02 Feb 2023 21:50:20,410 INFO : Copying experiment "MED6-189: An effective Antimalarial Kalihinol Analog Targets Plasmodium falciparum Apicoplast and Membrane Biogenesis" from folder /UC Riverside - Metabolomics Core/Le Roch Lab_MED6-189 to /Panorama Public/2023/UC Riverside Metabolomics Core - Le Roch Lab_MED6-189

02 Feb 2023 21:50:20,410 INFO : =======================================

02 Feb 2023 21:50:20,437 DEBUG: Resetting Job ID: 239ec6ab-85b4-103b-b327-fea6ddf5f3bc

02 Feb 2023 21:50:20,464 INFO : Starting to run task 'org.labkey.panoramapublic.pipeline.ExperimentExportTask' at location 'webserver-high-priority'

02 Feb 2023 21:50:20,465 INFO : 

02 Feb 2023 21:50:20,465 INFO : Exporting experiment.

02 Feb 2023 21:50:43,698 INFO : Exporting files metadata.

02 Feb 2023 21:50:43,698 DEBUG: [/UC Riverside - Metabolomics Core/Le Roch Lab_MED6-189]  Writing files metadata to /data/apache-tomcat/instance/panoramaweb/temp/Pipeline_temp/UC Riverside Metabolomics Core - Le Roch Lab_MED6-189_239ec698-85b4-103b-b327-fea6ddf5f3bc/_temp__2023-02-02_21-50-19/export

02 Feb 2023 21:50:43,876 INFO : 

02 Feb 2023 21:50:43,876 INFO : Experiment export completed successfully.

02 Feb 2023 21:50:43,876 INFO : Successfully completed task 'org.labkey.panoramapublic.pipeline.ExperimentExportTask'

02 Feb 2023 21:50:43,898 INFO : Starting to run task 'org.labkey.panoramapublic.pipeline.ExperimentImportTask' at location 'webserver-high-priority'

02 Feb 2023 21:50:43,898 INFO : 

02 Feb 2023 21:50:43,898 INFO : Importing experiment.

02 Feb 2023 21:50:43,900 DEBUG: [/Panorama Public/2023/UC Riverside Metabolomics Core - Le Roch Lab_MED6-189] Importing folder properties from: /data/apache-tomcat/instance/panoramaweb/temp/Pipeline_temp/UC Riverside Metabolomics Core - Le Roch Lab_MED6-189_239ec698-85b4-103b-b327-fea6ddf5f3bc/_temp__2023-02-02_21-50-19/export

02 Feb 2023 21:50:43,901 INFO : Loading folder properties (folder type, settings and active modules)

02 Feb 2023 21:50:43,901 DEBUG: [/Panorama Public/2023/UC Riverside Metabolomics Core - Le Roch Lab_MED6-189] Folder type: Targeted MS

02 Feb 2023 21:50:43,901 DEBUG: [/Panorama Public/2023/UC Riverside Metabolomics Core - Le Roch Lab_MED6-189] Active modules: Internal, API, Pipeline, Wiki, MS2, TargetedMS, Core, Issues, Experiment, Assay, FileContent, PanoramaPublic, Search, Announcements, Query

02 Feb 2023 21:50:43,959 INFO : Done importing folder properties (folder type, settings and active modules)

02 Feb 2023 21:50:43,960 INFO : Loading container specific module properties

02 Feb 2023 21:50:43,968 INFO : Done importing container specific module properties

02 Feb 2023 21:50:43,970 INFO : Loading etl definitions

02 Feb 2023 21:50:43,971 INFO : Loading wikis

02 Feb 2023 21:50:43,973 INFO : 0 wikis imported

02 Feb 2023 21:50:43,973 INFO : Done importing wikis

02 Feb 2023 21:50:43,973 INFO : Starting to copy files

02 Feb 2023 21:51:00,873 INFO : Copied 300 files

02 Feb 2023 21:51:00,873 INFO : Ensuring exp.data rows exist for imported files

02 Feb 2023 21:51:01,933 INFO : Starting Sample Type and Data Class import

02 Feb 2023 21:51:01,933 INFO : No types XAR file to process.

02 Feb 2023 21:51:01,933 INFO : Finished importing Sample Types and Data Classes

02 Feb 2023 21:51:01,935 INFO : Loading xar

02 Feb 2023 21:51:02,040 DEBUG: Finished loading Protocol with LSID 'urn:lsid:uw.edu:Protocol.Folder-11074:TargetedMS.ImportSkyZip'

02 Feb 2023 21:51:02,043 DEBUG: Finished loading Protocol with LSID 'urn:lsid:uw.edu:Protocol.Folder-11074:TargetedMS.ImportSkyZip.Core'

02 Feb 2023 21:51:02,045 DEBUG: Finished loading Protocol with LSID 'urn:lsid:uw.edu:Protocol.Folder-11074:TargetedMS.ImportSkyZip.Output'

02 Feb 2023 21:51:02,045 DEBUG: Protocol import complete

02 Feb 2023 21:51:02,047 DEBUG: Finished loading Experiment with LSID 'urn:lsid:uw.edu:Experiment.Folder-11074:MED6-189%3A+An+effective+Antimalarial+Kalihinol+Analog+Targets+Plasmodium+falciparum+Apicoplast+and+Membrane+Biogenesis'

02 Feb 2023 21:51:02,047 DEBUG: Experiment/Run group import complete

02 Feb 2023 21:51:02,055 DEBUG: Protocol action set import complete

02 Feb 2023 21:51:02,075 DEBUG: Finished loading ProtocolApplication with LSID 'urn:lsid:uw.edu:Protocol.Folder-11074:TargetedMS.ImportSkyZip'

02 Feb 2023 21:51:02,085 DEBUG: Finished loading Data with LSID 'urn:lsid:uw.edu:skyd.Folder-11074:70916e64-84b7-103b-b327-fea6ddf5f3bc'

