04 Mar 2021 09:30:47,767 INFO : Copying experiment "Regulation of electrogenic Na+/HCO3- cotransporter 1 (NBCe1) in mouse cortical astrocytes and its dependence on m-TOR mediated phosphorylation of Ser245." from folder /BayBioMS/Giannaki_NBCe1_pospho_proteomics to /Panorama Public/2021/BayBioMS - Giannaki_NBCe1_pospho_proteomics
04 Mar 2021 09:30:47,768 INFO : =======================================
04 Mar 2021 09:33:52,596 INFO : Starting to run task 'org.labkey.panoramapublic.pipeline.ExperimentExportTask' at location 'webserver-high-priority'
04 Mar 2021 09:33:52,596 INFO :
04 Mar 2021 09:33:52,596 INFO : Exporting experiment.
04 Mar 2021 09:40:02,254 INFO :
04 Mar 2021 09:40:02,254 INFO : Experiment export completed successfully.
04 Mar 2021 09:40:02,254 INFO : Successfully completed task 'org.labkey.panoramapublic.pipeline.ExperimentExportTask'
04 Mar 2021 09:40:51,163 INFO : Starting to run task 'org.labkey.panoramapublic.pipeline.ExperimentImportTask' at location 'webserver-high-priority'
04 Mar 2021 09:40:51,164 INFO :
04 Mar 2021 09:40:51,164 INFO : Importing experiment.
04 Mar 2021 09:40:51,169 INFO : Loading folder properties (folder type, settings and active modules)
04 Mar 2021 09:40:51,274 INFO : Done importing folder properties (folder type, settings and active modules)
04 Mar 2021 09:40:51,279 INFO : Loading etl definitions
04 Mar 2021 09:40:51,282 INFO : Loading wikis
04 Mar 2021 09:40:51,320 INFO : 0 wikis imported
04 Mar 2021 09:40:51,320 INFO : Done importing wikis
04 Mar 2021 09:40:51,320 INFO : Starting to copy files
04 Mar 2021 09:42:59,353 INFO : 47 files copied, now copying BBM_321_P171_01_FRH_009.raw
04 Mar 2021 09:44:56,664 INFO : Copied 59 files
04 Mar 2021 09:44:56,664 INFO : Ensuring exp.data rows exist for imported files
04 Mar 2021 09:44:58,157 INFO : Loading xar
04 Mar 2021 09:45:02,728 DEBUG: Finished loading Protocol with LSID 'urn:lsid:uw.edu:Protocol.Folder-8304:TargetedMS.ImportSkyZip'
04 Mar 2021 09:45:02,738 DEBUG: Finished loading Protocol with LSID 'urn:lsid:uw.edu:Protocol.Folder-8304:TargetedMS.ImportSkyZip.Core'
04 Mar 2021 09:45:02,745 DEBUG: Finished loading Protocol with LSID 'urn:lsid:uw.edu:Protocol.Folder-8304:TargetedMS.ImportSkyZip.Output'
04 Mar 2021 09:45:02,745 DEBUG: Protocol import complete
04 Mar 2021 09:45:02,771 DEBUG: Finished loading Experiment with LSID 'urn:lsid:uw.edu:Experiment.Folder-8304:Regulation+of+electrogenic+Na%2B%2FHCO3-+cotransporter+1+%28NBCe1%29+in+mouse+cortical+astrocytes+and+its+dependence+on+m-TOR+mediated+phosphorylation+of+Ser245.'
04 Mar 2021 09:45:02,771 DEBUG: Experiment/Run group import complete
04 Mar 2021 09:45:02,851 DEBUG: Protocol action set import complete
04 Mar 2021 09:45:02,905 DEBUG: Finished loading ProtocolApplication with LSID 'urn:lsid:uw.edu:Protocol.Folder-8304:TargetedMS.ImportSkyZip'
