10 Feb 2021 08:44:09,949 INFO : Copying experiment "Endogenous THBS1 is C-mannosylated by human induced pluripotent stem cells." from folder /U of Heidelberg - Mass Spec Core/Cirksena et. al. Implications of ADAMTS16 C-Mannosylation on Optic Fissure Fusion to /Panorama Public/2021/U of Heidelberg Mass Spec Core - Cirksena et. al. Implications of ADAMTS16 C-Mannosylation on Optic Fissure Fusion
10 Feb 2021 08:44:09,949 INFO : =======================================
10 Feb 2021 08:44:10,167 INFO : Starting to run task 'org.labkey.panoramapublic.pipeline.ExperimentExportTask' at location 'webserver-high-priority'
10 Feb 2021 08:44:10,167 INFO : 
10 Feb 2021 08:44:10,167 INFO : Exporting experiment.
10 Feb 2021 08:44:11,424 INFO : 
10 Feb 2021 08:44:11,424 INFO : Experiment export completed successfully.
10 Feb 2021 08:44:11,424 INFO : Successfully completed task 'org.labkey.panoramapublic.pipeline.ExperimentExportTask'
10 Feb 2021 08:44:11,835 INFO : Starting to run task 'org.labkey.panoramapublic.pipeline.ExperimentImportTask' at location 'webserver-high-priority'
10 Feb 2021 08:44:11,835 INFO : 
10 Feb 2021 08:44:11,836 INFO : Importing experiment.
10 Feb 2021 08:44:11,845 INFO : Loading folder properties (folder type, settings and active modules)
10 Feb 2021 08:44:12,345 INFO : Done importing folder properties (folder type, settings and active modules)
10 Feb 2021 08:44:12,351 INFO : Loading grid views
10 Feb 2021 08:44:12,476 INFO : 1 custom view imported
10 Feb 2021 08:44:12,476 INFO : Done importing grid views
10 Feb 2021 08:44:12,481 INFO : Loading etl definitions
10 Feb 2021 08:44:12,486 INFO : Loading wikis
10 Feb 2021 08:44:12,670 INFO : 1 wiki imported
10 Feb 2021 08:44:12,670 INFO : Done importing wikis
10 Feb 2021 08:44:12,670 INFO : Starting to copy files
10 Feb 2021 08:44:12,799 INFO : Copied 11 files
10 Feb 2021 08:44:12,799 INFO : Ensuring exp.data rows exist for imported files
10 Feb 2021 08:44:13,202 INFO : Loading xar
10 Feb 2021 08:44:13,394 DEBUG: Finished loading Protocol with LSID 'urn:lsid:uw.edu:Protocol.Folder-8207:TargetedMS.ImportSkyZip'
10 Feb 2021 08:44:13,402 DEBUG: Finished loading Protocol with LSID 'urn:lsid:uw.edu:Protocol.Folder-8207:TargetedMS.ImportSkyZip.Core'
10 Feb 2021 08:44:13,410 DEBUG: Finished loading Protocol with LSID 'urn:lsid:uw.edu:Protocol.Folder-8207:TargetedMS.ImportSkyZip.Output'
10 Feb 2021 08:44:13,410 DEBUG: Protocol import complete
10 Feb 2021 08:44:13,433 DEBUG: Finished loading Experiment with LSID 'urn:lsid:uw.edu:Experiment.Folder-8207:Endogenous+THBS1+is+C-mannosylated+by+human+induced+pluripotent+stem+cells.'