02 Feb 2023 21:51:02,089 DEBUG: Finished loading Data with LSID 'urn:lsid:uw.edu:UploadedFile.Folder-11074:70916e53-84b7-103b-b327-fea6ddf5f3bc'

02 Feb 2023 21:51:02,089 DEBUG: Finished loading ProtocolApplication with LSID 'urn:lsid:uw.edu:Protocol.Folder-11074:TargetedMS.ImportSkyZip.Core'

02 Feb 2023 21:51:02,092 DEBUG: Finished loading ProtocolApplication with LSID 'urn:lsid:uw.edu:Protocol.Folder-11074:TargetedMS.ImportSkyZip.Output'

02 Feb 2023 21:51:02,093 DEBUG: Finished loading ExperimentRun with LSID 'urn:lsid:uw.edu:Run.Folder-11074:70916ed6-84b7-103b-b327-fea6ddf5f3bc'

02 Feb 2023 21:51:02,099 DEBUG: Finished loading ProtocolApplication with LSID 'urn:lsid:uw.edu:Protocol.Folder-11074:TargetedMS.ImportSkyZip'

02 Feb 2023 21:51:02,104 DEBUG: Finished loading Data with LSID 'urn:lsid:uw.edu:skyd.Folder-11074:9c4515e9-84b8-103b-b327-fea6ddf5f3bc'

02 Feb 2023 21:51:02,108 DEBUG: Finished loading Data with LSID 'urn:lsid:uw.edu:UploadedFile.Folder-11074:9c4515d8-84b8-103b-b327-fea6ddf5f3bc'

02 Feb 2023 21:51:02,108 DEBUG: Finished loading ProtocolApplication with LSID 'urn:lsid:uw.edu:Protocol.Folder-11074:TargetedMS.ImportSkyZip.Core'

02 Feb 2023 21:51:02,110 DEBUG: Finished loading ProtocolApplication with LSID 'urn:lsid:uw.edu:Protocol.Folder-11074:TargetedMS.ImportSkyZip.Output'

02 Feb 2023 21:51:02,111 DEBUG: Finished loading ExperimentRun with LSID 'urn:lsid:uw.edu:Run.Folder-11074:9c45162b-84b8-103b-b327-fea6ddf5f3bc'

02 Feb 2023 21:51:02,117 DEBUG: Finished loading ProtocolApplication with LSID 'urn:lsid:uw.edu:Protocol.Folder-11074:TargetedMS.ImportSkyZip'

02 Feb 2023 21:51:02,121 DEBUG: Finished loading Data with LSID 'urn:lsid:uw.edu:skyd.Folder-11074:9c451a22-84b8-103b-b327-fea6ddf5f3bc'

02 Feb 2023 21:51:02,124 DEBUG: Finished loading Data with LSID 'urn:lsid:uw.edu:UploadedFile.Folder-11074:9c451a11-84b8-103b-b327-fea6ddf5f3bc'

02 Feb 2023 21:51:02,124 DEBUG: Finished loading ProtocolApplication with LSID 'urn:lsid:uw.edu:Protocol.Folder-11074:TargetedMS.ImportSkyZip.Core'

02 Feb 2023 21:51:02,126 DEBUG: Finished loading ProtocolApplication with LSID 'urn:lsid:uw.edu:Protocol.Folder-11074:TargetedMS.ImportSkyZip.Output'

02 Feb 2023 21:51:02,127 DEBUG: Finished loading ExperimentRun with LSID 'urn:lsid:uw.edu:Run.Folder-11074:9c451a87-84b8-103b-b327-fea6ddf5f3bc'

02 Feb 2023 21:51:02,133 DEBUG: Finished loading ProtocolApplication with LSID 'urn:lsid:uw.edu:Protocol.Folder-11074:TargetedMS.ImportSkyZip'

02 Feb 2023 21:51:02,137 DEBUG: Finished loading Data with LSID 'urn:lsid:uw.edu:skyd.Folder-11074:9c451d1d-84b8-103b-b327-fea6ddf5f3bc'

02 Feb 2023 21:51:02,141 DEBUG: Finished loading Data with LSID 'urn:lsid:uw.edu:UploadedFile.Folder-11074:9c451d0c-84b8-103b-b327-fea6ddf5f3bc'

02 Feb 2023 21:51:02,141 DEBUG: Finished loading ProtocolApplication with LSID 'urn:lsid:uw.edu:Protocol.Folder-11074:TargetedMS.ImportSkyZip.Core'

02 Feb 2023 21:51:02,143 DEBUG: Finished loading ProtocolApplication with LSID 'urn:lsid:uw.edu:Protocol.Folder-11074:TargetedMS.ImportSkyZip.Output'

02 Feb 2023 21:51:02,143 DEBUG: Finished loading ExperimentRun with LSID 'urn:lsid:uw.edu:Run.Folder-11074:9c451d40-84b8-103b-b327-fea6ddf5f3bc'

02 Feb 2023 21:51:02,145 DEBUG: Trying to load data file file:///data/apache-tomcat/instance/panoramaweb/temp/Pipeline_temp/UC%20Riverside%20Metabolomics%20Core%20-%20Le%20Roch%20Lab_MED6-189_239ec698-85b4-103b-b327-fea6ddf5f3bc/_temp__2023-02-02_21-50-19/export/xar/experiments_and_runs.xar.exploded/Run150063/20200817%20Malaria%20Polar%20Pos%20no%20edits_2023-02-01_15-46-08/20200817%20Malaria%20Polar%20Pos%20no%20edits.skyd into the system

02 Feb 2023 21:51:02,145 DEBUG: Finished trying to load data file file:///data/apache-tomcat/instance/panoramaweb/temp/Pipeline_temp/UC%20Riverside%20Metabolomics%20Core%20-%20Le%20Roch%20Lab_MED6-189_239ec698-85b4-103b-b327-fea6ddf5f3bc/_temp__2023-02-02_21-50-19/export/xar/experiments_and_runs.xar.exploded/Run150063/20200817%20Malaria%20Polar%20Pos%20no%20edits_2023-02-01_15-46-08/20200817%20Malaria%20Polar%20Pos%20no%20edits.skyd into the system