04 Mar 2021 09:45:02,984 DEBUG: Finished loading Data with LSID 'urn:lsid:uw.edu:skyd.Folder-8304:2d873a87-59b3-1039-9674-3013bb9b91fd'
04 Mar 2021 09:45:03,005 DEBUG: Finished loading Data with LSID 'urn:lsid:uw.edu:UploadedFile.Folder-8304:2d8739fc-59b3-1039-9674-3013bb9b91fd'
04 Mar 2021 09:45:03,005 DEBUG: Finished loading ProtocolApplication with LSID 'urn:lsid:uw.edu:Protocol.Folder-8304:TargetedMS.ImportSkyZip.Core'
04 Mar 2021 09:45:03,014 DEBUG: Finished loading ProtocolApplication with LSID 'urn:lsid:uw.edu:Protocol.Folder-8304:TargetedMS.ImportSkyZip.Output'
04 Mar 2021 09:45:03,016 DEBUG: Finished loading ExperimentRun with LSID 'urn:lsid:uw.edu:Run.Folder-8304:2d873ac5-59b3-1039-9674-3013bb9b91fd'
04 Mar 2021 09:45:03,032 DEBUG: Trying to load data file file:///data/apache-tomcat/temp/Pipeline_temp/BayBioMS%20-%20Giannaki_NBCe1_pospho_proteomics_3123a489-5f3d-1039-9674-3013bb9b91fd/_temp__2021-03-04_09-30-47/export/xar/experiments_and_runs.xar.exploded/Run102440/Giannaki_et_al_P171_01_NBCe1_phosphorylation_2021-02-25_17-22-02/Giannaki_et_al_P171_01_NBCe1_phosphorylation.skyd into the system
04 Mar 2021 09:45:03,034 DEBUG: Finished trying to load data file file:///data/apache-tomcat/temp/Pipeline_temp/BayBioMS%20-%20Giannaki_NBCe1_pospho_proteomics_3123a489-5f3d-1039-9674-3013bb9b91fd/_temp__2021-03-04_09-30-47/export/xar/experiments_and_runs.xar.exploded/Run102440/Giannaki_et_al_P171_01_NBCe1_phosphorylation_2021-02-25_17-22-02/Giannaki_et_al_P171_01_NBCe1_phosphorylation.skyd into the system
04 Mar 2021 09:45:03,034 DEBUG: Trying to load data file file:///data/apache-tomcat/temp/Pipeline_temp/BayBioMS%20-%20Giannaki_NBCe1_pospho_proteomics_3123a489-5f3d-1039-9674-3013bb9b91fd/_temp__2021-03-04_09-30-47/export/xar/experiments_and_runs.xar.exploded/Run102440/Giannaki_et_al_P171_01_NBCe1_phosphorylation_2021-02-25_17-22-02.sky.zip into the system
04 Mar 2021 09:45:03,039 INFO : Starting import from Giannaki_et_al_P171_01_NBCe1_phosphorylation_2021-02-25_17-22-02.sky.zip
04 Mar 2021 09:45:03,050 INFO : Starting to import Skyline document from Giannaki_et_al_P171_01_NBCe1_phosphorylation_2021-02-25_17-22-02.sky.zip
04 Mar 2021 09:45:03,093 INFO : Expanding P171_01_DDA.blib
04 Mar 2021 09:45:03,921 INFO : Expanding P171_01_DDA.redundant.blib
04 Mar 2021 09:45:05,692 INFO : Expanding Giannaki_et_al_P171_01_NBCe1_phosphorylation.skyd
04 Mar 2021 09:45:06,275 INFO : Expanding Giannaki_et_al_P171_01_NBCe1_phosphorylation.sky.view
04 Mar 2021 09:45:06,276 INFO : Expanding Giannaki_et_al_P171_01_NBCe1_phosphorylation.sky
04 Mar 2021 09:45:06,278 INFO : Expanding Giannaki_et_al_P171_01_NBCe1_phosphorylation.skyl
04 Mar 2021 09:45:06,284 WARN : The version of this Skyline document is 20.22. This is newer than the highest supported version 20.2
