457, 'unknown' is not one of ['Bilateral', 'Not Applicable', 'Unknown', 'Right', 'Not Reported', 'Left'].
2022-11-29T10:59:37.273472+00:00 shinyapps[5806160]: ERROR: [2022-11-29 10:59:37] root - For the attribute 'Specimen Laterality', on row 1458, 'unknown' is not one of ['Bilateral', 'Not Applicable', 'Unknown', 'Right', 'Not Reported', 'Left', ''].
2022-11-29T10:59:37.273531+00:00 shinyapps[5806160]: ERROR: [2022-11-29 10:59:37] root - For the attribute 'Specimen Laterality', on row 1458, 'unknown' is not one of ['Bilateral', 'Not Applicable', 'Unknown', 'Right', 'Not Reported', 'Left'].
2022-11-29T10:59:37.274676+00:00 shinyapps[5806160]: ERROR: [2022-11-29 10:59:37] root - For the attribute 'Specimen Laterality', on row 1459, 'unknown' is not one of ['Bilateral', 'Not Applicable', 'Unknown', 'Right', 'Not Reported', 'Left', ''].
2022-11-29T10:59:37.274731+00:00 shinyapps[5806160]: ERROR: [2022-11-29 10:59:37] root - For the attribute 'Specimen Laterality', on row 1459, 'unknown' is not one of ['Bilateral', 'Not Applicable', 'Unknown', 'Right', 'Not Reported', 'Left'].
2022-11-29T10:59:37.275728+00:00 shinyapps[5806160]: ERROR: [2022-11-29 10:59:37] root - For the attribute 'Specimen Laterality', on row 1460, 'unknown' is not one of ['Bilateral', 'Not Applicable', 'Unknown', 'Right', 'Not Reported', 'Left', ''].
2022-11-29T11:00:01.038970+00:00 shinyapps[5806160]: Warning in parallel::mclapply(1:nrow(metadata), function(i) { :
2022-11-29T11:00:01.039013+00:00 shinyapps[5806160]:   scheduled cores 2, 1 encountered errors in user code, all values of the jobs will be affected
2022-11-29T11:00:01.134922+00:00 shinyapps[5806160]: Warning: Error in bind_rows: Argument 1 must have names.
2022-11-29T11:00:01.147562+00:00 shinyapps[5806160]:   15: <Anonymous>
2022-11-29T11:00:01.147596+00:00 shinyapps[5806160]:   13: fn
2022-11-29T11:00:01.147612+00:00 shinyapps[5806160]:    8: retry
2022-11-29T11:00:01.147615+00:00 shinyapps[5806160]:    7: connect$retryingStartServer
2022-11-29T11:00:01.147622+00:00 shinyapps[5806160]:    6: eval
2022-11-29T11:00:01.147627+00:00 shinyapps[5806160]:    5: eval
2022-11-29T11:00:01.147631+00:00 shinyapps[5806160]:    4: eval
2022-11-29T11:00:01.147635+00:00 shinyapps[5806160]:    3: eval
2022-11-29T11:00:01.147640+00:00 shinyapps[5806160]:    2: eval.parent
2022-11-29T11:00:01.147650+00:00 shinyapps[5806160]:    1: local
aclayton555 commented 1 year ago

Included in escalation to FAIR in this issue: https://sagebionetworks.jira.com/servicedesk/customer/portal/5/IBCSPRT-115