10 Mar 2021 13:54:45,737 INFO : Copying experiment "Alternative LC-MS/MS Platforms and Data Acquisition Strategies for Proteomic Genotyping" from folder /UC Davis - Parker Lab/Targeted GVP to /Panorama Public/2021/UC Davis Parker Lab - Targeted GVP
10 Mar 2021 13:54:45,738 INFO : =======================================
10 Mar 2021 13:54:46,070 INFO : Starting to run task 'org.labkey.panoramapublic.pipeline.ExperimentExportTask' at location 'webserver-high-priority'
10 Mar 2021 13:54:46,070 INFO : 
10 Mar 2021 13:54:46,070 INFO : Exporting experiment.
10 Mar 2021 14:05:15,071 INFO : 
10 Mar 2021 14:05:15,071 INFO : Experiment export completed successfully.
10 Mar 2021 14:05:15,071 INFO : Successfully completed task 'org.labkey.panoramapublic.pipeline.ExperimentExportTask'
10 Mar 2021 14:05:15,656 INFO : Starting to run task 'org.labkey.panoramapublic.pipeline.ExperimentImportTask' at location 'webserver-high-priority'
10 Mar 2021 14:05:15,656 INFO : 
10 Mar 2021 14:05:15,656 INFO : Importing experiment.
10 Mar 2021 14:05:15,669 INFO : Loading folder properties (folder type, settings and active modules)
10 Mar 2021 14:05:15,919 INFO : Done importing folder properties (folder type, settings and active modules)
10 Mar 2021 14:05:15,926 INFO : Loading etl definitions
10 Mar 2021 14:05:15,934 INFO : Loading wikis
10 Mar 2021 14:05:15,939 INFO : 0 wikis imported
10 Mar 2021 14:05:15,939 INFO : Done importing wikis
10 Mar 2021 14:05:15,940 INFO : Starting to copy files
10 Mar 2021 14:07:23,234 INFO : 55 files copied, now copying QEPlus2_03162018_20_ZG201.raw
10 Mar 2021 14:08:29,178 INFO : 61 files copied, now copying FL05222020_58_ZG185.raw
10 Mar 2021 14:09:42,311 INFO : 78 files copied, now copying ZG190.raw
10 Mar 2021 14:11:49,575 INFO : 94 files copied, now copying ZG194.raw
10 Mar 2021 14:11:57,350 INFO : 95 files copied, now copying FL20180724_32_ZG185.raw
10 Mar 2021 14:13:57,468 INFO : 110 files copied, now copying FL20180724_11_ZG187.raw
10 Mar 2021 14:14:14,219 INFO : Copied 112 files
10 Mar 2021 14:14:14,219 INFO : Ensuring exp.data rows exist for imported files
10 Mar 2021 14:14:16,599 INFO : Loading xar
10 Mar 2021 14:14:19,834 DEBUG: Finished loading Protocol with LSID 'urn:lsid:uw.edu:Protocol.Folder-8322:TargetedMS.ImportSkyZip'
10 Mar 2021 14:14:19,838 DEBUG: Finished loading Protocol with LSID 'urn:lsid:uw.edu:Protocol.Folder-8322:TargetedMS.ImportSkyZip.Core'
10 Mar 2021 14:14:19,841 DEBUG: Finished loading Protocol with LSID 'urn:lsid:uw.edu:Protocol.Folder-8322:TargetedMS.ImportSkyZip.Output'
10 Mar 2021 14:14:19,841 DEBUG: Protocol import complete
10 Mar 2021 14:14:19,843 DEBUG: Finished loading Experiment with LSID 'urn:lsid:uw.edu:Experiment.Folder-8322:Alternative+LC-MS%2FMS+Platforms+and+Data+Acquisition+Strategies+for+Proteomic+Genotyping'
10 Mar 2021 14:14:19,843 DEBUG: Experiment/Run group import complete
10 Mar 2021 14:14:19,858 DEBUG: Protocol action set import complete
10 Mar 2021 14:14:19,875 DEBUG: Finished loading ProtocolApplication with LSID 'urn:lsid:uw.edu:Protocol.Folder-8322:TargetedMS.ImportSkyZip'
10 Mar 2021 14:14:19,887 DEBUG: Finished loading Data with LSID 'urn:lsid:uw.edu:skyd.Folder-8322:abbac293-5ea2-1039-9674-3013bb9b91fd'
10 Mar 2021 14:14:19,893 DEBUG: Finished loading Data with LSID 'urn:lsid:uw.edu:UploadedFile.Folder-8322:abbac27d-5ea2-1039-9674-3013bb9b91fd'
10 Mar 2021 14:14:19,893 DEBUG: Finished loading ProtocolApplication with LSID 'urn:lsid:uw.edu:Protocol.Folder-8322:TargetedMS.ImportSkyZip.Core'
10 Mar 2021 14:14:19,898 DEBUG: Finished loading ProtocolApplication with LSID 'urn:lsid:uw.edu:Protocol.Folder-8322:TargetedMS.ImportSkyZip.Output'
10 Mar 2021 14:14:19,898 DEBUG: Finished loading ExperimentRun with LSID 'urn:lsid:uw.edu:Run.Folder-8322:abbac2d3-5ea2-1039-9674-3013bb9b91fd'