04 Mar 2021 09:45:06,311 INFO : 8% Done
04 Mar 2021 09:45:06,427 DEBUG: Starting to load chromatogram headers
04 Mar 2021 09:45:06,429 DEBUG: Done loading chromatogram headers
04 Mar 2021 09:45:06,836 INFO : Inserting sp|O88343|S4A4_MOUSE
04 Mar 2021 09:45:06,876 INFO : 14% Done
04 Mar 2021 09:45:07,016 INFO : 18% Done
04 Mar 2021 09:45:07,106 INFO : 23% Done
04 Mar 2021 09:45:07,155 INFO : 27% Done
04 Mar 2021 09:45:07,241 INFO : 31% Done
04 Mar 2021 09:45:07,289 INFO : 36% Done
04 Mar 2021 09:45:07,384 INFO : 40% Done
04 Mar 2021 09:45:07,511 INFO : 44% Done
04 Mar 2021 09:45:07,623 INFO : 49% Done
04 Mar 2021 09:45:07,717 INFO : 54% Done
04 Mar 2021 09:45:07,782 INFO : 58% Done
04 Mar 2021 09:45:07,872 INFO : 63% Done
04 Mar 2021 09:45:07,955 INFO : 68% Done
04 Mar 2021 09:45:08,049 INFO : 72% Done
04 Mar 2021 09:45:08,197 INFO : 76% Done
04 Mar 2021 09:45:08,294 INFO : 80% Done
04 Mar 2021 09:45:08,374 INFO : 85% Done
04 Mar 2021 09:45:08,455 INFO : 89% Done
04 Mar 2021 09:45:08,531 INFO : 94% Done
04 Mar 2021 09:45:08,624 INFO : 98% Done
04 Mar 2021 09:45:08,700 DEBUG: Total peptides inserted: 20
04 Mar 2021 09:45:08,702 INFO : Done parsing Skyline document.
04 Mar 2021 09:45:09,039 INFO : Creating and populating temp tables for Proportion values
04 Mar 2021 09:45:09,076 INFO : Setting PrecursorModifiedAreaProportion values on precursorchrominfo
04 Mar 2021 09:45:09,239 INFO : Setting ModifiedAreaProportion values on generalmoleculechrominfo
04 Mar 2021 09:45:09,350 INFO : Cleaning up temp tables
04 Mar 2021 09:45:09,715 INFO : Completed import of Skyline document from Giannaki_et_al_P171_01_NBCe1_phosphorylation_2021-02-25_17-22-02.sky.zip
04 Mar 2021 09:45:09,722 INFO : 100% Done
04 Mar 2021 09:45:09,731 DEBUG: Finished trying to load data file file:///data/apache-tomcat/temp/Pipeline_temp/BayBioMS%20-%20Giannaki_NBCe1_pospho_proteomics_3123a489-5f3d-1039-9674-3013bb9b91fd/_temp__2021-03-04_09-30-47/export/xar/experiments_and_runs.xar.exploded/Run102440/Giannaki_et_al_P171_01_NBCe1_phosphorylation_2021-02-25_17-22-02.sky.zip into the system
04 Mar 2021 09:45:09,748 INFO : Done importing xar
04 Mar 2021 09:45:09,754 INFO : Loading pages and webpart properties
04 Mar 2021 09:45:10,019 INFO : Done importing pages and webpart properties
04 Mar 2021 09:45:10,020 INFO :
04 Mar 2021 09:45:10,020 INFO : Experiment import completed successfully.
04 Mar 2021 09:45:10,020 INFO : Successfully completed task 'org.labkey.panoramapublic.pipeline.ExperimentImportTask'
04 Mar 2021 09:49:03,821 INFO : Starting to run task 'org.labkey.panoramapublic.pipeline.CopyExperimentFinalTask' at location 'webserver-high-priority'
04 Mar 2021 09:49:03,821 INFO :
04 Mar 2021 09:49:03,822 INFO : Finishing up experiment copy.
04 Mar 2021 09:49:03,824 INFO : Creating a new TargetedMS experiment entry in panoramapublic.ExperimentAnnotations.
04 Mar 2021 09:49:03,828 INFO : Assigning a ProteomeXchange ID.
04 Mar 2021 09:49:04,075 INFO : Updating access URL to point to the new copy of the data.
04 Mar 2021 09:49:04,107 INFO : Setting the 'copied' timestamp and journalExperimentId on the JournalExperiment table.
04 Mar 2021 09:49:04,138 INFO : Removing copy permissions given to journal.
04 Mar 2021 09:49:04,178 INFO : Adding read permissions to all users that are folder admins in the source container.
04 Mar 2021 09:49:04,203 INFO : Setting the TargetedMS folder type to 'Experimental Data'
04 Mar 2021 09:49:04,211 INFO : Updating the 'Raw Data' tab configuration
04 Mar 2021 09:49:04,219 INFO : Updating dataFileUrls for run Giannaki_et_al_P171_01_NBCe1_phosphorylation_2021-02-25_17-22-02.sky.zip; targetedms run ID 105319
04 Mar 2021 09:49:04,220 INFO : Updating dataFileUrl...
04 Mar 2021 09:49:04,220 INFO : from: file:///data/apache-tomcat/temp/Pipeline_temp/BayBioMS%20-%20Giannaki_NBCe1_pospho_proteomics_3123a489-5f3d-1039-9674-3013bb9b91fd/_temp__2021-03-04_09-30-47/export/xar/experiments_and_runs.xar.exploded/Run102440/Giannaki_et_al_P171_01_NBCe1_phosphorylation_2021-02-25_17-22-02/Giannaki_et_al_P171_01_NBCe1_phosphorylation.skyd
04 Mar 2021 09:49:04,221 INFO : to: file:///data/labkey/files/Panorama%20Public/2021/BayBioMS%20-%20Giannaki_NBCe1_pospho_proteomics/@files/Giannaki_et_al_P171_01_NBCe1_phosphorylation_2021-02-25_17-22-02/Giannaki_et_al_P171_01_NBCe1_phosphorylation.skyd
04 Mar 2021 09:49:04,227 INFO : Updating dataFileUrl...
04 Mar 2021 09:49:04,227 INFO : from: file:///data/apache-tomcat/temp/Pipeline_temp/BayBioMS%20-%20Giannaki_NBCe1_pospho_proteomics_3123a489-5f3d-1039-9674-3013bb9b91fd/_temp__2021-03-04_09-30-47/export/xar/experiments_and_runs.xar.exploded/Run102440/Giannaki_et_al_P171_01_NBCe1_phosphorylation_2021-02-25_17-22-02.sky.zip
04 Mar 2021 09:49:04,227 INFO : to: file:///data/labkey/files/Panorama%20Public/2021/BayBioMS%20-%20Giannaki_NBCe1_pospho_proteomics/@files/Giannaki_et_al_P171_01_NBCe1_phosphorylation_2021-02-25_17-22-02.sky.zip
04 Mar 2021 09:49:04,234 INFO : Making folder public.
04 Mar 2021 09:49:04,255 INFO : Hiding the Data Pipeline tab.
04 Mar 2021 09:49:04,674 INFO : Emailing submitter.
04 Mar 2021 09:49:05,362 INFO : Successfully completed task 'org.labkey.panoramapublic.pipeline.CopyExperimentFinalTask'