02 Feb 2023 21:51:02,145 DEBUG: Trying to load data file file:///data/apache-tomcat/instance/panoramaweb/temp/Pipeline_temp/UC%20Riverside%20Metabolomics%20Core%20-%20Le%20Roch%20Lab_MED6-189_239ec698-85b4-103b-b327-fea6ddf5f3bc/_temp__2023-02-02_21-50-19/export/xar/experiments_and_runs.xar.exploded/Run150063/20200817%20Malaria%20Polar%20Pos%20no%20edits_2023-02-01_15-46-08.sky.zip into the system

02 Feb 2023 21:51:02,146 INFO : Starting import from 20200817 Malaria Polar Pos no edits_2023-02-01_15-46-08.sky.zip

02 Feb 2023 21:51:02,150 INFO : Starting to import Skyline document from 20200817 Malaria Polar Pos no edits_2023-02-01_15-46-08.sky.zip

02 Feb 2023 21:51:02,150 INFO : Expanding 20200817 Malaria Polar Pos no edits.skyd

02 Feb 2023 21:51:02,165 INFO : Expanding 20200817 Malaria Polar Pos no edits.sky.view

02 Feb 2023 21:51:02,165 INFO : Expanding 20200817 Malaria Polar Pos no edits.sky

02 Feb 2023 21:51:02,170 INFO : Expanding 20200817 Malaria Polar Pos no edits.skyl

02 Feb 2023 21:51:02,172 WARN : The version of this Skyline document is 22.2. This is newer than the highest supported version 22.13

02 Feb 2023 21:51:02,180 INFO : 1% Done

02 Feb 2023 21:51:02,188 DEBUG: Starting to load chromatogram headers

02 Feb 2023 21:51:02,189 DEBUG: Done loading chromatogram headers

02 Feb 2023 21:51:02,338 INFO : Inserting molecules1

02 Feb 2023 21:51:02,341 INFO : 2% Done

02 Feb 2023 21:51:02,358 INFO : 3% Done

02 Feb 2023 21:51:02,366 INFO : 4% Done

02 Feb 2023 21:51:02,374 INFO : 5% Done

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02 Feb 2023 21:51:02,607 INFO : 29% Done

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02 Feb 2023 21:51:02,621 INFO : 31% Done

02 Feb 2023 21:51:02,629 INFO : 32% Done

02 Feb 2023 21:51:02,642 INFO : 33% Done

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02 Feb 2023 21:51:02,684 INFO : 38% Done

02 Feb 2023 21:51:02,691 INFO : 39% Done

02 Feb 2023 21:51:02,691 DEBUG: Inserted 50 molecules

02 Feb 2023 21:51:02,705 INFO : 40% Done

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02 Feb 2023 21:51:02,718 INFO : 42% Done

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02 Feb 2023 21:51:02,805 INFO : 52% Done

02 Feb 2023 21:51:02,817 INFO : 53% Done

02 Feb 2023 21:51:02,824 INFO : 54% Done

02 Feb 2023 21:51:02,848 INFO : 55% Done

02 Feb 2023 21:51:02,854 INFO : 56% Done

02 Feb 2023 21:51:02,862 INFO : 57% Done

02 Feb 2023 21:51:02,875 INFO : 58% Done

02 Feb 2023 21:51:02,884 INFO : 59% Done

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02 Feb 2023 21:51:02,899 INFO : 61% Done

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02 Feb 2023 21:51:02,922 INFO : 63% Done

02 Feb 2023 21:51:02,929 INFO : 64% Done

02 Feb 2023 21:51:02,942 INFO : 65% Done

02 Feb 2023 21:51:02,950 INFO : 66% Done

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02 Feb 2023 21:51:03,039 INFO : 75% Done

02 Feb 2023 21:51:03,047 INFO : 76% Done

02 Feb 2023 21:51:03,047 DEBUG: Inserted 100 molecules

02 Feb 2023 21:51:03,054 INFO : 77% Done

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02 Feb 2023 21:51:03,238 INFO : 97% Done

02 Feb 2023 21:51:03,253 INFO : 98% Done

02 Feb 2023 21:51:03,258 DEBUG: Total molecules inserted: 128

02 Feb 2023 21:51:03,260 INFO : Done parsing Skyline document.

02 Feb 2023 21:51:03,276 INFO : Creating and populating temp tables for Proportion values

02 Feb 2023 21:51:03,339 INFO : Setting PrecursorModifiedAreaProportion values on precursorchrominfo

02 Feb 2023 21:51:03,394 INFO : Setting ModifiedAreaProportion values on generalmoleculechrominfo

02 Feb 2023 21:51:03,433 INFO : Cleaning up temp tables

02 Feb 2023 21:51:03,680 INFO : Completed import of Skyline document from 20200817 Malaria Polar Pos no edits_2023-02-01_15-46-08.sky.zip

02 Feb 2023 21:51:03,683 INFO : 100% Done

02 Feb 2023 21:51:03,687 DEBUG: Finished trying to load data file file:///data/apache-tomcat/instance/panoramaweb/temp/Pipeline_temp/UC%20Riverside%20Metabolomics%20Core%20-%20Le%20Roch%20Lab_MED6-189_239ec698-85b4-103b-b327-fea6ddf5f3bc/_temp__2023-02-02_21-50-19/export/xar/experiments_and_runs.xar.exploded/Run150063/20200817%20Malaria%20Polar%20Pos%20no%20edits_2023-02-01_15-46-08.sky.zip into the system

