02 Sep 2025 15:17:50,432 INFO : Copying experiment "Evaluating Legacy and Emerging PFAS in Human Blood Collected from 2003 to 2021" from folder /UNC - Baker Lab/Greg Kudzin - Legacy and Emerging PFAS Study to /Panorama Public/2025/UNC Baker Lab - Greg Kudzin - Legacy and Emerging PFAS Study
02 Sep 2025 15:17:50,432 INFO : =======================================
02 Sep 2025 15:17:50,446 DEBUG: Resetting Job ID: 6d9de0c1-6a78-103e-8e6e-1cc91aa98000
02 Sep 2025 15:17:50,465 INFO : Starting to run task 'org.labkey.panoramapublic.pipeline.ExperimentExportTask' at location 'webserver-high-priority'
02 Sep 2025 15:17:50,465 INFO :
02 Sep 2025 15:17:50,465 INFO : Exporting experiment.
02 Sep 2025 15:17:55,914 INFO : Exporting files metadata.
02 Sep 2025 15:17:55,914 DEBUG: [/UNC - Baker Lab/Greg Kudzin - Legacy and Emerging PFAS Study] Writing files metadata to /data/labkey/files/Panorama Public/2025/UNC Baker Lab - Greg Kudzin - Legacy and Emerging PFAS Study/@files/export
02 Sep 2025 15:17:55,916 INFO :
02 Sep 2025 15:17:55,916 INFO : Experiment export completed successfully.
02 Sep 2025 15:17:55,916 INFO : Successfully completed task 'org.labkey.panoramapublic.pipeline.ExperimentExportTask'
02 Sep 2025 15:17:55,933 INFO : Starting to run task 'org.labkey.panoramapublic.pipeline.ExperimentImportTask' at location 'webserver-high-priority'
02 Sep 2025 15:17:55,933 INFO :
02 Sep 2025 15:17:55,933 INFO : Importing experiment.
02 Sep 2025 15:17:55,938 DEBUG: [/Panorama Public/2025/UNC Baker Lab - Greg Kudzin - Legacy and Emerging PFAS Study] Importing folder properties from: /data/labkey/files/Panorama Public/2025/UNC Baker Lab - Greg Kudzin - Legacy and Emerging PFAS Study/@files/export
02 Sep 2025 15:17:55,939 INFO : Loading folder properties (folder type, settings and active modules)
02 Sep 2025 15:17:55,939 DEBUG: [/Panorama Public/2025/UNC Baker Lab - Greg Kudzin - Legacy and Emerging PFAS Study] Folder type: Targeted MS
02 Sep 2025 15:17:55,939 DEBUG: [/Panorama Public/2025/UNC Baker Lab - Greg Kudzin - Legacy and Emerging PFAS Study] Active modules: Protein, PanoramaPublic, Issues, FileContent, Experiment, Assay, Pipeline, Announcements, Core, TargetedMS, Search, API, Wiki, Query