10 Mar 2021 14:14:19,925 DEBUG: Finished loading ProtocolApplication with LSID 'urn:lsid:uw.edu:Protocol.Folder-8322:TargetedMS.ImportSkyZip'
10 Mar 2021 14:14:19,933 DEBUG: Finished loading Data with LSID 'urn:lsid:uw.edu:skyd.Folder-8322:11cd6c25-5ea1-1039-9674-3013bb9b91fd'
10 Mar 2021 14:14:19,939 DEBUG: Finished loading Data with LSID 'urn:lsid:uw.edu:UploadedFile.Folder-8322:11cd6c02-5ea1-1039-9674-3013bb9b91fd'
10 Mar 2021 14:14:19,939 DEBUG: Finished loading ProtocolApplication with LSID 'urn:lsid:uw.edu:Protocol.Folder-8322:TargetedMS.ImportSkyZip.Core'
10 Mar 2021 14:14:19,942 DEBUG: Finished loading ProtocolApplication with LSID 'urn:lsid:uw.edu:Protocol.Folder-8322:TargetedMS.ImportSkyZip.Output'
10 Mar 2021 14:14:19,943 DEBUG: Finished loading ExperimentRun with LSID 'urn:lsid:uw.edu:Run.Folder-8322:11cd6cfb-5ea1-1039-9674-3013bb9b91fd'
10 Mar 2021 14:14:19,953 DEBUG: Finished loading ProtocolApplication with LSID 'urn:lsid:uw.edu:Protocol.Folder-8322:TargetedMS.ImportSkyZip'
10 Mar 2021 14:14:19,973 DEBUG: Finished loading Data with LSID 'urn:lsid:uw.edu:skyd.Folder-8322:11cd5118-5ea1-1039-9674-3013bb9b91fd'
10 Mar 2021 14:14:19,979 DEBUG: Finished loading Data with LSID 'urn:lsid:uw.edu:UploadedFile.Folder-8322:ddb6e79c-5e9f-1039-9674-3013bb9b91fd'
10 Mar 2021 14:14:19,979 DEBUG: Finished loading ProtocolApplication with LSID 'urn:lsid:uw.edu:Protocol.Folder-8322:TargetedMS.ImportSkyZip.Core'
10 Mar 2021 14:14:19,982 DEBUG: Finished loading ProtocolApplication with LSID 'urn:lsid:uw.edu:Protocol.Folder-8322:TargetedMS.ImportSkyZip.Output'
10 Mar 2021 14:14:19,982 DEBUG: Finished loading ExperimentRun with LSID 'urn:lsid:uw.edu:Run.Folder-8322:11cd5183-5ea1-1039-9674-3013bb9b91fd'
10 Mar 2021 14:14:19,993 DEBUG: Finished loading ProtocolApplication with LSID 'urn:lsid:uw.edu:Protocol.Folder-8322:TargetedMS.ImportSkyZip'
10 Mar 2021 14:14:20,018 DEBUG: Finished loading Data with LSID 'urn:lsid:uw.edu:skyd.Folder-8322:4995f9d4-5e9e-1039-9674-3013bb9b91fd'
10 Mar 2021 14:14:20,024 DEBUG: Finished loading Data with LSID 'urn:lsid:uw.edu:UploadedFile.Folder-8322:4995f653-5e9e-1039-9674-3013bb9b91fd'
10 Mar 2021 14:14:20,024 DEBUG: Finished loading ProtocolApplication with LSID 'urn:lsid:uw.edu:Protocol.Folder-8322:TargetedMS.ImportSkyZip.Core'
10 Mar 2021 14:14:20,027 DEBUG: Finished loading ProtocolApplication with LSID 'urn:lsid:uw.edu:Protocol.Folder-8322:TargetedMS.ImportSkyZip.Output'
10 Mar 2021 14:14:20,028 DEBUG: Finished loading ExperimentRun with LSID 'urn:lsid:uw.edu:Run.Folder-8322:4995fa34-5e9e-1039-9674-3013bb9b91fd'
10 Mar 2021 14:14:20,052 DEBUG: Trying to load data file file:///data/apache-tomcat/temp/Pipeline_temp/UC%20Davis%20Parker%20Lab%20-%20Targeted%20GVP_e7ee682b-6418-1039-9674-3013bb9b91fd/_temp__2021-03-10_13-54-45/export/xar/experiments_and_runs.xar.exploded/Run102981/DIA%2020200601%20-%2024%20GVPs_2021-03-03_15-09-21/DIA%2020200601%20-%2024%20GVPs.skyd into the system
10 Mar 2021 14:14:20,053 DEBUG: Finished trying to load data file file:///data/apache-tomcat/temp/Pipeline_temp/UC%20Davis%20Parker%20Lab%20-%20Targeted%20GVP_e7ee682b-6418-1039-9674-3013bb9b91fd/_temp__2021-03-10_13-54-45/export/xar/experiments_and_runs.xar.exploded/Run102981/DIA%2020200601%20-%2024%20GVPs_2021-03-03_15-09-21/DIA%2020200601%20-%2024%20GVPs.skyd into the system
10 Mar 2021 14:14:20,053 DEBUG: Trying to load data file file:///data/apache-tomcat/temp/Pipeline_temp/UC%20Davis%20Parker%20Lab%20-%20Targeted%20GVP_e7ee682b-6418-1039-9674-3013bb9b91fd/_temp__2021-03-10_13-54-45/export/xar/experiments_and_runs.xar.exploded/Run102981/DIA%2020200601%20-%2024%20GVPs_2021-03-03_15-09-21.sky.zip into the system
10 Mar 2021 14:14:20,055 INFO : Starting import from DIA 20200601 - 24 GVPs_2021-03-03_15-09-21.sky.zip
10 Mar 2021 14:14:20,063 INFO : Starting to import Skyline document from DIA 20200601 - 24 GVPs_2021-03-03_15-09-21.sky.zip