02 Feb 2023 21:51:03,687 DEBUG: Trying to load data file file:///data/apache-tomcat/instance/panoramaweb/temp/Pipeline_temp/UC%20Riverside%20Metabolomics%20Core%20-%20Le%20Roch%20Lab_MED6-189_239ec698-85b4-103b-b327-fea6ddf5f3bc/_temp__2023-02-02_21-50-19/export/xar/experiments_and_runs.xar.exploded/Run150064/20200817%20Malaria%20Polar%20Pos%20AV_2023-02-01_15-47-23/20200817%20Malaria%20Polar%20Pos%20AV.skyd into the system

02 Feb 2023 21:51:03,687 DEBUG: Finished trying to load data file file:///data/apache-tomcat/instance/panoramaweb/temp/Pipeline_temp/UC%20Riverside%20Metabolomics%20Core%20-%20Le%20Roch%20Lab_MED6-189_239ec698-85b4-103b-b327-fea6ddf5f3bc/_temp__2023-02-02_21-50-19/export/xar/experiments_and_runs.xar.exploded/Run150064/20200817%20Malaria%20Polar%20Pos%20AV_2023-02-01_15-47-23/20200817%20Malaria%20Polar%20Pos%20AV.skyd into the system

02 Feb 2023 21:51:03,687 DEBUG: Trying to load data file file:///data/apache-tomcat/instance/panoramaweb/temp/Pipeline_temp/UC%20Riverside%20Metabolomics%20Core%20-%20Le%20Roch%20Lab_MED6-189_239ec698-85b4-103b-b327-fea6ddf5f3bc/_temp__2023-02-02_21-50-19/export/xar/experiments_and_runs.xar.exploded/Run150064/20200817%20Malaria%20Polar%20Pos%20AV_2023-02-01_15-47-23.sky.zip into the system

02 Feb 2023 21:51:03,688 INFO : Starting import from 20200817 Malaria Polar Pos AV_2023-02-01_15-47-23.sky.zip

02 Feb 2023 21:51:03,690 INFO : Starting to import Skyline document from 20200817 Malaria Polar Pos AV_2023-02-01_15-47-23.sky.zip

02 Feb 2023 21:51:03,690 INFO : Expanding 20200817 Malaria Polar Pos AV.skyd

02 Feb 2023 21:51:03,702 INFO : Expanding 20200817 Malaria Polar Pos AV.sky.view

02 Feb 2023 21:51:03,702 INFO : Expanding 20200817 Malaria Polar Pos AV.sky

02 Feb 2023 21:51:03,704 INFO : Expanding 20200817 Malaria Polar Pos AV.skyl

02 Feb 2023 21:51:03,706 WARN : The version of this Skyline document is 22.22. This is newer than the highest supported version 22.13

02 Feb 2023 21:51:03,711 INFO : 1% Done

02 Feb 2023 21:51:03,718 DEBUG: Starting to load chromatogram headers

02 Feb 2023 21:51:03,719 DEBUG: Done loading chromatogram headers

02 Feb 2023 21:51:03,841 INFO : Inserting molecules1

02 Feb 2023 21:51:03,843 INFO : 3% Done

02 Feb 2023 21:51:03,854 INFO : 5% Done

02 Feb 2023 21:51:03,861 INFO : 6% Done

02 Feb 2023 21:51:03,867 INFO : 8% Done

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02 Feb 2023 21:51:03,880 INFO : 11% Done

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02 Feb 2023 21:51:04,169 INFO : 80% Done

02 Feb 2023 21:51:04,169 DEBUG: Inserted 50 molecules

02 Feb 2023 21:51:04,175 INFO : 82% Done

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02 Feb 2023 21:51:04,239 INFO : 97% Done

02 Feb 2023 21:51:04,246 INFO : 98% Done

02 Feb 2023 21:51:04,252 DEBUG: Total molecules inserted: 61

02 Feb 2023 21:51:04,254 INFO : Done parsing Skyline document.

02 Feb 2023 21:51:04,289 INFO : Creating and populating temp tables for Proportion values

02 Feb 2023 21:51:04,347 INFO : Setting PrecursorModifiedAreaProportion values on precursorchrominfo

02 Feb 2023 21:51:04,371 INFO : Setting ModifiedAreaProportion values on generalmoleculechrominfo

02 Feb 2023 21:51:04,387 INFO : Cleaning up temp tables

02 Feb 2023 21:51:04,601 INFO : Completed import of Skyline document from 20200817 Malaria Polar Pos AV_2023-02-01_15-47-23.sky.zip

02 Feb 2023 21:51:04,603 INFO : 100% Done

02 Feb 2023 21:51:04,606 DEBUG: Finished trying to load data file file:///data/apache-tomcat/instance/panoramaweb/temp/Pipeline_temp/UC%20Riverside%20Metabolomics%20Core%20-%20Le%20Roch%20Lab_MED6-189_239ec698-85b4-103b-b327-fea6ddf5f3bc/_temp__2023-02-02_21-50-19/export/xar/experiments_and_runs.xar.exploded/Run150064/20200817%20Malaria%20Polar%20Pos%20AV_2023-02-01_15-47-23.sky.zip into the system

02 Feb 2023 21:51:04,606 DEBUG: Trying to load data file file:///data/apache-tomcat/instance/panoramaweb/temp/Pipeline_temp/UC%20Riverside%20Metabolomics%20Core%20-%20Le%20Roch%20Lab_MED6-189_239ec698-85b4-103b-b327-fea6ddf5f3bc/_temp__2023-02-02_21-50-19/export/xar/experiments_and_runs.xar.exploded/Run150065/20200817%20Malaria%20Polar%20Neg%20no%20edits_2023-02-01_15-48-20/20200817%20Malaria%20Polar%20Neg%20no%20edits.skyd into the system

02 Feb 2023 21:51:04,607 DEBUG: Finished trying to load data file file:///data/apache-tomcat/instance/panoramaweb/temp/Pipeline_temp/UC%20Riverside%20Metabolomics%20Core%20-%20Le%20Roch%20Lab_MED6-189_239ec698-85b4-103b-b327-fea6ddf5f3bc/_temp__2023-02-02_21-50-19/export/xar/experiments_and_runs.xar.exploded/Run150065/20200817%20Malaria%20Polar%20Neg%20no%20edits_2023-02-01_15-48-20/20200817%20Malaria%20Polar%20Neg%20no%20edits.skyd into the system