10 Feb 2021 08:44:13,433 DEBUG: Experiment/Run group import complete
10 Feb 2021 08:44:13,477 DEBUG: Protocol action set import complete
10 Feb 2021 08:44:13,512 DEBUG: Finished loading ProtocolApplication with LSID 'urn:lsid:uw.edu:Protocol.Folder-8207:TargetedMS.ImportSkyZip'
10 Feb 2021 08:44:13,584 DEBUG: Finished loading Data with LSID 'urn:lsid:uw.edu:skyd.Folder-8207:601117de-4d2d-1039-9674-3013bb9b91fd'
10 Feb 2021 08:44:13,598 DEBUG: Finished loading Data with LSID 'urn:lsid:uw.edu:UploadedFile.Folder-8207:601117c4-4d2d-1039-9674-3013bb9b91fd'
10 Feb 2021 08:44:13,598 DEBUG: Finished loading ProtocolApplication with LSID 'urn:lsid:uw.edu:Protocol.Folder-8207:TargetedMS.ImportSkyZip.Core'
10 Feb 2021 08:44:13,606 DEBUG: Finished loading ProtocolApplication with LSID 'urn:lsid:uw.edu:Protocol.Folder-8207:TargetedMS.ImportSkyZip.Output'
10 Feb 2021 08:44:13,607 DEBUG: Finished loading ExperimentRun with LSID 'urn:lsid:uw.edu:Run.Folder-8207:60111866-4d2d-1039-9674-3013bb9b91fd'
10 Feb 2021 08:44:13,609 DEBUG: Trying to load data file file:///data/apache-tomcat/temp/Pipeline_temp/U%20of%20Heidelberg%20Mass%20Spec%20Core%20-%20Cirksena%20et.%20al.%20Implications%20of%20ADAMTS16%20C-Mannosylation%20on%20Optic%20Fissure%20Fusion_a0a3be1a-4dec-1039-9674-3013bb9b91fd/_temp__2021-02-10_08-44-09/export/xar/experiments_and_runs.xar.exploded/Run101177/21.02.09_Final_for_FB_Figures_20.1_Panorama_2021-02-09_18-56-22/21.02.09_Final_for_FB_Figures_20.1_Panorama.skyd into the system
10 Feb 2021 08:44:13,610 DEBUG: Finished trying to load data file file:///data/apache-tomcat/temp/Pipeline_temp/U%20of%20Heidelberg%20Mass%20Spec%20Core%20-%20Cirksena%20et.%20al.%20Implications%20of%20ADAMTS16%20C-Mannosylation%20on%20Optic%20Fissure%20Fusion_a0a3be1a-4dec-1039-9674-3013bb9b91fd/_temp__2021-02-10_08-44-09/export/xar/experiments_and_runs.xar.exploded/Run101177/21.02.09_Final_for_FB_Figures_20.1_Panorama_2021-02-09_18-56-22/21.02.09_Final_for_FB_Figures_20.1_Panorama.skyd into the system
10 Feb 2021 08:44:13,610 DEBUG: Trying to load data file file:///data/apache-tomcat/temp/Pipeline_temp/U%20of%20Heidelberg%20Mass%20Spec%20Core%20-%20Cirksena%20et.%20al.%20Implications%20of%20ADAMTS16%20C-Mannosylation%20on%20Optic%20Fissure%20Fusion_a0a3be1a-4dec-1039-9674-3013bb9b91fd/_temp__2021-02-10_08-44-09/export/xar/experiments_and_runs.xar.exploded/Run101177/21.02.09_Final_for_FB_Figures_20.1_Panorama_2021-02-09_18-56-22.sky.zip into the system
10 Feb 2021 08:44:13,612 INFO : Starting import from 21.02.09_Final_for_FB_Figures_20.1_Panorama_2021-02-09_18-56-22.sky.zip
10 Feb 2021 08:44:13,616 INFO : Starting to import Skyline document from 21.02.09_Final_for_FB_Figures_20.1_Panorama_2021-02-09_18-56-22.sky.zip
10 Feb 2021 08:44:13,616 INFO : Expanding 19.12.20_CE_RS.optdb
10 Feb 2021 08:44:13,618 INFO : Expanding 21.02.09_Final_for_FB_Figures_20.1_Panorama.skyd
10 Feb 2021 08:44:13,622 INFO : Expanding 21.02.09_Final_for_FB_Figures_20.1_Panorama.sky.view