02 Sep 2025 15:17:55,975 INFO : Done importing folder properties (folder type, settings and active modules)
02 Sep 2025 15:17:55,976 INFO : Loading container specific module properties
02 Sep 2025 15:17:55,981 INFO : Done importing container specific module properties
02 Sep 2025 15:17:55,982 INFO : Loading queries
02 Sep 2025 15:17:55,984 INFO : 1 query imported
02 Sep 2025 15:17:55,984 INFO : Done importing queries
02 Sep 2025 15:17:55,985 INFO : Loading etl definitions
02 Sep 2025 15:17:55,986 INFO : Loading wikis
02 Sep 2025 15:17:55,986 INFO : 0 wikis imported
02 Sep 2025 15:17:55,986 INFO : Done importing wikis
02 Sep 2025 15:17:55,988 INFO : Starting Data Class Importer
02 Sep 2025 15:17:55,988 INFO : No types XAR file to process.
02 Sep 2025 15:17:55,988 INFO : Finished Data Class Importer
02 Sep 2025 15:17:55,988 INFO : Starting to copy files to @files
02 Sep 2025 15:17:55,988 INFO : Copied 0 files to @files
02 Sep 2025 15:17:55,988 INFO : Starting to copy files to @assayfiles
02 Sep 2025 15:17:55,989 INFO : Copied 0 files to @assayfiles
02 Sep 2025 15:17:55,989 INFO : Ensuring exp.data rows exist for imported files
02 Sep 2025 15:17:56,039 INFO : Starting Sample Type Importer
02 Sep 2025 15:17:56,039 INFO : No types XAR file to process.
02 Sep 2025 15:17:56,039 INFO : Finished Sample Type Importer
02 Sep 2025 15:17:56,040 INFO : Loading xar
02 Sep 2025 15:17:57,181 DEBUG: Finished loading Protocol with LSID 'urn:lsid:uw.edu:Protocol.Folder-15467:TargetedMS.ImportSkyZip'
02 Sep 2025 15:17:57,182 DEBUG: Finished loading Protocol with LSID 'urn:lsid:uw.edu:Protocol.Folder-15467:TargetedMS.ImportSkyZip.Core'
02 Sep 2025 15:17:57,184 DEBUG: Finished loading Protocol with LSID 'urn:lsid:uw.edu:Protocol.Folder-15467:TargetedMS.ImportSkyZip.Output'
02 Sep 2025 15:17:57,184 DEBUG: Protocol import complete
02 Sep 2025 15:17:57,184 DEBUG: Finished loading Experiment with LSID 'urn:lsid:uw.edu:Experiment.Folder-15467:Evaluating+Legacy+and+Emerging+PFAS+in+Human+Blood+Collected+from+2003+to+2021'
02 Sep 2025 15:17:57,184 DEBUG: Experiment/Run group import complete
02 Sep 2025 15:17:57,189 DEBUG: Protocol action set import complete
02 Sep 2025 15:17:57,194 DEBUG: Finished loading ProtocolApplication with LSID 'urn:lsid:uw.edu:Protocol.Folder-15467:TargetedMS.ImportSkyZip'
02 Sep 2025 15:17:57,198 DEBUG: Finished loading Data with LSID 'urn:lsid:uw.edu:skyd.Folder-15467:2a0dcca9-6a3f-103e-8e6e-1cc91aa98000'
02 Sep 2025 15:17:57,200 DEBUG: Finished loading Data with LSID 'urn:lsid:uw.edu:UploadedFile.Folder-15467:2a0dc8d8-6a3f-103e-8e6e-1cc91aa98000'
02 Sep 2025 15:17:57,200 DEBUG: Finished loading ProtocolApplication with LSID 'urn:lsid:uw.edu:Protocol.Folder-15467:TargetedMS.ImportSkyZip.Core'
02 Sep 2025 15:17:57,202 DEBUG: Finished loading ProtocolApplication with LSID 'urn:lsid:uw.edu:Protocol.Folder-15467:TargetedMS.ImportSkyZip.Output'
02 Sep 2025 15:17:57,202 DEBUG: Finished loading ExperimentRun with LSID 'urn:lsid:uw.edu:Run.Folder-15467:2a0de4c2-6a3f-103e-8e6e-1cc91aa98000'
02 Sep 2025 15:17:57,205 DEBUG: Finished loading ProtocolApplication with LSID 'urn:lsid:uw.edu:Protocol.Folder-15467:TargetedMS.ImportSkyZip'
02 Sep 2025 15:17:57,208 DEBUG: Finished loading Data with LSID 'urn:lsid:uw.edu:skyd.Folder-15467:41f23326-6a3f-103e-8e6e-1cc91aa98000'
02 Sep 2025 15:17:57,210 DEBUG: Finished loading Data with LSID 'urn:lsid:uw.edu:UploadedFile.Folder-15467:41f23160-6a3f-103e-8e6e-1cc91aa98000'
02 Sep 2025 15:17:57,210 DEBUG: Finished loading ProtocolApplication with LSID 'urn:lsid:uw.edu:Protocol.Folder-15467:TargetedMS.ImportSkyZip.Core'
02 Sep 2025 15:17:57,211 DEBUG: Finished loading ProtocolApplication with LSID 'urn:lsid:uw.edu:Protocol.Folder-15467:TargetedMS.ImportSkyZip.Output'
02 Sep 2025 15:17:57,211 DEBUG: Finished loading ExperimentRun with LSID 'urn:lsid:uw.edu:Run.Folder-15467:41f23eb2-6a3f-103e-8e6e-1cc91aa98000'
02 Sep 2025 15:17:57,218 DEBUG: Trying to load data file file:///data/labkey/files/Panorama%20Public/2025/UNC%20Baker%20Lab%20-%20Greg%20Kudzin%20-%20Legacy%20and%20Emerging%20PFAS%20Study/@files/export/xar/experiments_and_runs.xar.exploded/Run281645/PFAS%20and%20Autoimmune%20Disease%20Skyline%20Document%20-%20Absolute%20Quant_2025-09-02_11-26-32/PFAS%20and%20Autoimmune%20Disease%20Skyline%20Document%20-%20Absolute%20Quant.skyd into the system
02 Sep 2025 15:17:57,218 DEBUG: Finished trying to load data file file:///data/labkey/files/Panorama%20Public/2025/UNC%20Baker%20Lab%20-%20Greg%20Kudzin%20-%20Legacy%20and%20Emerging%20PFAS%20Study/@files/export/xar/experiments_and_runs.xar.exploded/Run281645/PFAS%20and%20Autoimmune%20Disease%20Skyline%20Document%20-%20Absolute%20Quant_2025-09-02_11-26-32/PFAS%20and%20Autoimmune%20Disease%20Skyline%20Document%20-%20Absolute%20Quant.skyd into the system
02 Sep 2025 15:17:57,218 DEBUG: Trying to load data file file:///data/labkey/files/Panorama%20Public/2025/UNC%20Baker%20Lab%20-%20Greg%20Kudzin%20-%20Legacy%20and%20Emerging%20PFAS%20Study/@files/export/xar/experiments_and_runs.xar.exploded/Run281645/PFAS%20and%20Autoimmune%20Disease%20Skyline%20Document%20-%20Absolute%20Quant_2025-09-02_11-26-32.sky.zip into the system
02 Sep 2025 15:17:57,219 INFO : Starting import from PFAS and Autoimmune Disease Skyline Document - Absolute Quant_2025-09-02_11-26-32.sky.zip
02 Sep 2025 15:17:57,221 INFO : Starting to import Skyline document from PFAS and Autoimmune Disease Skyline Document - Absolute Quant_2025-09-02_11-26-32.sky.zip
02 Sep 2025 15:17:57,221 INFO : Expanding PFAS and Autoimmune Disease Skyline Document - Absolute Quant.skyd
02 Sep 2025 15:17:57,869 INFO : Expanding PFAS and Autoimmune Disease Skyline Document - Absolute Quant.sky.view
02 Sep 2025 15:17:57,870 INFO : Expanding PFAS and Autoimmune Disease Skyline Document - Absolute Quant.sky
02 Sep 2025 15:17:57,905 INFO : Expanding PFAS and Autoimmune Disease Skyline Document - Absolute Quant.skyl
02 Sep 2025 15:17:57,907 INFO : Reading Skyline file, PFAS and Autoimmune Disease Skyline Document - Absolute Quant.sky, to determine if the TransitionChromInfos in the document should be stored...