10 Mar 2021 14:14:20,065 INFO : Expanding Prosit.blib
10 Mar 2021 14:14:20,065 INFO : Expanding DIA 20200601 - 24 GVPs.skyd
10 Mar 2021 14:14:20,101 INFO : Expanding DIA 20200601 - 24 GVPs.sky.view
10 Mar 2021 14:14:20,102 INFO : Expanding DIA 20200601 - 24 GVPs.sky
10 Mar 2021 14:14:20,131 INFO : 1% Done
10 Mar 2021 14:14:20,283 DEBUG: Starting to load chromatogram headers
10 Mar 2021 14:14:20,284 DEBUG: Done loading chromatogram headers
10 Mar 2021 14:14:20,499 INFO : Inserting sp|P99999|ker_Zach1
10 Mar 2021 14:14:20,536 INFO : 5% Done
10 Mar 2021 14:14:20,975 INFO : 9% Done
10 Mar 2021 14:14:21,349 INFO : 12% Done
10 Mar 2021 14:14:21,582 INFO : 15% Done
10 Mar 2021 14:14:21,851 INFO : 17% Done
10 Mar 2021 14:14:22,088 INFO : 20% Done
10 Mar 2021 14:14:22,374 INFO : 23% Done
10 Mar 2021 14:14:22,678 INFO : 25% Done
10 Mar 2021 14:14:22,925 INFO : 29% Done
10 Mar 2021 14:14:23,333 INFO : 34% Done
10 Mar 2021 14:14:24,087 INFO : 39% Done
10 Mar 2021 14:14:24,552 INFO : 44% Done
10 Mar 2021 14:14:24,951 INFO : 48% Done
10 Mar 2021 14:14:25,348 INFO : 53% Done
10 Mar 2021 14:14:25,708 INFO : 57% Done
10 Mar 2021 14:14:26,125 INFO : 62% Done
10 Mar 2021 14:14:26,533 INFO : 65% Done
10 Mar 2021 14:14:26,794 INFO : 69% Done
10 Mar 2021 14:14:27,063 WARN : Unable to find at least one chromatogram for file path E:\Proteomics Core Mass Spec Data\PRM-DIA\FL05222020_28_ZG182.raw
10 Mar 2021 14:14:27,063 WARN : Unable to find at least one chromatogram for file path E:\Proteomics Core Mass Spec Data\PRM-DIA\FL05222020_36_ZG183.raw
10 Mar 2021 14:14:27,063 WARN : Unable to find at least one chromatogram for file path E:\Proteomics Core Mass Spec Data\PRM-DIA\FL05222020_50_ZG184.raw
10 Mar 2021 14:14:27,063 WARN : Unable to find at least one chromatogram for file path E:\Proteomics Core Mass Spec Data\PRM-DIA\FL05222020_58_ZG185.raw
10 Mar 2021 14:14:27,063 WARN : Unable to find at least one chromatogram for file path E:\Proteomics Core Mass Spec Data\PRM-DIA\FL05222020_44_ZG186.raw
10 Mar 2021 14:14:27,064 WARN : Unable to find at least one chromatogram for file path E:\Proteomics Core Mass Spec Data\PRM-DIA\FL05222020_48_ZG187.raw
10 Mar 2021 14:14:27,064 WARN : Unable to find at least one chromatogram for file path E:\Proteomics Core Mass Spec Data\PRM-DIA\FL05222020_60_ZG188.raw
10 Mar 2021 14:14:27,064 WARN : Unable to find at least one chromatogram for file path E:\Proteomics Core Mass Spec Data\PRM-DIA\FL05222020_34_ZG189.raw
10 Mar 2021 14:14:27,064 WARN : Unable to find at least one chromatogram for file path E:\Proteomics Core Mass Spec Data\PRM-DIA\FL05222020_54_ZG190.raw
10 Mar 2021 14:14:27,064 WARN : Unable to find at least one chromatogram for file path E:\Proteomics Core Mass Spec Data\PRM-DIA\FL05222020_30_ZG194.raw
10 Mar 2021 14:14:27,064 WARN : Unable to find at least one chromatogram for file path E:\Proteomics Core Mass Spec Data\PRM-DIA\FL05222020_40_ZG195.raw
10 Mar 2021 14:14:27,064 WARN : Unable to find at least one chromatogram for file path E:\Proteomics Core Mass Spec Data\PRM-DIA\FL05222020_62_ZG196.raw
10 Mar 2021 14:14:27,065 WARN : Unable to find at least one chromatogram for file path E:\Proteomics Core Mass Spec Data\PRM-DIA\FL05222020_66_ZG197.raw
10 Mar 2021 14:14:27,065 WARN : Unable to find at least one chromatogram for file path E:\Proteomics Core Mass Spec Data\PRM-DIA\FL05222020_42_ZG198.raw
10 Mar 2021 14:14:27,065 WARN : Unable to find at least one chromatogram for file path E:\Proteomics Core Mass Spec Data\PRM-DIA\FL05222020_64_ZG199.raw
10 Mar 2021 14:14:27,065 WARN : Unable to find at least one chromatogram for file path E:\Proteomics Core Mass Spec Data\PRM-DIA\FL05222020_52_ZG200.raw
10 Mar 2021 14:14:27,065 WARN : Unable to find at least one chromatogram for file path E:\Proteomics Core Mass Spec Data\PRM-DIA\FL05222020_32_ZG201.raw