10 Feb 2021 08:44:13,623 INFO : Expanding 21.02.09_Final_for_FB_Figures_20.1_Panorama.sky
10 Feb 2021 08:44:13,624 INFO : Expanding 21.02.09_Final_for_FB_Figures_20.1_Panorama.skyl
10 Feb 2021 08:44:13,651 INFO : 3% Done
10 Feb 2021 08:44:13,656 DEBUG: Starting to load chromatogram headers
10 Feb 2021 08:44:13,656 DEBUG: Done loading chromatogram headers
10 Feb 2021 08:44:13,698 INFO : Inserting THBS1_Vector_4983
10 Feb 2021 08:44:13,756 INFO : 11% Done
10 Feb 2021 08:44:13,834 INFO : 17% Done
10 Feb 2021 08:44:13,896 DEBUG: Total peptides inserted: 2
10 Feb 2021 08:44:13,921 INFO : Inserting TSR_2
10 Feb 2021 08:44:13,957 INFO : 25% Done
10 Feb 2021 08:44:14,010 INFO : 29% Done
10 Feb 2021 08:44:14,055 INFO : 35% Done
10 Feb 2021 08:44:14,089 INFO : 44% Done
10 Feb 2021 08:44:14,168 INFO : 50% Done
10 Feb 2021 08:44:14,215 INFO : 59% Done
10 Feb 2021 08:44:14,294 INFO : 67% Done
10 Feb 2021 08:44:14,350 DEBUG: Total peptides inserted: 7
10 Feb 2021 08:44:14,369 INFO : Inserting TSR_3
10 Feb 2021 08:44:14,375 INFO : 72% Done
10 Feb 2021 08:44:14,425 INFO : 77% Done
10 Feb 2021 08:44:14,461 INFO : 79% Done
10 Feb 2021 08:44:14,479 INFO : 85% Done
10 Feb 2021 08:44:14,535 INFO : 88% Done
10 Feb 2021 08:44:14,556 INFO : 94% Done
10 Feb 2021 08:44:14,590 INFO : 98% Done
10 Feb 2021 08:44:14,620 DEBUG: Total peptides inserted: 7
10 Feb 2021 08:44:14,622 INFO : Done parsing Skyline document.
10 Feb 2021 08:44:16,053 INFO : Creating and populating temp tables for Proportion values
10 Feb 2021 08:44:16,138 INFO : Setting PrecursorModifiedAreaProportion values on precursorchrominfo
10 Feb 2021 08:44:16,142 INFO : Setting ModifiedAreaProportion values on generalmoleculechrominfo
10 Feb 2021 08:44:16,145 INFO : Cleaning up temp tables
10 Feb 2021 08:44:16,160 INFO : Completed import of Skyline document from 21.02.09_Final_for_FB_Figures_20.1_Panorama_2021-02-09_18-56-22.sky.zip
10 Feb 2021 08:44:16,177 INFO : 100% Done
10 Feb 2021 08:44:16,183 DEBUG: Finished trying to load data file file:///data/apache-tomcat/temp/Pipeline_temp/U%20of%20Heidelberg%20Mass%20Spec%20Core%20-%20Cirksena%20et.%20al.%20Implications%20of%20ADAMTS16%20C-Mannosylation%20on%20Optic%20Fissure%20Fusion_a0a3be1a-4dec-1039-9674-3013bb9b91fd/_temp__2021-02-10_08-44-09/export/xar/experiments_and_runs.xar.exploded/Run101177/21.02.09_Final_for_FB_Figures_20.1_Panorama_2021-02-09_18-56-22.sky.zip into the system
10 Feb 2021 08:44:16,206 INFO : Done importing xar
10 Feb 2021 08:44:16,209 INFO : Loading pages and webpart properties
10 Feb 2021 08:44:16,402 INFO : Done importing pages and webpart properties
10 Feb 2021 08:44:16,403 INFO : 
10 Feb 2021 08:44:16,403 INFO : Experiment import completed successfully.
10 Feb 2021 08:44:16,403 INFO : Successfully completed task 'org.labkey.panoramapublic.pipeline.ExperimentImportTask'
10 Feb 2021 08:44:16,520 INFO : Starting to run task 'org.labkey.panoramapublic.pipeline.CopyExperimentFinalTask' at location 'webserver-high-priority'