02 Sep 2025 15:17:57,953 INFO : TransitionChromInfo counts or precursor counts are within the allowed limits. TransitionChromInfos will be stored
02 Sep 2025 15:17:57,953 WARN : The version of this Skyline document is 25.1. This is newer than the highest supported version 23.1
02 Sep 2025 15:17:57,956 INFO : 1% Done
02 Sep 2025 15:17:57,956 INFO : Copying SKYD to temp directory for import purposes
02 Sep 2025 15:17:58,092 INFO : Copying complete
02 Sep 2025 15:17:58,093 DEBUG: Starting to load chromatogram headers
02 Sep 2025 15:17:58,135 DEBUG: Done loading chromatogram headers
02 Sep 2025 15:17:58,440 INFO : Inserting PFAS (-) PFSA
02 Sep 2025 15:17:58,451 INFO : 4% Done
02 Sep 2025 15:17:58,656 INFO : 9% Done
02 Sep 2025 15:17:58,831 INFO : 13% Done
02 Sep 2025 15:17:58,976 DEBUG: Total molecules inserted: 3
02 Sep 2025 15:17:58,977 INFO : Inserting PFAS (-) PFCA
02 Sep 2025 15:17:58,986 INFO : 16% Done
02 Sep 2025 15:17:59,203 INFO : 19% Done
02 Sep 2025 15:17:59,408 INFO : 22% Done
02 Sep 2025 15:17:59,605 INFO : 26% Done
02 Sep 2025 15:17:59,785 INFO : 35% Done
02 Sep 2025 15:18:00,115 INFO : 44% Done
02 Sep 2025 15:18:00,419 INFO : 50% Done
02 Sep 2025 15:18:00,639 INFO : 56% Done
02 Sep 2025 15:18:00,862 INFO : 62% Done
02 Sep 2025 15:18:01,077 DEBUG: Total molecules inserted: 9
02 Sep 2025 15:18:01,077 INFO : Inserting PFAS (-) FT
02 Sep 2025 15:18:01,086 INFO : 65% Done
02 Sep 2025 15:18:01,287 INFO : 68% Done
02 Sep 2025 15:18:01,483 INFO : 71% Done
02 Sep 2025 15:18:01,671 DEBUG: Total molecules inserted: 3
02 Sep 2025 15:18:01,671 INFO : Inserting PFAS (-) PFASA
02 Sep 2025 15:18:01,681 INFO : 74% Done
02 Sep 2025 15:18:01,877 INFO : 77% Done
02 Sep 2025 15:18:02,069 DEBUG: Total molecules inserted: 2
02 Sep 2025 15:18:02,069 INFO : Inserting PFAS (-) PFECA
02 Sep 2025 15:18:02,078 INFO : 80% Done
02 Sep 2025 15:18:02,267 DEBUG: Total molecules inserted: 1
02 Sep 2025 15:18:02,267 INFO : Done parsing Skyline document.
02 Sep 2025 15:18:02,327 INFO : No group comparisons found.
02 Sep 2025 15:18:02,327 INFO : Calculating calibration curves
02 Sep 2025 15:18:02,327 DEBUG: Calculating calibration curve for PFAS (-) PFSA, 1 of 5
02 Sep 2025 15:18:02,383 INFO : 84% Done
02 Sep 2025 15:18:02,383 DEBUG: Calculating calibration curve for PFAS (-) PFCA, 2 of 5
02 Sep 2025 15:18:02,594 INFO : 87% Done
02 Sep 2025 15:18:02,594 DEBUG: Calculating calibration curve for PFAS (-) FT, 3 of 5
02 Sep 2025 15:18:02,640 INFO : 91% Done
02 Sep 2025 15:18:02,640 DEBUG: Calculating calibration curve for PFAS (-) PFASA, 4 of 5
02 Sep 2025 15:18:02,671 INFO : 94% Done
02 Sep 2025 15:18:02,671 DEBUG: Calculating calibration curve for PFAS (-) PFECA, 5 of 5
02 Sep 2025 15:18:02,686 INFO : 98% Done
02 Sep 2025 15:18:03,133 INFO : Done calculating calibration curves.
02 Sep 2025 15:18:03,342 INFO : Creating and populating temp tables for Proportion values
02 Sep 2025 15:18:03,364 INFO : Setting PrecursorModifiedAreaProportion values on precursorchrominfo
02 Sep 2025 15:18:03,776 INFO : Setting ModifiedAreaProportion values on generalmoleculechrominfo
02 Sep 2025 15:18:03,880 INFO : Cleaning up temp tables
02 Sep 2025 15:18:03,900 INFO : Deleted temp copy of SKYD file
02 Sep 2025 15:18:03,900 INFO : Completed import of Skyline document from PFAS and Autoimmune Disease Skyline Document - Absolute Quant_2025-09-02_11-26-32.sky.zip
02 Sep 2025 15:18:03,902 INFO : 100% Done
02 Sep 2025 15:18:03,905 DEBUG: Finished trying to load data file file:///data/labkey/files/Panorama%20Public/2025/UNC%20Baker%20Lab%20-%20Greg%20Kudzin%20-%20Legacy%20and%20Emerging%20PFAS%20Study/@files/export/xar/experiments_and_runs.xar.exploded/Run281645/PFAS%20and%20Autoimmune%20Disease%20Skyline%20Document%20-%20Absolute%20Quant_2025-09-02_11-26-32.sky.zip into the system
02 Sep 2025 15:18:03,905 DEBUG: Trying to load data file file:///data/labkey/files/Panorama%20Public/2025/UNC%20Baker%20Lab%20-%20Greg%20Kudzin%20-%20Legacy%20and%20Emerging%20PFAS%20Study/@files/export/xar/experiments_and_runs.xar.exploded/Run281646/PFAS%20and%20Autoimmune%20Disease%20Skyline%20Document%20-%20NTA%20and%20SSA_2025-09-02_11-27-20/PFAS%20and%20Autoimmune%20Disease%20Skyline%20Document%20-%20NTA%20and%20SSA.skyd into the system
02 Sep 2025 15:18:03,905 DEBUG: Finished trying to load data file file:///data/labkey/files/Panorama%20Public/2025/UNC%20Baker%20Lab%20-%20Greg%20Kudzin%20-%20Legacy%20and%20Emerging%20PFAS%20Study/@files/export/xar/experiments_and_runs.xar.exploded/Run281646/PFAS%20and%20Autoimmune%20Disease%20Skyline%20Document%20-%20NTA%20and%20SSA_2025-09-02_11-27-20/PFAS%20and%20Autoimmune%20Disease%20Skyline%20Document%20-%20NTA%20and%20SSA.skyd into the system
02 Sep 2025 15:18:03,905 DEBUG: Trying to load data file file:///data/labkey/files/Panorama%20Public/2025/UNC%20Baker%20Lab%20-%20Greg%20Kudzin%20-%20Legacy%20and%20Emerging%20PFAS%20Study/@files/export/xar/experiments_and_runs.xar.exploded/Run281646/PFAS%20and%20Autoimmune%20Disease%20Skyline%20Document%20-%20NTA%20and%20SSA_2025-09-02_11-27-20.sky.zip into the system
02 Sep 2025 15:18:03,906 INFO : Starting import from PFAS and Autoimmune Disease Skyline Document - NTA and SSA_2025-09-02_11-27-20.sky.zip
02 Sep 2025 15:18:03,908 INFO : Starting to import Skyline document from PFAS and Autoimmune Disease Skyline Document - NTA and SSA_2025-09-02_11-27-20.sky.zip
02 Sep 2025 15:18:03,909 INFO : Expanding PFAS and Autoimmune Disease Skyline Document - NTA and SSA.skyd
02 Sep 2025 15:18:04,011 INFO : Expanding PFAS and Autoimmune Disease Skyline Document - NTA and SSA.sky.view
02 Sep 2025 15:18:04,011 INFO : Expanding PFAS and Autoimmune Disease Skyline Document - NTA and SSA.sky
02 Sep 2025 15:18:04,023 INFO : Expanding PFAS and Autoimmune Disease Skyline Document - NTA and SSA.skyl
02 Sep 2025 15:18:04,027 INFO : Reading Skyline file, PFAS and Autoimmune Disease Skyline Document - NTA and SSA.sky, to determine if the TransitionChromInfos in the document should be stored...