10 Mar 2021 14:14:27,072 INFO : 73% Done
10 Mar 2021 14:14:27,145 INFO : 76% Done
10 Mar 2021 14:14:27,214 INFO : 82% Done
10 Mar 2021 14:14:27,404 INFO : 88% Done
10 Mar 2021 14:14:27,501 INFO : 93% Done
10 Mar 2021 14:14:27,937 INFO : 98% Done
10 Mar 2021 14:14:28,454 DEBUG: Total peptides inserted: 24
10 Mar 2021 14:14:28,456 INFO : Done parsing Skyline document.
10 Mar 2021 14:14:28,471 WARN : Missed importing 124 chromatograms from sample file E:\Proteomics Core Mass Spec Data\PRM-DIA\FL05222020_64_ZG199.raw
10 Mar 2021 14:14:28,471 WARN : Missed importing 124 chromatograms from sample file E:\Proteomics Core Mass Spec Data\PRM-DIA\FL05222020_44_ZG186.raw
10 Mar 2021 14:14:28,471 WARN : Missed importing 124 chromatograms from sample file E:\Proteomics Core Mass Spec Data\PRM-DIA\FL05222020_50_ZG184.raw
10 Mar 2021 14:14:28,471 WARN : Missed importing 124 chromatograms from sample file E:\Proteomics Core Mass Spec Data\PRM-DIA\FL05222020_40_ZG195.raw
10 Mar 2021 14:14:28,471 WARN : Missed importing 124 chromatograms from sample file E:\Proteomics Core Mass Spec Data\PRM-DIA\FL05222020_30_ZG194.raw
10 Mar 2021 14:14:28,472 WARN : Missed importing 124 chromatograms from sample file E:\Proteomics Core Mass Spec Data\PRM-DIA\FL05222020_52_ZG200.raw
10 Mar 2021 14:14:28,472 WARN : Missed importing 124 chromatograms from sample file E:\Proteomics Core Mass Spec Data\PRM-DIA\FL05222020_62_ZG196.raw
10 Mar 2021 14:14:28,472 WARN : Missed importing 124 chromatograms from sample file E:\Proteomics Core Mass Spec Data\PRM-DIA\FL05222020_28_ZG182.raw
10 Mar 2021 14:14:28,472 WARN : Missed importing 124 chromatograms from sample file E:\Proteomics Core Mass Spec Data\PRM-DIA\FL05222020_60_ZG188.raw
10 Mar 2021 14:14:28,472 WARN : Missed importing 124 chromatograms from sample file E:\Proteomics Core Mass Spec Data\PRM-DIA\FL05222020_58_ZG185.raw
10 Mar 2021 14:14:28,472 WARN : Missed importing 124 chromatograms from sample file E:\Proteomics Core Mass Spec Data\PRM-DIA\FL05222020_66_ZG197.raw
10 Mar 2021 14:14:28,472 WARN : Missed importing 124 chromatograms from sample file E:\Proteomics Core Mass Spec Data\PRM-DIA\FL05222020_36_ZG183.raw
10 Mar 2021 14:14:28,473 WARN : Missed importing 124 chromatograms from sample file E:\Proteomics Core Mass Spec Data\PRM-DIA\FL05222020_34_ZG189.raw
10 Mar 2021 14:14:28,473 WARN : Missed importing 124 chromatograms from sample file E:\Proteomics Core Mass Spec Data\PRM-DIA\FL05222020_32_ZG201.raw
10 Mar 2021 14:14:28,473 WARN : Missed importing 124 chromatograms from sample file E:\Proteomics Core Mass Spec Data\PRM-DIA\FL05222020_54_ZG190.raw
10 Mar 2021 14:14:28,473 WARN : Missed importing 124 chromatograms from sample file E:\Proteomics Core Mass Spec Data\PRM-DIA\FL05222020_48_ZG187.raw
10 Mar 2021 14:14:28,473 WARN : Missed importing 124 chromatograms from sample file E:\Proteomics Core Mass Spec Data\PRM-DIA\FL05222020_42_ZG198.raw
10 Mar 2021 14:14:28,473 INFO : Creating and populating temp tables for Proportion values
10 Mar 2021 14:14:28,511 INFO : Setting PrecursorModifiedAreaProportion values on precursorchrominfo
10 Mar 2021 14:14:28,649 INFO : Setting ModifiedAreaProportion values on generalmoleculechrominfo
10 Mar 2021 14:14:28,701 INFO : Cleaning up temp tables
10 Mar 2021 14:14:29,252 INFO : Completed import of Skyline document from DIA 20200601 - 24 GVPs_2021-03-03_15-09-21.sky.zip
10 Mar 2021 14:14:29,260 INFO : 100% Done
10 Mar 2021 14:14:29,272 DEBUG: Finished trying to load data file file:///data/apache-tomcat/temp/Pipeline_temp/UC%20Davis%20Parker%20Lab%20-%20Targeted%20GVP_e7ee682b-6418-1039-9674-3013bb9b91fd/_temp__2021-03-10_13-54-45/export/xar/experiments_and_runs.xar.exploded/Run102981/DIA%2020200601%20-%2024%20GVPs_2021-03-03_15-09-21.sky.zip into the system
10 Mar 2021 14:14:29,272 DEBUG: Trying to load data file file:///data/apache-tomcat/temp/Pipeline_temp/UC%20Davis%20Parker%20Lab%20-%20Targeted%20GVP_e7ee682b-6418-1039-9674-3013bb9b91fd/_temp__2021-03-10_13-54-45/export/xar/experiments_and_runs.xar.exploded/Run102980/PRM%2020200717%20-%2024%20GVPs_2021-03-03_14-59-20/PRM%2020200717%20-%2024%20GVPs.skyd into the system
10 Mar 2021 14:14:29,273 DEBUG: Finished trying to load data file file:///data/apache-tomcat/temp/Pipeline_temp/UC%20Davis%20Parker%20Lab%20-%20Targeted%20GVP_e7ee682b-6418-1039-9674-3013bb9b91fd/_temp__2021-03-10_13-54-45/export/xar/experiments_and_runs.xar.exploded/Run102980/PRM%2020200717%20-%2024%20GVPs_2021-03-03_14-59-20/PRM%2020200717%20-%2024%20GVPs.skyd into the system
10 Mar 2021 14:14:29,273 DEBUG: Trying to load data file file:///data/apache-tomcat/temp/Pipeline_temp/UC%20Davis%20Parker%20Lab%20-%20Targeted%20GVP_e7ee682b-6418-1039-9674-3013bb9b91fd/_temp__2021-03-10_13-54-45/export/xar/experiments_and_runs.xar.exploded/Run102980/PRM%2020200717%20-%2024%20GVPs_2021-03-03_14-59-20.sky.zip into the system
10 Mar 2021 14:14:29,278 INFO : Starting import from PRM 20200717 - 24 GVPs_2021-03-03_14-59-20.sky.zip
10 Mar 2021 14:14:29,286 INFO : Starting to import Skyline document from PRM 20200717 - 24 GVPs_2021-03-03_14-59-20.sky.zip