02 Feb 2023 21:51:04,607 DEBUG: Trying to load data file file:///data/apache-tomcat/instance/panoramaweb/temp/Pipeline_temp/UC%20Riverside%20Metabolomics%20Core%20-%20Le%20Roch%20Lab_MED6-189_239ec698-85b4-103b-b327-fea6ddf5f3bc/_temp__2023-02-02_21-50-19/export/xar/experiments_and_runs.xar.exploded/Run150065/20200817%20Malaria%20Polar%20Neg%20no%20edits_2023-02-01_15-48-20.sky.zip into the system

02 Feb 2023 21:51:04,608 INFO : Starting import from 20200817 Malaria Polar Neg no edits_2023-02-01_15-48-20.sky.zip

02 Feb 2023 21:51:04,610 INFO : Starting to import Skyline document from 20200817 Malaria Polar Neg no edits_2023-02-01_15-48-20.sky.zip

02 Feb 2023 21:51:04,610 INFO : Expanding 20200817 Malaria Polar Neg no edits.skyd

02 Feb 2023 21:51:04,621 INFO : Expanding 20200817 Malaria Polar Neg no edits.sky.view

02 Feb 2023 21:51:04,621 INFO : Expanding 20200817 Malaria Polar Neg no edits.sky

02 Feb 2023 21:51:04,624 INFO : Expanding 20200817 Malaria Polar Neg no edits.skyl

02 Feb 2023 21:51:04,625 WARN : The version of this Skyline document is 22.22. This is newer than the highest supported version 22.13

02 Feb 2023 21:51:04,628 INFO : 1% Done

02 Feb 2023 21:51:04,634 DEBUG: Starting to load chromatogram headers

02 Feb 2023 21:51:04,636 DEBUG: Done loading chromatogram headers

02 Feb 2023 21:51:04,761 INFO : Inserting molecules1

02 Feb 2023 21:51:04,764 INFO : 3% Done

02 Feb 2023 21:51:04,775 INFO : 4% Done

02 Feb 2023 21:51:04,783 INFO : 5% Done

02 Feb 2023 21:51:04,789 INFO : 7% Done

02 Feb 2023 21:51:04,796 INFO : 8% Done

02 Feb 2023 21:51:04,803 INFO : 9% Done

02 Feb 2023 21:51:04,813 INFO : 11% Done

02 Feb 2023 21:51:04,820 INFO : 12% Done

02 Feb 2023 21:51:04,827 INFO : 13% Done

02 Feb 2023 21:51:04,834 INFO : 14% Done

02 Feb 2023 21:51:04,841 INFO : 15% Done

02 Feb 2023 21:51:04,848 INFO : 16% Done

02 Feb 2023 21:51:04,856 INFO : 17% Done

02 Feb 2023 21:51:04,862 INFO : 19% Done

02 Feb 2023 21:51:04,870 INFO : 20% Done

02 Feb 2023 21:51:04,877 INFO : 21% Done

02 Feb 2023 21:51:04,885 INFO : 23% Done

02 Feb 2023 21:51:04,893 INFO : 24% Done

02 Feb 2023 21:51:04,904 INFO : 25% Done

02 Feb 2023 21:51:04,912 INFO : 26% Done

02 Feb 2023 21:51:04,920 INFO : 27% Done

02 Feb 2023 21:51:04,928 INFO : 29% Done

02 Feb 2023 21:51:04,935 INFO : 30% Done

02 Feb 2023 21:51:04,944 INFO : 32% Done

02 Feb 2023 21:51:04,954 INFO : 33% Done

02 Feb 2023 21:51:04,961 INFO : 34% Done

02 Feb 2023 21:51:04,969 INFO : 36% Done

02 Feb 2023 21:51:04,979 INFO : 38% Done

02 Feb 2023 21:51:04,988 INFO : 39% Done

02 Feb 2023 21:51:04,996 INFO : 40% Done

02 Feb 2023 21:51:05,003 INFO : 42% Done

02 Feb 2023 21:51:05,013 INFO : 43% Done

02 Feb 2023 21:51:05,020 INFO : 45% Done

02 Feb 2023 21:51:05,028 INFO : 46% Done

02 Feb 2023 21:51:05,035 INFO : 47% Done

02 Feb 2023 21:51:05,043 INFO : 49% Done

02 Feb 2023 21:51:05,051 INFO : 50% Done

02 Feb 2023 21:51:05,058 INFO : 51% Done

02 Feb 2023 21:51:05,064 INFO : 52% Done

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02 Feb 2023 21:51:05,133 INFO : 64% Done

02 Feb 2023 21:51:05,148 INFO : 66% Done

02 Feb 2023 21:51:05,148 DEBUG: Inserted 50 molecules

02 Feb 2023 21:51:05,156 INFO : 67% Done

02 Feb 2023 21:51:05,164 INFO : 68% Done

02 Feb 2023 21:51:05,172 INFO : 70% Done

02 Feb 2023 21:51:05,182 INFO : 71% Done

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02 Feb 2023 21:51:05,300 INFO : 89% Done