02 Sep 2025 15:18:04,053 INFO : TransitionChromInfo counts or precursor counts are within the allowed limits. TransitionChromInfos will be stored
02 Sep 2025 15:18:04,054 WARN : The version of this Skyline document is 25.1. This is newer than the highest supported version 23.1
02 Sep 2025 15:18:04,057 INFO : 2% Done
02 Sep 2025 15:18:04,057 INFO : Copying SKYD to temp directory for import purposes
02 Sep 2025 15:18:04,078 INFO : Copying complete
02 Sep 2025 15:18:04,079 DEBUG: Starting to load chromatogram headers
02 Sep 2025 15:18:04,084 DEBUG: Done loading chromatogram headers
02 Sep 2025 15:18:04,435 INFO : Inserting PFAS (-) PFSA
02 Sep 2025 15:18:04,440 INFO : 6% Done
02 Sep 2025 15:18:04,494 INFO : 9% Done
02 Sep 2025 15:18:04,542 INFO : 12% Done
02 Sep 2025 15:18:04,594 INFO : 15% Done
02 Sep 2025 15:18:04,643 INFO : 19% Done
02 Sep 2025 15:18:04,691 INFO : 22% Done
02 Sep 2025 15:18:04,750 INFO : 25% Done
02 Sep 2025 15:18:04,802 DEBUG: Total molecules inserted: 7
02 Sep 2025 15:18:04,802 INFO : Inserting PFAS (-) PFCA
02 Sep 2025 15:18:04,806 INFO : 28% Done
02 Sep 2025 15:18:04,854 INFO : 32% Done
02 Sep 2025 15:18:04,902 INFO : 35% Done
02 Sep 2025 15:18:04,954 INFO : 38% Done
02 Sep 2025 15:18:05,002 INFO : 42% Done
02 Sep 2025 15:18:05,060 DEBUG: Total molecules inserted: 5
02 Sep 2025 15:18:05,060 INFO : Inserting PFAS (-) FT
02 Sep 2025 15:18:05,064 INFO : 45% Done
02 Sep 2025 15:18:05,112 INFO : 47% Done
02 Sep 2025 15:18:05,169 DEBUG: Total molecules inserted: 2
02 Sep 2025 15:18:05,169 INFO : Inserting PFAS (-) PFASA
02 Sep 2025 15:18:05,174 INFO : 51% Done
02 Sep 2025 15:18:05,229 INFO : 54% Done
02 Sep 2025 15:18:05,274 DEBUG: Total molecules inserted: 2
02 Sep 2025 15:18:05,274 INFO : Inserting PFAS (-) PFESA
02 Sep 2025 15:18:05,278 INFO : 57% Done
02 Sep 2025 15:18:05,332 DEBUG: Total molecules inserted: 1
02 Sep 2025 15:18:05,332 INFO : Inserting PFAS (-) PFP
02 Sep 2025 15:18:05,336 INFO : 59% Done
02 Sep 2025 15:18:05,398 INFO : 62% Done
02 Sep 2025 15:18:05,458 INFO : 64% Done
02 Sep 2025 15:18:05,517 INFO : 67% Done
02 Sep 2025 15:18:05,573 INFO : 69% Done
02 Sep 2025 15:18:05,629 INFO : 70% Done
02 Sep 2025 15:18:05,687 INFO : 74% Done
02 Sep 2025 15:18:05,795 INFO : 76% Done
02 Sep 2025 15:18:05,844 INFO : 78% Done
02 Sep 2025 15:18:05,950 INFO : 80% Done
02 Sep 2025 15:18:05,999 DEBUG: Total molecules inserted: 12
02 Sep 2025 15:18:05,999 INFO : Done parsing Skyline document.
02 Sep 2025 15:18:06,058 INFO : No group comparisons found.
02 Sep 2025 15:18:06,058 INFO : Calculating calibration curves
02 Sep 2025 15:18:06,058 DEBUG: Calculating calibration curve for PFAS (-) PFSA, 1 of 6
02 Sep 2025 15:18:06,105 INFO : 83% Done
02 Sep 2025 15:18:06,105 DEBUG: Calculating calibration curve for PFAS (-) PFCA, 2 of 6
02 Sep 2025 15:18:06,137 INFO : 86% Done
02 Sep 2025 15:18:06,137 DEBUG: Calculating calibration curve for PFAS (-) FT, 3 of 6
02 Sep 2025 15:18:06,151 INFO : 89% Done
02 Sep 2025 15:18:06,151 DEBUG: Calculating calibration curve for PFAS (-) PFASA, 4 of 6
02 Sep 2025 15:18:06,164 INFO : 92% Done
02 Sep 2025 15:18:06,164 DEBUG: Calculating calibration curve for PFAS (-) PFESA, 5 of 6
02 Sep 2025 15:18:06,171 INFO : 95% Done
02 Sep 2025 15:18:06,171 DEBUG: Calculating calibration curve for PFAS (-) PFP, 6 of 6
02 Sep 2025 15:18:06,238 INFO : 98% Done
02 Sep 2025 15:18:06,241 INFO : Done calculating calibration curves.
02 Sep 2025 15:18:06,740 INFO : Creating and populating temp tables for Proportion values
02 Sep 2025 15:18:06,752 INFO : Setting PrecursorModifiedAreaProportion values on precursorchrominfo
02 Sep 2025 15:18:06,902 INFO : Setting ModifiedAreaProportion values on generalmoleculechrominfo
02 Sep 2025 15:18:07,010 INFO : Cleaning up temp tables
02 Sep 2025 15:18:07,021 INFO : Deleted temp copy of SKYD file
02 Sep 2025 15:18:07,021 INFO : Completed import of Skyline document from PFAS and Autoimmune Disease Skyline Document - NTA and SSA_2025-09-02_11-27-20.sky.zip
02 Sep 2025 15:18:07,023 INFO : 100% Done
02 Sep 2025 15:18:07,026 DEBUG: Finished trying to load data file file:///data/labkey/files/Panorama%20Public/2025/UNC%20Baker%20Lab%20-%20Greg%20Kudzin%20-%20Legacy%20and%20Emerging%20PFAS%20Study/@files/export/xar/experiments_and_runs.xar.exploded/Run281646/PFAS%20and%20Autoimmune%20Disease%20Skyline%20Document%20-%20NTA%20and%20SSA_2025-09-02_11-27-20.sky.zip into the system
02 Sep 2025 15:18:07,437 INFO : Done importing xar
02 Sep 2025 15:18:07,438 INFO : Loading pages and webpart properties
02 Sep 2025 15:18:07,483 INFO : Done importing 3 page(s) with 5 webpart(s)
02 Sep 2025 15:18:07,483 INFO : Loading File Browser config
02 Sep 2025 15:18:07,484 INFO : Done importing File Browser config
02 Sep 2025 15:18:07,484 INFO : Starting Sample Status Data import
02 Sep 2025 15:18:07,485 INFO : No sample types XAR file to process.