10 Mar 2021 14:14:29,315 INFO : Expanding Prosit.blib
10 Mar 2021 14:14:29,317 INFO : Expanding PRM 20200717 - 24 GVPs.skyd
10 Mar 2021 14:14:30,051 INFO : Expanding PRM 20200717 - 24 GVPs.sky.view
10 Mar 2021 14:14:30,052 INFO : Expanding PRM 20200717 - 24 GVPs.sky
10 Mar 2021 14:14:30,099 INFO : 2% Done
10 Mar 2021 14:14:30,415 DEBUG: Starting to load chromatogram headers
10 Mar 2021 14:14:30,417 DEBUG: Done loading chromatogram headers
10 Mar 2021 14:14:30,518 INFO : Inserting sp|P99999|ker_Zach1
10 Mar 2021 14:14:30,573 INFO : 6% Done
10 Mar 2021 14:14:31,481 INFO : 10% Done
10 Mar 2021 14:14:32,197 INFO : 13% Done
10 Mar 2021 14:14:32,686 INFO : 17% Done
10 Mar 2021 14:14:33,168 INFO : 20% Done
10 Mar 2021 14:14:33,704 INFO : 24% Done
10 Mar 2021 14:14:34,323 INFO : 27% Done
10 Mar 2021 14:14:34,928 INFO : 31% Done
10 Mar 2021 14:14:35,563 INFO : 35% Done
10 Mar 2021 14:14:36,157 INFO : 38% Done
10 Mar 2021 14:14:36,605 INFO : 44% Done
10 Mar 2021 14:14:37,672 INFO : 49% Done
10 Mar 2021 14:14:38,562 INFO : 54% Done
10 Mar 2021 14:14:39,305 INFO : 59% Done
10 Mar 2021 14:14:40,303 INFO : 65% Done
10 Mar 2021 14:14:41,230 INFO : 70% Done
10 Mar 2021 14:14:42,122 INFO : 74% Done
10 Mar 2021 14:14:42,896 INFO : 77% Done
10 Mar 2021 14:14:43,551 INFO : 82% Done
10 Mar 2021 14:14:44,331 INFO : 87% Done
10 Mar 2021 14:14:45,113 INFO : 89% Done
10 Mar 2021 14:14:45,472 INFO : 94% Done
10 Mar 2021 14:14:46,426 INFO : 96% Done
10 Mar 2021 14:14:46,703 INFO : 98% Done
10 Mar 2021 14:14:46,981 DEBUG: Total peptides inserted: 24
10 Mar 2021 14:14:46,983 INFO : Done parsing Skyline document.
10 Mar 2021 14:14:46,986 INFO : Creating and populating temp tables for Proportion values
10 Mar 2021 14:14:47,033 INFO : Setting PrecursorModifiedAreaProportion values on precursorchrominfo
10 Mar 2021 14:14:47,215 INFO : Setting ModifiedAreaProportion values on generalmoleculechrominfo
10 Mar 2021 14:14:47,278 INFO : Cleaning up temp tables
10 Mar 2021 14:14:47,836 INFO : Completed import of Skyline document from PRM 20200717 - 24 GVPs_2021-03-03_14-59-20.sky.zip
10 Mar 2021 14:14:47,844 INFO : 100% Done
10 Mar 2021 14:14:47,858 DEBUG: Finished trying to load data file file:///data/apache-tomcat/temp/Pipeline_temp/UC%20Davis%20Parker%20Lab%20-%20Targeted%20GVP_e7ee682b-6418-1039-9674-3013bb9b91fd/_temp__2021-03-10_13-54-45/export/xar/experiments_and_runs.xar.exploded/Run102980/PRM%2020200717%20-%2024%20GVPs_2021-03-03_14-59-20.sky.zip into the system
10 Mar 2021 14:14:47,858 DEBUG: Trying to load data file file:///data/apache-tomcat/temp/Pipeline_temp/UC%20Davis%20Parker%20Lab%20-%20Targeted%20GVP_e7ee682b-6418-1039-9674-3013bb9b91fd/_temp__2021-03-10_13-54-45/export/xar/experiments_and_runs.xar.exploded/Run102978/MRM%2020200717%20-%2024%20GVPs_2021-03-03_14-52-16/MRM%2020200717%20-%2024%20GVPs.skyd into the system
10 Mar 2021 14:14:47,879 DEBUG: Finished trying to load data file file:///data/apache-tomcat/temp/Pipeline_temp/UC%20Davis%20Parker%20Lab%20-%20Targeted%20GVP_e7ee682b-6418-1039-9674-3013bb9b91fd/_temp__2021-03-10_13-54-45/export/xar/experiments_and_runs.xar.exploded/Run102978/MRM%2020200717%20-%2024%20GVPs_2021-03-03_14-52-16/MRM%2020200717%20-%2024%20GVPs.skyd into the system
10 Mar 2021 14:14:47,879 DEBUG: Trying to load data file file:///data/apache-tomcat/temp/Pipeline_temp/UC%20Davis%20Parker%20Lab%20-%20Targeted%20GVP_e7ee682b-6418-1039-9674-3013bb9b91fd/_temp__2021-03-10_13-54-45/export/xar/experiments_and_runs.xar.exploded/Run102978/MRM%2020200717%20-%2024%20GVPs_2021-03-03_14-52-16.sky.zip into the system
10 Mar 2021 14:14:47,885 INFO : Starting import from MRM 20200717 - 24 GVPs_2021-03-03_14-52-16.sky.zip
10 Mar 2021 14:14:47,893 INFO : Starting to import Skyline document from MRM 20200717 - 24 GVPs_2021-03-03_14-52-16.sky.zip