02 Feb 2023 21:51:05,310 INFO : 90% Done

02 Feb 2023 21:51:05,319 INFO : 91% Done

02 Feb 2023 21:51:05,331 INFO : 92% Done

02 Feb 2023 21:51:05,343 INFO : 94% Done

02 Feb 2023 21:51:05,351 INFO : 95% Done

02 Feb 2023 21:51:05,358 INFO : 96% Done

02 Feb 2023 21:51:05,366 INFO : 97% Done

02 Feb 2023 21:51:05,374 INFO : 98% Done

02 Feb 2023 21:51:05,380 DEBUG: Total molecules inserted: 76

02 Feb 2023 21:51:05,381 INFO : Done parsing Skyline document.

02 Feb 2023 21:51:05,395 INFO : Creating and populating temp tables for Proportion values

02 Feb 2023 21:51:05,455 INFO : Setting PrecursorModifiedAreaProportion values on precursorchrominfo

02 Feb 2023 21:51:05,502 INFO : Setting ModifiedAreaProportion values on generalmoleculechrominfo

02 Feb 2023 21:51:05,526 INFO : Cleaning up temp tables

02 Feb 2023 21:51:05,747 INFO : Completed import of Skyline document from 20200817 Malaria Polar Neg no edits_2023-02-01_15-48-20.sky.zip

02 Feb 2023 21:51:05,749 INFO : 100% Done

02 Feb 2023 21:51:05,752 DEBUG: Finished trying to load data file file:///data/apache-tomcat/instance/panoramaweb/temp/Pipeline_temp/UC%20Riverside%20Metabolomics%20Core%20-%20Le%20Roch%20Lab_MED6-189_239ec698-85b4-103b-b327-fea6ddf5f3bc/_temp__2023-02-02_21-50-19/export/xar/experiments_and_runs.xar.exploded/Run150065/20200817%20Malaria%20Polar%20Neg%20no%20edits_2023-02-01_15-48-20.sky.zip into the system

02 Feb 2023 21:51:05,752 DEBUG: Trying to load data file file:///data/apache-tomcat/instance/panoramaweb/temp/Pipeline_temp/UC%20Riverside%20Metabolomics%20Core%20-%20Le%20Roch%20Lab_MED6-189_239ec698-85b4-103b-b327-fea6ddf5f3bc/_temp__2023-02-02_21-50-19/export/xar/experiments_and_runs.xar.exploded/Run150066/20200817%20Malaria%20Polar%20Neg%20AV_2023-02-01_15-49-07/20200817%20Malaria%20Polar%20Neg%20AV.skyd into the system

02 Feb 2023 21:51:05,753 DEBUG: Finished trying to load data file file:///data/apache-tomcat/instance/panoramaweb/temp/Pipeline_temp/UC%20Riverside%20Metabolomics%20Core%20-%20Le%20Roch%20Lab_MED6-189_239ec698-85b4-103b-b327-fea6ddf5f3bc/_temp__2023-02-02_21-50-19/export/xar/experiments_and_runs.xar.exploded/Run150066/20200817%20Malaria%20Polar%20Neg%20AV_2023-02-01_15-49-07/20200817%20Malaria%20Polar%20Neg%20AV.skyd into the system

02 Feb 2023 21:51:05,753 DEBUG: Trying to load data file file:///data/apache-tomcat/instance/panoramaweb/temp/Pipeline_temp/UC%20Riverside%20Metabolomics%20Core%20-%20Le%20Roch%20Lab_MED6-189_239ec698-85b4-103b-b327-fea6ddf5f3bc/_temp__2023-02-02_21-50-19/export/xar/experiments_and_runs.xar.exploded/Run150066/20200817%20Malaria%20Polar%20Neg%20AV_2023-02-01_15-49-07.sky.zip into the system

02 Feb 2023 21:51:05,754 INFO : Starting import from 20200817 Malaria Polar Neg AV_2023-02-01_15-49-07.sky.zip

02 Feb 2023 21:51:05,756 INFO : Starting to import Skyline document from 20200817 Malaria Polar Neg AV_2023-02-01_15-49-07.sky.zip

02 Feb 2023 21:51:05,757 INFO : Expanding 20200817 Malaria Polar Neg AV.skyd

02 Feb 2023 21:51:05,767 INFO : Expanding 20200817 Malaria Polar Neg AV.sky.view

02 Feb 2023 21:51:05,767 INFO : Expanding 20200817 Malaria Polar Neg AV.sky

02 Feb 2023 21:51:05,768 INFO : Expanding 20200817 Malaria Polar Neg AV.skyl

02 Feb 2023 21:51:05,770 WARN : The version of this Skyline document is 22.22. This is newer than the highest supported version 22.13

02 Feb 2023 21:51:05,773 INFO : 2% Done

02 Feb 2023 21:51:05,778 DEBUG: Starting to load chromatogram headers

02 Feb 2023 21:51:05,779 DEBUG: Done loading chromatogram headers

02 Feb 2023 21:51:05,913 INFO : Inserting molecules1

02 Feb 2023 21:51:05,916 INFO : 9% Done

02 Feb 2023 21:51:05,926 INFO : 12% Done

02 Feb 2023 21:51:05,935 INFO : 16% Done

02 Feb 2023 21:51:05,943 INFO : 21% Done

02 Feb 2023 21:51:05,951 INFO : 25% Done

02 Feb 2023 21:51:05,960 INFO : 30% Done

02 Feb 2023 21:51:05,969 INFO : 34% Done

02 Feb 2023 21:51:05,976 INFO : 39% Done

02 Feb 2023 21:51:05,983 INFO : 43% Done

02 Feb 2023 21:51:05,991 INFO : 46% Done

02 Feb 2023 21:51:05,998 INFO : 51% Done

02 Feb 2023 21:51:06,006 INFO : 55% Done

02 Feb 2023 21:51:06,013 INFO : 60% Done

02 Feb 2023 21:51:06,021 INFO : 63% Done

02 Feb 2023 21:51:06,029 INFO : 69% Done

02 Feb 2023 21:51:06,038 INFO : 74% Done

02 Feb 2023 21:51:06,046 INFO : 75% Done

02 Feb 2023 21:51:06,052 INFO : 80% Done

02 Feb 2023 21:51:06,059 INFO : 85% Done

02 Feb 2023 21:51:06,068 INFO : 89% Done

02 Feb 2023 21:51:06,075 INFO : 92% Done

02 Feb 2023 21:51:06,083 INFO : 96% Done

02 Feb 2023 21:51:06,094 INFO : 98% Done

02 Feb 2023 21:51:06,098 DEBUG: Total molecules inserted: 23

02 Feb 2023 21:51:06,099 INFO : Done parsing Skyline document.

02 Feb 2023 21:51:06,123 INFO : Creating and populating temp tables for Proportion values

02 Feb 2023 21:51:06,177 INFO : Setting PrecursorModifiedAreaProportion values on precursorchrominfo

02 Feb 2023 21:51:06,188 INFO : Setting ModifiedAreaProportion values on generalmoleculechrominfo

02 Feb 2023 21:51:06,194 INFO : Cleaning up temp tables

02 Feb 2023 21:51:06,396 INFO : Completed import of Skyline document from 20200817 Malaria Polar Neg AV_2023-02-01_15-49-07.sky.zip