02 Sep 2025 15:18:07,485 INFO : Finished importing Sample Status Data
02 Sep 2025 15:18:07,488 INFO : Starting data import from QCAnnotationType.tsv into targetedms.QCAnnotationType
02 Sep 2025 15:18:07,490 INFO : A row containing [Name: 'Reagent Change', Description: 'null', Color: '800000'] values already exists. Skipping
02 Sep 2025 15:18:07,490 INFO : A row containing [Name: 'Instrumentation Change', Description: 'null', Color: 'FF0000'] values already exists. Skipping
02 Sep 2025 15:18:07,490 INFO : A row containing [Name: 'Technician Change', Description: 'null', Color: '0000FF'] values already exists. Skipping
02 Sep 2025 15:18:07,490 INFO : A row containing [Name: 'Instrument Downtime', Description: 'null', Color: 'CCCC00'] values already exists. Skipping
02 Sep 2025 15:18:07,490 INFO : Finished importing 0 rows from QCAnnotationType.tsv into targetedms.QCAnnotationType
02 Sep 2025 15:18:07,492 INFO : Creating a new TargetedMS experiment entry in panoramapublic.ExperimentAnnotations.
02 Sep 2025 15:18:07,496 INFO : Moving files to folder /Panorama Public/2025/UNC Baker Lab - Greg Kudzin - Legacy and Emerging PFAS Study and creating symlinks
02 Sep 2025 15:18:07,498 DEBUG: Directory created: /data/labkey/files/Panorama Public/2025/UNC Baker Lab - Greg Kudzin - Legacy and Emerging PFAS Study/@files/PFAS and Autoimmune Disease Skyline Document - Absolute Quant_2025-09-02_11-26-32
02 Sep 2025 15:18:07,498 DEBUG: Moved file /data/labkey/files/UNC - Baker Lab/Greg Kudzin - Legacy and Emerging PFAS Study/@files/PFAS and Autoimmune Disease Skyline Document - Absolute Quant_2025-09-02_11-26-32/PFAS and Autoimmune Disease Skyline Document - Absolute Quant.sky.view to /data/labkey/files/Panorama Public/2025/UNC Baker Lab - Greg Kudzin - Legacy and Emerging PFAS Study/@files/PFAS and Autoimmune Disease Skyline Document - Absolute Quant_2025-09-02_11-26-32/PFAS and Autoimmune Disease Skyline Document - Absolute Quant.sky.view
02 Sep 2025 15:18:07,499 DEBUG: Created symlink /data/labkey/files/UNC - Baker Lab/Greg Kudzin - Legacy and Emerging PFAS Study/@files/PFAS and Autoimmune Disease Skyline Document - Absolute Quant_2025-09-02_11-26-32/PFAS and Autoimmune Disease Skyline Document - Absolute Quant.sky.view targeting /data/labkey/files/Panorama Public/2025/UNC Baker Lab - Greg Kudzin - Legacy and Emerging PFAS Study/@files/PFAS and Autoimmune Disease Skyline Document - Absolute Quant_2025-09-02_11-26-32/PFAS and Autoimmune Disease Skyline Document - Absolute Quant.sky.view
02 Sep 2025 15:18:07,500 DEBUG: Moved file /data/labkey/files/UNC - Baker Lab/Greg Kudzin - Legacy and Emerging PFAS Study/@files/PFAS and Autoimmune Disease Skyline Document - Absolute Quant_2025-09-02_11-26-32/PFAS and Autoimmune Disease Skyline Document - Absolute Quant.skyd to /data/labkey/files/Panorama Public/2025/UNC Baker Lab - Greg Kudzin - Legacy and Emerging PFAS Study/@files/PFAS and Autoimmune Disease Skyline Document - Absolute Quant_2025-09-02_11-26-32/PFAS and Autoimmune Disease Skyline Document - Absolute Quant.skyd
02 Sep 2025 15:18:07,501 DEBUG: Created symlink /data/labkey/files/UNC - Baker Lab/Greg Kudzin - Legacy and Emerging PFAS Study/@files/PFAS and Autoimmune Disease Skyline Document - Absolute Quant_2025-09-02_11-26-32/PFAS and Autoimmune Disease Skyline Document - Absolute Quant.skyd targeting /data/labkey/files/Panorama Public/2025/UNC Baker Lab - Greg Kudzin - Legacy and Emerging PFAS Study/@files/PFAS and Autoimmune Disease Skyline Document - Absolute Quant_2025-09-02_11-26-32/PFAS and Autoimmune Disease Skyline Document - Absolute Quant.skyd
02 Sep 2025 15:18:07,502 DEBUG: Moved file /data/labkey/files/UNC - Baker Lab/Greg Kudzin - Legacy and Emerging PFAS Study/@files/PFAS and Autoimmune Disease Skyline Document - Absolute Quant_2025-09-02_11-26-32/PFAS and Autoimmune Disease Skyline Document - Absolute Quant.skyl to /data/labkey/files/Panorama Public/2025/UNC Baker Lab - Greg Kudzin - Legacy and Emerging PFAS Study/@files/PFAS and Autoimmune Disease Skyline Document - Absolute Quant_2025-09-02_11-26-32/PFAS and Autoimmune Disease Skyline Document - Absolute Quant.skyl
02 Sep 2025 15:18:07,502 DEBUG: Created symlink /data/labkey/files/UNC - Baker Lab/Greg Kudzin - Legacy and Emerging PFAS Study/@files/PFAS and Autoimmune Disease Skyline Document - Absolute Quant_2025-09-02_11-26-32/PFAS and Autoimmune Disease Skyline Document - Absolute Quant.skyl targeting /data/labkey/files/Panorama Public/2025/UNC Baker Lab - Greg Kudzin - Legacy and Emerging PFAS Study/@files/PFAS and Autoimmune Disease Skyline Document - Absolute Quant_2025-09-02_11-26-32/PFAS and Autoimmune Disease Skyline Document - Absolute Quant.skyl