10 Mar 2021 14:14:47,894 INFO : Expanding Prosit.blib
10 Mar 2021 14:14:47,896 INFO : Expanding MRM 20200717 - 24 GVPs.skyd
10 Mar 2021 14:14:47,917 INFO : Expanding MRM 20200717 - 24 GVPs.sky.view
10 Mar 2021 14:14:47,918 INFO : Expanding MRM 20200717 - 24 GVPs.sky
10 Mar 2021 14:14:47,951 INFO : 1% Done
10 Mar 2021 14:14:47,977 DEBUG: Starting to load chromatogram headers
10 Mar 2021 14:14:47,980 DEBUG: Done loading chromatogram headers
10 Mar 2021 14:14:48,139 INFO : 2% Done
10 Mar 2021 14:14:48,144 INFO : Inserting sp|P99999|ker_Zach1
10 Mar 2021 14:14:48,159 INFO : 6% Done
10 Mar 2021 14:14:48,346 INFO : 10% Done
10 Mar 2021 14:14:48,527 INFO : 14% Done
10 Mar 2021 14:14:48,737 INFO : 18% Done
10 Mar 2021 14:14:48,918 INFO : 22% Done
10 Mar 2021 14:14:49,153 INFO : 25% Done
10 Mar 2021 14:14:49,333 INFO : 30% Done
10 Mar 2021 14:14:49,512 INFO : 34% Done
10 Mar 2021 14:14:49,691 INFO : 38% Done
10 Mar 2021 14:14:49,859 INFO : 42% Done
10 Mar 2021 14:14:50,031 INFO : 46% Done
10 Mar 2021 14:14:50,209 INFO : 50% Done
10 Mar 2021 14:14:50,394 INFO : 54% Done
10 Mar 2021 14:14:50,570 INFO : 58% Done
10 Mar 2021 14:14:50,794 INFO : 62% Done
10 Mar 2021 14:14:50,978 INFO : 67% Done
10 Mar 2021 14:14:51,153 INFO : 71% Done
10 Mar 2021 14:14:51,332 INFO : 74% Done
10 Mar 2021 14:14:51,514 INFO : 78% Done
10 Mar 2021 14:14:51,696 INFO : 82% Done
10 Mar 2021 14:14:51,893 INFO : 86% Done
10 Mar 2021 14:14:52,077 INFO : 90% Done
10 Mar 2021 14:14:52,257 INFO : 94% Done
10 Mar 2021 14:14:52,441 INFO : 98% Done
10 Mar 2021 14:14:52,620 DEBUG: Total peptides inserted: 24
10 Mar 2021 14:14:52,623 INFO : Done parsing Skyline document.
10 Mar 2021 14:14:52,626 INFO : Creating and populating temp tables for Proportion values
10 Mar 2021 14:14:52,673 INFO : Setting PrecursorModifiedAreaProportion values on precursorchrominfo
10 Mar 2021 14:14:53,012 INFO : Setting ModifiedAreaProportion values on generalmoleculechrominfo
10 Mar 2021 14:14:53,076 INFO : Cleaning up temp tables
10 Mar 2021 14:14:53,559 INFO : Completed import of Skyline document from MRM 20200717 - 24 GVPs_2021-03-03_14-52-16.sky.zip
10 Mar 2021 14:14:53,569 INFO : 100% Done
10 Mar 2021 14:14:53,583 DEBUG: Finished trying to load data file file:///data/apache-tomcat/temp/Pipeline_temp/UC%20Davis%20Parker%20Lab%20-%20Targeted%20GVP_e7ee682b-6418-1039-9674-3013bb9b91fd/_temp__2021-03-10_13-54-45/export/xar/experiments_and_runs.xar.exploded/Run102978/MRM%2020200717%20-%2024%20GVPs_2021-03-03_14-52-16.sky.zip into the system
10 Mar 2021 14:14:53,583 DEBUG: Trying to load data file file:///data/apache-tomcat/temp/Pipeline_temp/UC%20Davis%20Parker%20Lab%20-%20Targeted%20GVP_e7ee682b-6418-1039-9674-3013bb9b91fd/_temp__2021-03-10_13-54-45/export/xar/experiments_and_runs.xar.exploded/Run102976/DDA%2020200715%20-%2024%20GVPs_2021-03-03_14-28-53/DDA%2020200715%20-%2024%20GVPs.skyd into the system
10 Mar 2021 14:14:53,584 DEBUG: Finished trying to load data file file:///data/apache-tomcat/temp/Pipeline_temp/UC%20Davis%20Parker%20Lab%20-%20Targeted%20GVP_e7ee682b-6418-1039-9674-3013bb9b91fd/_temp__2021-03-10_13-54-45/export/xar/experiments_and_runs.xar.exploded/Run102976/DDA%2020200715%20-%2024%20GVPs_2021-03-03_14-28-53/DDA%2020200715%20-%2024%20GVPs.skyd into the system
10 Mar 2021 14:14:53,585 DEBUG: Trying to load data file file:///data/apache-tomcat/temp/Pipeline_temp/UC%20Davis%20Parker%20Lab%20-%20Targeted%20GVP_e7ee682b-6418-1039-9674-3013bb9b91fd/_temp__2021-03-10_13-54-45/export/xar/experiments_and_runs.xar.exploded/Run102976/DDA%2020200715%20-%2024%20GVPs_2021-03-03_14-28-53.sky.zip into the system
10 Mar 2021 14:14:53,589 INFO : Starting import from DDA 20200715 - 24 GVPs_2021-03-03_14-28-53.sky.zip
10 Mar 2021 14:14:53,596 INFO : Starting to import Skyline document from DDA 20200715 - 24 GVPs_2021-03-03_14-28-53.sky.zip