02 Feb 2023 21:51:06,398 INFO : 100% Done

02 Feb 2023 21:51:06,401 DEBUG: Finished trying to load data file file:///data/apache-tomcat/instance/panoramaweb/temp/Pipeline_temp/UC%20Riverside%20Metabolomics%20Core%20-%20Le%20Roch%20Lab_MED6-189_239ec698-85b4-103b-b327-fea6ddf5f3bc/_temp__2023-02-02_21-50-19/export/xar/experiments_and_runs.xar.exploded/Run150066/20200817%20Malaria%20Polar%20Neg%20AV_2023-02-01_15-49-07.sky.zip into the system

02 Feb 2023 21:51:06,415 INFO : Done importing xar

02 Feb 2023 21:51:06,416 INFO : Loading pages and webpart properties

02 Feb 2023 21:51:06,490 INFO : Done importing 4 page(s) with 7 webpart(s)

02 Feb 2023 21:51:06,491 INFO : Loading File Browser config

02 Feb 2023 21:51:06,491 INFO : Done importing File Browser config

02 Feb 2023 21:51:06,492 INFO : Starting Sample Status Data import

02 Feb 2023 21:51:06,492 INFO : No sample types XAR file to process.

02 Feb 2023 21:51:06,492 INFO : Finished importing Sample Status Data

02 Feb 2023 21:51:06,496 INFO : Starting data import from QCAnnotationType.tsv into targetedms.QCAnnotationType

02 Feb 2023 21:51:06,500 INFO : A row containing [Description: 'null', Color: '800000', Name: 'Reagent Change'] values already exists. Skipping

02 Feb 2023 21:51:06,501 INFO : A row containing [Description: 'null', Color: 'FF0000', Name: 'Instrumentation Change'] values already exists. Skipping

02 Feb 2023 21:51:06,501 INFO : A row containing [Description: 'null', Color: '0000FF', Name: 'Technician Change'] values already exists. Skipping

02 Feb 2023 21:51:06,502 INFO : Finished importing 0 rows from QCAnnotationType.tsv into targetedms.QCAnnotationType

02 Feb 2023 21:51:06,503 INFO : Importing files metadata.

02 Feb 2023 21:51:06,503 DEBUG: [/Panorama Public/2023/UC Riverside Metabolomics Core - Le Roch Lab_MED6-189]  Reading files metadata from /data/apache-tomcat/instance/panoramaweb/temp/Pipeline_temp/UC Riverside Metabolomics Core - Le Roch Lab_MED6-189_239ec698-85b4-103b-b327-fea6ddf5f3bc/_temp__2023-02-02_21-50-19/export

02 Feb 2023 21:51:06,504 INFO : 

02 Feb 2023 21:51:06,504 INFO : Experiment import completed successfully.

02 Feb 2023 21:51:06,504 INFO : Successfully completed task 'org.labkey.panoramapublic.pipeline.ExperimentImportTask'

02 Feb 2023 21:51:06,525 INFO : Starting to run task 'org.labkey.panoramapublic.pipeline.CopyLibraryStateTask' at location 'webserver-high-priority'

02 Feb 2023 21:51:06,525 INFO : 

02 Feb 2023 21:51:06,525 INFO : Checking for library folders.

02 Feb 2023 21:51:06,527 INFO : Successfully completed task 'org.labkey.panoramapublic.pipeline.CopyLibraryStateTask'

02 Feb 2023 21:51:06,544 INFO : Starting to run task 'org.labkey.panoramapublic.pipeline.CopyExperimentFinalTask' at location 'webserver-high-priority'

02 Feb 2023 21:51:06,544 INFO : 

02 Feb 2023 21:51:06,544 INFO : Finishing up experiment copy.

02 Feb 2023 21:51:06,546 INFO : Creating a new TargetedMS experiment entry in panoramapublic.ExperimentAnnotations.

02 Feb 2023 21:51:06,546 INFO : Setting version on new experiment to 1

02 Feb 2023 21:51:06,546 INFO : Assigning a DOI.

02 Feb 2023 21:51:08,088 INFO : Assigned DOI: 10.6069/5a05-5x26

02 Feb 2023 21:51:08,092 INFO : Updating access URL to point to the new copy of the data.

02 Feb 2023 21:51:08,097 INFO : Removing copy permissions given to Panorama Public

02 Feb 2023 21:51:08,104 INFO : Adding read permissions to all users that are folder admins in the source folder.

02 Feb 2023 21:51:08,111 INFO : Updating the 'Raw Data' tab configuration

02 Feb 2023 21:51:08,114 INFO : Updating dataFileUrls for run 20200817 Malaria Polar Pos no edits_2023-02-01_15-46-08.sky.zip; targetedms run ID 152062

02 Feb 2023 21:51:08,114 INFO : Updating dataFileUrl...

02 Feb 2023 21:51:08,114 INFO : from: file:///data/apache-tomcat/instance/panoramaweb/temp/Pipeline_temp/UC%20Riverside%20Metabolomics%20Core%20-%20Le%20Roch%20Lab_MED6-189_239ec698-85b4-103b-b327-fea6ddf5f3bc/_temp__2023-02-02_21-50-19/export/xar/experiments_and_runs.xar.exploded/Run150063/20200817%20Malaria%20Polar%20Pos%20no%20edits_2023-02-01_15-46-08.sky.zip