10 Feb 2021 08:44:16,520 INFO : 
10 Feb 2021 08:44:16,520 INFO : Finishing up experiment copy.
10 Feb 2021 08:44:16,523 INFO : Creating a new TargetedMS experiment entry in panoramapublic.ExperimentAnnotations.
10 Feb 2021 08:44:16,528 INFO : Assigning a ProteomeXchange ID.
10 Feb 2021 08:44:16,874 INFO : Updating access URL to point to the new copy of the data.
10 Feb 2021 08:44:16,948 INFO : Setting the 'copied' timestamp and journalExperimentId on the JournalExperiment table.
10 Feb 2021 08:44:16,961 INFO : Removing copy permissions given to journal.
10 Feb 2021 08:44:17,076 INFO : Adding read permissions to all users that are folder admins in the source container.
10 Feb 2021 08:44:17,095 INFO : Setting the TargetedMS folder type to 'Experimental Data'
10 Feb 2021 08:44:17,111 INFO : Updating the 'Raw Data' tab configuration
10 Feb 2021 08:44:17,116 INFO : Updating dataFileUrls for run 21.02.09_Final_for_FB_Figures_20.1_Panorama_2021-02-09_18-56-22.sky.zip; targetedms run ID 103590
10 Feb 2021 08:44:17,116 INFO : Updating dataFileUrl...
10 Feb 2021 08:44:17,116 INFO : from: file:///data/apache-tomcat/temp/Pipeline_temp/U%20of%20Heidelberg%20Mass%20Spec%20Core%20-%20Cirksena%20et.%20al.%20Implications%20of%20ADAMTS16%20C-Mannosylation%20on%20Optic%20Fissure%20Fusion_a0a3be1a-4dec-1039-9674-3013bb9b91fd/_temp__2021-02-10_08-44-09/export/xar/experiments_and_runs.xar.exploded/Run101177/21.02.09_Final_for_FB_Figures_20.1_Panorama_2021-02-09_18-56-22.sky.zip
10 Feb 2021 08:44:17,117 INFO : to: file:///data/labkey/files/Panorama%20Public/2021/U%20of%20Heidelberg%20Mass%20Spec%20Core%20-%20Cirksena%20et.%20al.%20Implications%20of%20ADAMTS16%20C-Mannosylation%20on%20Optic%20Fissure%20Fusion/@files/21.02.09_Final_for_FB_Figures_20.1_Panorama_2021-02-09_18-56-22.sky.zip
10 Feb 2021 08:44:17,122 INFO : Updating dataFileUrl...
10 Feb 2021 08:44:17,122 INFO : from: file:///data/apache-tomcat/temp/Pipeline_temp/U%20of%20Heidelberg%20Mass%20Spec%20Core%20-%20Cirksena%20et.%20al.%20Implications%20of%20ADAMTS16%20C-Mannosylation%20on%20Optic%20Fissure%20Fusion_a0a3be1a-4dec-1039-9674-3013bb9b91fd/_temp__2021-02-10_08-44-09/export/xar/experiments_and_runs.xar.exploded/Run101177/21.02.09_Final_for_FB_Figures_20.1_Panorama_2021-02-09_18-56-22/21.02.09_Final_for_FB_Figures_20.1_Panorama.skyd
10 Feb 2021 08:44:17,122 INFO : to: file:///data/labkey/files/Panorama%20Public/2021/U%20of%20Heidelberg%20Mass%20Spec%20Core%20-%20Cirksena%20et.%20al.%20Implications%20of%20ADAMTS16%20C-Mannosylation%20on%20Optic%20Fissure%20Fusion/@files/21.02.09_Final_for_FB_Figures_20.1_Panorama_2021-02-09_18-56-22/21.02.09_Final_for_FB_Figures_20.1_Panorama.skyd
10 Feb 2021 08:44:17,144 INFO : Creating a reviewer account.
10 Feb 2021 08:44:18,458 INFO : Created reviewer with email: User panorama+sakson@proteinms.net
10 Feb 2021 08:44:18,479 INFO : Hiding the Data Pipeline tab.
10 Feb 2021 08:44:18,957 INFO : Emailing submitter.
10 Feb 2021 08:44:19,248 INFO : Successfully completed task 'org.labkey.panoramapublic.pipeline.CopyExperimentFinalTask'