10 Mar 2021 14:14:53,645 INFO : Expanding Prosit.blib
10 Mar 2021 14:14:53,646 INFO : Expanding DDA 20200715 - 24 GVPs.skyd
10 Mar 2021 14:14:54,586 INFO : Expanding DDA 20200715 - 24 GVPs.sky.view
10 Mar 2021 14:14:54,586 INFO : Expanding DDA 20200715 - 24 GVPs.sky
10 Mar 2021 14:14:54,612 INFO : 1% Done
10 Mar 2021 14:14:54,719 DEBUG: Starting to load chromatogram headers
10 Mar 2021 14:14:54,720 DEBUG: Done loading chromatogram headers
10 Mar 2021 14:14:54,815 INFO : Inserting sp|P99999|ker_Zach1
10 Mar 2021 14:14:54,828 INFO : 5% Done
10 Mar 2021 14:14:55,147 INFO : 9% Done
10 Mar 2021 14:14:55,467 INFO : 11% Done
10 Mar 2021 14:14:55,686 INFO : 14% Done
10 Mar 2021 14:14:55,876 INFO : 16% Done
10 Mar 2021 14:14:56,094 INFO : 18% Done
10 Mar 2021 14:14:56,307 INFO : 21% Done
10 Mar 2021 14:14:56,529 INFO : 24% Done
10 Mar 2021 14:14:56,758 INFO : 27% Done
10 Mar 2021 14:14:57,097 INFO : 31% Done
10 Mar 2021 14:14:57,381 INFO : 35% Done
10 Mar 2021 14:14:57,695 INFO : 40% Done
10 Mar 2021 14:14:58,024 INFO : 43% Done
10 Mar 2021 14:14:58,264 INFO : 48% Done
10 Mar 2021 14:14:58,584 INFO : 52% Done
10 Mar 2021 14:14:58,904 INFO : 56% Done
10 Mar 2021 14:14:59,208 INFO : 59% Done
10 Mar 2021 14:14:59,422 INFO : 62% Done
10 Mar 2021 14:14:59,661 INFO : 65% Done
10 Mar 2021 14:14:59,943 INFO : 69% Done
10 Mar 2021 14:15:00,202 INFO : 74% Done
10 Mar 2021 14:15:00,428 INFO : 79% Done
10 Mar 2021 14:15:00,783 INFO : 84% Done
10 Mar 2021 14:15:01,207 INFO : 88% Done
10 Mar 2021 14:15:01,610 INFO : 93% Done
10 Mar 2021 14:15:01,922 INFO : 98% Done
10 Mar 2021 14:15:02,296 DEBUG: Total peptides inserted: 26
10 Mar 2021 14:15:02,298 INFO : Done parsing Skyline document.
10 Mar 2021 14:15:02,301 INFO : Creating and populating temp tables for Proportion values
10 Mar 2021 14:15:02,343 INFO : Setting PrecursorModifiedAreaProportion values on precursorchrominfo
10 Mar 2021 14:15:02,441 INFO : Setting ModifiedAreaProportion values on generalmoleculechrominfo
10 Mar 2021 14:15:02,507 INFO : Cleaning up temp tables
10 Mar 2021 14:15:02,523 INFO : Completed import of Skyline document from DDA 20200715 - 24 GVPs_2021-03-03_14-28-53.sky.zip
10 Mar 2021 14:15:02,533 INFO : 100% Done
10 Mar 2021 14:15:02,545 DEBUG: Finished trying to load data file file:///data/apache-tomcat/temp/Pipeline_temp/UC%20Davis%20Parker%20Lab%20-%20Targeted%20GVP_e7ee682b-6418-1039-9674-3013bb9b91fd/_temp__2021-03-10_13-54-45/export/xar/experiments_and_runs.xar.exploded/Run102976/DDA%2020200715%20-%2024%20GVPs_2021-03-03_14-28-53.sky.zip into the system
10 Mar 2021 14:15:02,598 INFO : Done importing xar
10 Mar 2021 14:15:02,605 INFO : Loading pages and webpart properties
10 Mar 2021 14:15:02,956 INFO : Done importing pages and webpart properties
10 Mar 2021 14:15:02,957 INFO : 
10 Mar 2021 14:15:02,957 INFO : Experiment import completed successfully.
10 Mar 2021 14:15:02,957 INFO : Successfully completed task 'org.labkey.panoramapublic.pipeline.ExperimentImportTask'
10 Mar 2021 14:15:27,312 INFO : Starting to run task 'org.labkey.panoramapublic.pipeline.CopyExperimentFinalTask' at location 'webserver-high-priority'
10 Mar 2021 14:15:27,313 INFO : 
10 Mar 2021 14:15:27,313 INFO : Finishing up experiment copy.
10 Mar 2021 14:15:27,316 INFO : Creating a new TargetedMS experiment entry in panoramapublic.ExperimentAnnotations.
10 Mar 2021 14:15:27,320 INFO : Assigning a ProteomeXchange ID.
10 Mar 2021 14:15:27,442 INFO : Updating access URL to point to the new copy of the data.
10 Mar 2021 14:15:27,498 INFO : Setting the 'copied' timestamp and journalExperimentId on the JournalExperiment table.
10 Mar 2021 14:15:27,502 INFO : Removing copy permissions given to journal.
10 Mar 2021 14:15:27,604 INFO : Adding read permissions to all users that are folder admins in the source container.
10 Mar 2021 14:15:27,632 INFO : Setting the TargetedMS folder type to 'Experimental Data'
10 Mar 2021 14:15:27,643 INFO : Updating the 'Raw Data' tab configuration
10 Mar 2021 14:15:27,651 INFO : Updating dataFileUrls for run DDA 20200715 - 24 GVPs_2021-03-03_14-28-53.sky.zip; targetedms run ID 105678
10 Mar 2021 14:15:27,652 INFO : Updating dataFileUrl...
10 Mar 2021 14:15:27,652 INFO : from: file:///data/apache-tomcat/temp/Pipeline_temp/UC%20Davis%20Parker%20Lab%20-%20Targeted%20GVP_e7ee682b-6418-1039-9674-3013bb9b91fd/_temp__2021-03-10_13-54-45/export/xar/experiments_and_runs.xar.exploded/Run102976/DDA%2020200715%20-%2024%20GVPs_2021-03-03_14-28-53.sky.zip
10 Mar 2021 14:15:27,653 INFO : to: file:///data/labkey/files/Panorama%20Public/2021/UC%20Davis%20Parker%20Lab%20-%20Targeted%20GVP/@files/DDA%2020200715%20-%2024%20GVPs_2021-03-03_14-28-53.sky.zip
10 Mar 2021 14:15:27,659 INFO : Updating dataFileUrl...
10 Mar 2021 14:15:27,659 INFO : from: file:///data/apache-tomcat/temp/Pipeline_temp/UC%20Davis%20Parker%20Lab%20-%20Targeted%20GVP_e7ee682b-6418-1039-9674-3013bb9b91fd/_temp__2021-03-10_13-54-45/export/xar/experiments_and_runs.xar.exploded/Run102976/DDA%2020200715%20-%2024%20GVPs_2021-03-03_14-28-53/DDA%2020200715%20-%2024%20GVPs.skyd
10 Mar 2021 14:15:27,660 INFO : to: file:///data/labkey/files/Panorama%20Public/2021/UC%20Davis%20Parker%20Lab%20-%20Targeted%20GVP/@files/DDA%2020200715%20-%2024%20GVPs_2021-03-03_14-28-53/DDA%2020200715%20-%2024%20GVPs.skyd
10 Mar 2021 14:15:27,671 INFO : Updating dataFileUrls for run MRM 20200717 - 24 GVPs_2021-03-03_14-52-16.sky.zip; targetedms run ID 105677