02 Sep 2025 15:18:07,503 DEBUG: Moved file /data/labkey/files/UNC - Baker Lab/Greg Kudzin - Legacy and Emerging PFAS Study/@files/PFAS and Autoimmune Disease Skyline Document - Absolute Quant_2025-09-02_11-26-32/PFAS and Autoimmune Disease Skyline Document - Absolute Quant.sky to /data/labkey/files/Panorama Public/2025/UNC Baker Lab - Greg Kudzin - Legacy and Emerging PFAS Study/@files/PFAS and Autoimmune Disease Skyline Document - Absolute Quant_2025-09-02_11-26-32/PFAS and Autoimmune Disease Skyline Document - Absolute Quant.sky
02 Sep 2025 15:18:07,504 DEBUG: Created symlink /data/labkey/files/UNC - Baker Lab/Greg Kudzin - Legacy and Emerging PFAS Study/@files/PFAS and Autoimmune Disease Skyline Document - Absolute Quant_2025-09-02_11-26-32/PFAS and Autoimmune Disease Skyline Document - Absolute Quant.sky targeting /data/labkey/files/Panorama Public/2025/UNC Baker Lab - Greg Kudzin - Legacy and Emerging PFAS Study/@files/PFAS and Autoimmune Disease Skyline Document - Absolute Quant_2025-09-02_11-26-32/PFAS and Autoimmune Disease Skyline Document - Absolute Quant.sky
02 Sep 2025 15:18:07,505 DEBUG: Directory created: /data/labkey/files/Panorama Public/2025/UNC Baker Lab - Greg Kudzin - Legacy and Emerging PFAS Study/@files/PFAS and Autoimmune Disease Skyline Document - NTA and SSA_2025-09-02_11-27-20
02 Sep 2025 15:18:07,506 DEBUG: Moved file /data/labkey/files/UNC - Baker Lab/Greg Kudzin - Legacy and Emerging PFAS Study/@files/PFAS and Autoimmune Disease Skyline Document - NTA and SSA_2025-09-02_11-27-20/PFAS and Autoimmune Disease Skyline Document - NTA and SSA.skyd to /data/labkey/files/Panorama Public/2025/UNC Baker Lab - Greg Kudzin - Legacy and Emerging PFAS Study/@files/PFAS and Autoimmune Disease Skyline Document - NTA and SSA_2025-09-02_11-27-20/PFAS and Autoimmune Disease Skyline Document - NTA and SSA.skyd
02 Sep 2025 15:18:07,507 DEBUG: Created symlink /data/labkey/files/UNC - Baker Lab/Greg Kudzin - Legacy and Emerging PFAS Study/@files/PFAS and Autoimmune Disease Skyline Document - NTA and SSA_2025-09-02_11-27-20/PFAS and Autoimmune Disease Skyline Document - NTA and SSA.skyd targeting /data/labkey/files/Panorama Public/2025/UNC Baker Lab - Greg Kudzin - Legacy and Emerging PFAS Study/@files/PFAS and Autoimmune Disease Skyline Document - NTA and SSA_2025-09-02_11-27-20/PFAS and Autoimmune Disease Skyline Document - NTA and SSA.skyd
02 Sep 2025 15:18:07,508 DEBUG: Moved file /data/labkey/files/UNC - Baker Lab/Greg Kudzin - Legacy and Emerging PFAS Study/@files/PFAS and Autoimmune Disease Skyline Document - NTA and SSA_2025-09-02_11-27-20/PFAS and Autoimmune Disease Skyline Document - NTA and SSA.sky.view to /data/labkey/files/Panorama Public/2025/UNC Baker Lab - Greg Kudzin - Legacy and Emerging PFAS Study/@files/PFAS and Autoimmune Disease Skyline Document - NTA and SSA_2025-09-02_11-27-20/PFAS and Autoimmune Disease Skyline Document - NTA and SSA.sky.view
02 Sep 2025 15:18:07,508 DEBUG: Created symlink /data/labkey/files/UNC - Baker Lab/Greg Kudzin - Legacy and Emerging PFAS Study/@files/PFAS and Autoimmune Disease Skyline Document - NTA and SSA_2025-09-02_11-27-20/PFAS and Autoimmune Disease Skyline Document - NTA and SSA.sky.view targeting /data/labkey/files/Panorama Public/2025/UNC Baker Lab - Greg Kudzin - Legacy and Emerging PFAS Study/@files/PFAS and Autoimmune Disease Skyline Document - NTA and SSA_2025-09-02_11-27-20/PFAS and Autoimmune Disease Skyline Document - NTA and SSA.sky.view
02 Sep 2025 15:18:07,509 DEBUG: Moved file /data/labkey/files/UNC - Baker Lab/Greg Kudzin - Legacy and Emerging PFAS Study/@files/PFAS and Autoimmune Disease Skyline Document - NTA and SSA_2025-09-02_11-27-20/PFAS and Autoimmune Disease Skyline Document - NTA and SSA.sky to /data/labkey/files/Panorama Public/2025/UNC Baker Lab - Greg Kudzin - Legacy and Emerging PFAS Study/@files/PFAS and Autoimmune Disease Skyline Document - NTA and SSA_2025-09-02_11-27-20/PFAS and Autoimmune Disease Skyline Document - NTA and SSA.sky
02 Sep 2025 15:18:07,510 DEBUG: Created symlink /data/labkey/files/UNC - Baker Lab/Greg Kudzin - Legacy and Emerging PFAS Study/@files/PFAS and Autoimmune Disease Skyline Document - NTA and SSA_2025-09-02_11-27-20/PFAS and Autoimmune Disease Skyline Document - NTA and SSA.sky targeting /data/labkey/files/Panorama Public/2025/UNC Baker Lab - Greg Kudzin - Legacy and Emerging PFAS Study/@files/PFAS and Autoimmune Disease Skyline Document - NTA and SSA_2025-09-02_11-27-20/PFAS and Autoimmune Disease Skyline Document - NTA and SSA.sky
02 Sep 2025 15:18:07,511 DEBUG: Moved file /data/labkey/files/UNC - Baker Lab/Greg Kudzin - Legacy and Emerging PFAS Study/@files/PFAS and Autoimmune Disease Skyline Document - NTA and SSA_2025-09-02_11-27-20/PFAS and Autoimmune Disease Skyline Document - NTA and SSA.skyl to /data/labkey/files/Panorama Public/2025/UNC Baker Lab - Greg Kudzin - Legacy and Emerging PFAS Study/@files/PFAS and Autoimmune Disease Skyline Document - NTA and SSA_2025-09-02_11-27-20/PFAS and Autoimmune Disease Skyline Document - NTA and SSA.skyl