10 Mar 2021 14:15:27,671 INFO : Updating dataFileUrl...
10 Mar 2021 14:15:27,671 INFO : from: file:///data/apache-tomcat/temp/Pipeline_temp/UC%20Davis%20Parker%20Lab%20-%20Targeted%20GVP_e7ee682b-6418-1039-9674-3013bb9b91fd/_temp__2021-03-10_13-54-45/export/xar/experiments_and_runs.xar.exploded/Run102978/MRM%2020200717%20-%2024%20GVPs_2021-03-03_14-52-16.sky.zip
10 Mar 2021 14:15:27,672 INFO : to: file:///data/labkey/files/Panorama%20Public/2021/UC%20Davis%20Parker%20Lab%20-%20Targeted%20GVP/@files/MRM%2020200717%20-%2024%20GVPs_2021-03-03_14-52-16.sky.zip
10 Mar 2021 14:15:27,678 INFO : Updating dataFileUrl...
10 Mar 2021 14:15:27,678 INFO : from: file:///data/apache-tomcat/temp/Pipeline_temp/UC%20Davis%20Parker%20Lab%20-%20Targeted%20GVP_e7ee682b-6418-1039-9674-3013bb9b91fd/_temp__2021-03-10_13-54-45/export/xar/experiments_and_runs.xar.exploded/Run102978/MRM%2020200717%20-%2024%20GVPs_2021-03-03_14-52-16/MRM%2020200717%20-%2024%20GVPs.skyd
10 Mar 2021 14:15:27,678 INFO : to: file:///data/labkey/files/Panorama%20Public/2021/UC%20Davis%20Parker%20Lab%20-%20Targeted%20GVP/@files/MRM%2020200717%20-%2024%20GVPs_2021-03-03_14-52-16/MRM%2020200717%20-%2024%20GVPs.skyd
10 Mar 2021 14:15:27,688 INFO : Updating dataFileUrls for run PRM 20200717 - 24 GVPs_2021-03-03_14-59-20.sky.zip; targetedms run ID 105676
10 Mar 2021 14:15:27,688 INFO : Updating dataFileUrl...
10 Mar 2021 14:15:27,688 INFO : from: file:///data/apache-tomcat/temp/Pipeline_temp/UC%20Davis%20Parker%20Lab%20-%20Targeted%20GVP_e7ee682b-6418-1039-9674-3013bb9b91fd/_temp__2021-03-10_13-54-45/export/xar/experiments_and_runs.xar.exploded/Run102980/PRM%2020200717%20-%2024%20GVPs_2021-03-03_14-59-20/PRM%2020200717%20-%2024%20GVPs.skyd
10 Mar 2021 14:15:27,689 INFO : to: file:///data/labkey/files/Panorama%20Public/2021/UC%20Davis%20Parker%20Lab%20-%20Targeted%20GVP/@files/PRM%2020200717%20-%2024%20GVPs_2021-03-03_14-59-20/PRM%2020200717%20-%2024%20GVPs.skyd
10 Mar 2021 14:15:27,694 INFO : Updating dataFileUrl...
10 Mar 2021 14:15:27,694 INFO : from: file:///data/apache-tomcat/temp/Pipeline_temp/UC%20Davis%20Parker%20Lab%20-%20Targeted%20GVP_e7ee682b-6418-1039-9674-3013bb9b91fd/_temp__2021-03-10_13-54-45/export/xar/experiments_and_runs.xar.exploded/Run102980/PRM%2020200717%20-%2024%20GVPs_2021-03-03_14-59-20.sky.zip
10 Mar 2021 14:15:27,694 INFO : to: file:///data/labkey/files/Panorama%20Public/2021/UC%20Davis%20Parker%20Lab%20-%20Targeted%20GVP/@files/PRM%2020200717%20-%2024%20GVPs_2021-03-03_14-59-20.sky.zip
10 Mar 2021 14:15:27,704 INFO : Updating dataFileUrls for run DIA 20200601 - 24 GVPs_2021-03-03_15-09-21.sky.zip; targetedms run ID 105675
10 Mar 2021 14:15:27,704 INFO : Updating dataFileUrl...
10 Mar 2021 14:15:27,705 INFO : from: file:///data/apache-tomcat/temp/Pipeline_temp/UC%20Davis%20Parker%20Lab%20-%20Targeted%20GVP_e7ee682b-6418-1039-9674-3013bb9b91fd/_temp__2021-03-10_13-54-45/export/xar/experiments_and_runs.xar.exploded/Run102981/DIA%2020200601%20-%2024%20GVPs_2021-03-03_15-09-21/DIA%2020200601%20-%2024%20GVPs.skyd
10 Mar 2021 14:15:27,705 INFO : to: file:///data/labkey/files/Panorama%20Public/2021/UC%20Davis%20Parker%20Lab%20-%20Targeted%20GVP/@files/DIA%2020200601%20-%2024%20GVPs_2021-03-03_15-09-21/DIA%2020200601%20-%2024%20GVPs.skyd
10 Mar 2021 14:15:27,710 INFO : Updating dataFileUrl...
10 Mar 2021 14:15:27,710 INFO : from: file:///data/apache-tomcat/temp/Pipeline_temp/UC%20Davis%20Parker%20Lab%20-%20Targeted%20GVP_e7ee682b-6418-1039-9674-3013bb9b91fd/_temp__2021-03-10_13-54-45/export/xar/experiments_and_runs.xar.exploded/Run102981/DIA%2020200601%20-%2024%20GVPs_2021-03-03_15-09-21.sky.zip
10 Mar 2021 14:15:27,710 INFO : to: file:///data/labkey/files/Panorama%20Public/2021/UC%20Davis%20Parker%20Lab%20-%20Targeted%20GVP/@files/DIA%2020200601%20-%2024%20GVPs_2021-03-03_15-09-21.sky.zip
10 Mar 2021 14:15:27,717 INFO : Creating a reviewer account.
10 Mar 2021 14:15:28,652 INFO : Created reviewer with email: User panorama+reviewer12@proteinms.net
10 Mar 2021 14:15:28,668 INFO : Hiding the Data Pipeline tab.
10 Mar 2021 14:15:28,826 INFO : Emailing submitter.
10 Mar 2021 14:15:29,683 INFO : Successfully completed task 'org.labkey.panoramapublic.pipeline.CopyExperimentFinalTask'