02 Sep 2025 15:18:07,511 DEBUG: Created symlink /data/labkey/files/UNC - Baker Lab/Greg Kudzin - Legacy and Emerging PFAS Study/@files/PFAS and Autoimmune Disease Skyline Document - NTA and SSA_2025-09-02_11-27-20/PFAS and Autoimmune Disease Skyline Document - NTA and SSA.skyl targeting /data/labkey/files/Panorama Public/2025/UNC Baker Lab - Greg Kudzin - Legacy and Emerging PFAS Study/@files/PFAS and Autoimmune Disease Skyline Document - NTA and SSA_2025-09-02_11-27-20/PFAS and Autoimmune Disease Skyline Document - NTA and SSA.skyl
02 Sep 2025 15:18:07,512 DEBUG: Directory created: /data/labkey/files/Panorama Public/2025/UNC Baker Lab - Greg Kudzin - Legacy and Emerging PFAS Study/@files/RawFiles
02 Sep 2025 15:18:07,513 DEBUG: Moved file /data/labkey/files/UNC - Baker Lab/Greg Kudzin - Legacy and Emerging PFAS Study/@files/PFAS and Autoimmune Disease Skyline Document - NTA and SSA_2025-09-02_11-27-20.sky.zip to /data/labkey/files/Panorama Public/2025/UNC Baker Lab - Greg Kudzin - Legacy and Emerging PFAS Study/@files/PFAS and Autoimmune Disease Skyline Document - NTA and SSA_2025-09-02_11-27-20.sky.zip
02 Sep 2025 15:18:07,514 DEBUG: Created symlink /data/labkey/files/UNC - Baker Lab/Greg Kudzin - Legacy and Emerging PFAS Study/@files/PFAS and Autoimmune Disease Skyline Document - NTA and SSA_2025-09-02_11-27-20.sky.zip targeting /data/labkey/files/Panorama Public/2025/UNC Baker Lab - Greg Kudzin - Legacy and Emerging PFAS Study/@files/PFAS and Autoimmune Disease Skyline Document - NTA and SSA_2025-09-02_11-27-20.sky.zip
02 Sep 2025 15:18:07,514 DEBUG: Moved file /data/labkey/files/UNC - Baker Lab/Greg Kudzin - Legacy and Emerging PFAS Study/@files/PFAS and Autoimmune Disease Skyline Document - Absolute Quant_2025-09-02_11-26-32.sky.zip to /data/labkey/files/Panorama Public/2025/UNC Baker Lab - Greg Kudzin - Legacy and Emerging PFAS Study/@files/PFAS and Autoimmune Disease Skyline Document - Absolute Quant_2025-09-02_11-26-32.sky.zip
02 Sep 2025 15:18:07,515 DEBUG: Created symlink /data/labkey/files/UNC - Baker Lab/Greg Kudzin - Legacy and Emerging PFAS Study/@files/PFAS and Autoimmune Disease Skyline Document - Absolute Quant_2025-09-02_11-26-32.sky.zip targeting /data/labkey/files/Panorama Public/2025/UNC Baker Lab - Greg Kudzin - Legacy and Emerging PFAS Study/@files/PFAS and Autoimmune Disease Skyline Document - Absolute Quant_2025-09-02_11-26-32.sky.zip
02 Sep 2025 15:18:07,515 INFO : Aligning data files urls in folder: /Panorama Public/2025/UNC Baker Lab - Greg Kudzin - Legacy and Emerging PFAS Study
02 Sep 2025 15:18:07,517 DEBUG: Setting filePathRoot on copied run: PFAS and Autoimmune Disease Skyline Document - Absolute Quant_2025-09-02_11-26-32.sky.zip to: /data/labkey/files/Panorama Public/2025/UNC Baker Lab - Greg Kudzin - Legacy and Emerging PFAS Study/@files
02 Sep 2025 15:18:07,519 DEBUG: Setting dataFileUri on copied data: PFAS and Autoimmune Disease Skyline Document - Absolute Quant.skyd to: /data/labkey/files/Panorama Public/2025/UNC Baker Lab - Greg Kudzin - Legacy and Emerging PFAS Study/@files/PFAS and Autoimmune Disease Skyline Document - Absolute Quant_2025-09-02_11-26-32/PFAS and Autoimmune Disease Skyline Document - Absolute Quant.skyd
02 Sep 2025 15:18:07,520 DEBUG: Setting dataFileUri on copied data: PFAS and Autoimmune Disease Skyline Document - Absolute Quant_2025-09-02_11-26-32.sky.zip to: /data/labkey/files/Panorama Public/2025/UNC Baker Lab - Greg Kudzin - Legacy and Emerging PFAS Study/@files/PFAS and Autoimmune Disease Skyline Document - Absolute Quant_2025-09-02_11-26-32.sky.zip
02 Sep 2025 15:18:07,521 DEBUG: Setting filePathRoot on copied run: PFAS and Autoimmune Disease Skyline Document - NTA and SSA_2025-09-02_11-27-20.sky.zip to: /data/labkey/files/Panorama Public/2025/UNC Baker Lab - Greg Kudzin - Legacy and Emerging PFAS Study/@files
02 Sep 2025 15:18:07,522 DEBUG: Setting dataFileUri on copied data: PFAS and Autoimmune Disease Skyline Document - NTA and SSA_2025-09-02_11-27-20.sky.zip to: /data/labkey/files/Panorama Public/2025/UNC Baker Lab - Greg Kudzin - Legacy and Emerging PFAS Study/@files/PFAS and Autoimmune Disease Skyline Document - NTA and SSA_2025-09-02_11-27-20.sky.zip
02 Sep 2025 15:18:07,523 DEBUG: Setting dataFileUri on copied data: PFAS and Autoimmune Disease Skyline Document - NTA and SSA.skyd to: /data/labkey/files/Panorama Public/2025/UNC Baker Lab - Greg Kudzin - Legacy and Emerging PFAS Study/@files/PFAS and Autoimmune Disease Skyline Document - NTA and SSA_2025-09-02_11-27-20/PFAS and Autoimmune Disease Skyline Document - NTA and SSA.skyd
02 Sep 2025 15:18:07,523 INFO : Updating skydDataIds in folder: /Panorama Public/2025/UNC Baker Lab - Greg Kudzin - Legacy and Emerging PFAS Study
02 Sep 2025 15:18:07,525 INFO : Importing files metadata.
02 Sep 2025 15:18:07,525 DEBUG: [/Panorama Public/2025/UNC Baker Lab - Greg Kudzin - Legacy and Emerging PFAS Study] Reading files metadata from /data/labkey/files/Panorama Public/2025/UNC Baker Lab - Greg Kudzin - Legacy and Emerging PFAS Study/@files/export
02 Sep 2025 15:18:07,526 INFO :
02 Sep 2025 15:18:07,526 INFO : Experiment import completed successfully.
02 Sep 2025 15:18:07,526 INFO : Successfully completed task 'org.labkey.panoramapublic.pipeline.ExperimentImportTask'
02 Sep 2025 15:18:07,542 INFO : Starting to run task 'org.labkey.panoramapublic.pipeline.CopyLibraryStateTask' at location 'webserver-high-priority'
02 Sep 2025 15:18:07,542 INFO :
02 Sep 2025 15:18:07,542 INFO : Checking for library folders.
02 Sep 2025 15:18:07,543 INFO : Successfully completed task 'org.labkey.panoramapublic.pipeline.CopyLibraryStateTask'
02 Sep 2025 15:18:07,555 INFO : Starting to run task 'org.labkey.panoramapublic.pipeline.CopyExperimentFinalTask' at location 'webserver-high-priority'
02 Sep 2025 15:18:07,555 INFO :
02 Sep 2025 15:18:07,555 INFO : Finishing up experiment copy.
02 Sep 2025 15:18:07,556 INFO : Updating TargetedMS experiment entry in target folder /Panorama Public/2025/UNC Baker Lab - Greg Kudzin - Legacy and Emerging PFAS Study
02 Sep 2025 15:18:07,557 INFO : Setting version on new experiment to 1
02 Sep 2025 15:18:07,558 INFO : Updating permanent link to point to the new copy of the data.
02 Sep 2025 15:18:07,575 INFO : Removing copy permissions given to Panorama Public
02 Sep 2025 15:18:07,577 INFO : Adding read permissions to all users that are folder admins in the source folder.
02 Sep 2025 15:18:07,578 INFO : Assigning ReaderRole to jndodds@unc.edu
02 Sep 2025 15:18:07,578 INFO : Assigning ReaderRole to rlberes@unc.edu
02 Sep 2025 15:18:07,578 INFO : Assigning ReaderRole to akstewar@ncsu.edu
02 Sep 2025 15:18:07,578 INFO : Assigning ReaderRole to mrfoster@ncsu.edu
02 Sep 2025 15:18:07,578 INFO : Assigning ReaderRole to guozhi@unc.edu
02 Sep 2025 15:18:07,578 INFO : Assigning ReaderRole to erinmsb@unc.edu
02 Sep 2025 15:18:07,578 INFO : Assigning ReaderRole to melanie.odenkirk@colostate.edu
02 Sep 2025 15:18:07,578 INFO : Assigning ReaderRole to kikirkwo@ncsu.edu
02 Sep 2025 15:18:07,578 INFO : Assigning ReaderRole to aboatman@unc.edu
02 Sep 2025 15:18:07,578 INFO : Assigning PanoramaPublicSubmitterRole to jndodds@unc.edu
02 Sep 2025 15:18:07,578 INFO : Assigning PanoramaPublicSubmitterRole to erinmsb@unc.edu
02 Sep 2025 15:18:07,584 INFO : User jndodds@unc.edu is already a member of group Panorama Public Submitters
02 Sep 2025 15:18:07,584 INFO : User erinmsb@unc.edu is already a member of group Panorama Public Submitters
02 Sep 2025 15:18:07,584 INFO : Updating the 'Raw Data' tab configuration
02 Sep 2025 15:18:07,586 INFO : Creating a reviewer account.
02 Sep 2025 15:18:07,628 INFO : Created reviewer with email: panorama+reviewer363@proteinms.net
02 Sep 2025 15:18:07,628 INFO : Generating password.
02 Sep 2025 15:18:07,765 INFO : Set reviewer password successfully.
02 Sep 2025 15:18:07,771 INFO : Adding user panorama+reviewer363@proteinms.net to group Reviewers
02 Sep 2025 15:18:07,772 INFO : Hiding the Data Pipeline tab.
02 Sep 2025 15:18:07,776 INFO : Updating Submission. Setting copiedExperimentId to 2127
02 Sep 2025 15:18:09,379 INFO : Assigning a DOI.
02 Sep 2025 15:18:10,128 INFO : Assigned DOI: 10.6069/jvxe-tq42
02 Sep 2025 15:18:10,206 INFO : Successfully completed task 'org.labkey.panoramapublic.pipeline.CopyExperimentFinalTask'