02 Feb 2023 21:51:08,114 INFO : to: file:///data/labkey/files/Panorama%20Public/2023/UC%20Riverside%20Metabolomics%20Core%20-%20Le%20Roch%20Lab_MED6-189/@files/20200817%20Malaria%20Polar%20Pos%20no%20edits_2023-02-01_15-46-08.sky.zip

02 Feb 2023 21:51:08,116 INFO : Updating dataFileUrl...

02 Feb 2023 21:51:08,116 INFO : from: file:///data/apache-tomcat/instance/panoramaweb/temp/Pipeline_temp/UC%20Riverside%20Metabolomics%20Core%20-%20Le%20Roch%20Lab_MED6-189_239ec698-85b4-103b-b327-fea6ddf5f3bc/_temp__2023-02-02_21-50-19/export/xar/experiments_and_runs.xar.exploded/Run150063/20200817%20Malaria%20Polar%20Pos%20no%20edits_2023-02-01_15-46-08/20200817%20Malaria%20Polar%20Pos%20no%20edits.skyd

02 Feb 2023 21:51:08,116 INFO : to: file:///data/labkey/files/Panorama%20Public/2023/UC%20Riverside%20Metabolomics%20Core%20-%20Le%20Roch%20Lab_MED6-189/@files/20200817%20Malaria%20Polar%20Pos%20no%20edits_2023-02-01_15-46-08/20200817%20Malaria%20Polar%20Pos%20no%20edits.skyd

02 Feb 2023 21:51:08,119 INFO : Updating dataFileUrls for run 20200817 Malaria Polar Pos AV_2023-02-01_15-47-23.sky.zip; targetedms run ID 152063

02 Feb 2023 21:51:08,119 INFO : Updating dataFileUrl...

02 Feb 2023 21:51:08,119 INFO : from: file:///data/apache-tomcat/instance/panoramaweb/temp/Pipeline_temp/UC%20Riverside%20Metabolomics%20Core%20-%20Le%20Roch%20Lab_MED6-189_239ec698-85b4-103b-b327-fea6ddf5f3bc/_temp__2023-02-02_21-50-19/export/xar/experiments_and_runs.xar.exploded/Run150064/20200817%20Malaria%20Polar%20Pos%20AV_2023-02-01_15-47-23.sky.zip

02 Feb 2023 21:51:08,119 INFO : to: file:///data/labkey/files/Panorama%20Public/2023/UC%20Riverside%20Metabolomics%20Core%20-%20Le%20Roch%20Lab_MED6-189/@files/20200817%20Malaria%20Polar%20Pos%20AV_2023-02-01_15-47-23.sky.zip

02 Feb 2023 21:51:08,120 INFO : Updating dataFileUrl...

02 Feb 2023 21:51:08,120 INFO : from: file:///data/apache-tomcat/instance/panoramaweb/temp/Pipeline_temp/UC%20Riverside%20Metabolomics%20Core%20-%20Le%20Roch%20Lab_MED6-189_239ec698-85b4-103b-b327-fea6ddf5f3bc/_temp__2023-02-02_21-50-19/export/xar/experiments_and_runs.xar.exploded/Run150064/20200817%20Malaria%20Polar%20Pos%20AV_2023-02-01_15-47-23/20200817%20Malaria%20Polar%20Pos%20AV.skyd

02 Feb 2023 21:51:08,120 INFO : to: file:///data/labkey/files/Panorama%20Public/2023/UC%20Riverside%20Metabolomics%20Core%20-%20Le%20Roch%20Lab_MED6-189/@files/20200817%20Malaria%20Polar%20Pos%20AV_2023-02-01_15-47-23/20200817%20Malaria%20Polar%20Pos%20AV.skyd

02 Feb 2023 21:51:08,123 INFO : Updating dataFileUrls for run 20200817 Malaria Polar Neg no edits_2023-02-01_15-48-20.sky.zip; targetedms run ID 152064

02 Feb 2023 21:51:08,123 INFO : Updating dataFileUrl...

02 Feb 2023 21:51:08,123 INFO : from: file:///data/apache-tomcat/instance/panoramaweb/temp/Pipeline_temp/UC%20Riverside%20Metabolomics%20Core%20-%20Le%20Roch%20Lab_MED6-189_239ec698-85b4-103b-b327-fea6ddf5f3bc/_temp__2023-02-02_21-50-19/export/xar/experiments_and_runs.xar.exploded/Run150065/20200817%20Malaria%20Polar%20Neg%20no%20edits_2023-02-01_15-48-20/20200817%20Malaria%20Polar%20Neg%20no%20edits.skyd

02 Feb 2023 21:51:08,123 INFO : to: file:///data/labkey/files/Panorama%20Public/2023/UC%20Riverside%20Metabolomics%20Core%20-%20Le%20Roch%20Lab_MED6-189/@files/20200817%20Malaria%20Polar%20Neg%20no%20edits_2023-02-01_15-48-20/20200817%20Malaria%20Polar%20Neg%20no%20edits.skyd

02 Feb 2023 21:51:08,124 INFO : Updating dataFileUrl...

02 Feb 2023 21:51:08,124 INFO : from: file:///data/apache-tomcat/instance/panoramaweb/temp/Pipeline_temp/UC%20Riverside%20Metabolomics%20Core%20-%20Le%20Roch%20Lab_MED6-189_239ec698-85b4-103b-b327-fea6ddf5f3bc/_temp__2023-02-02_21-50-19/export/xar/experiments_and_runs.xar.exploded/Run150065/20200817%20Malaria%20Polar%20Neg%20no%20edits_2023-02-01_15-48-20.sky.zip

02 Feb 2023 21:51:08,124 INFO : to: file:///data/labkey/files/Panorama%20Public/2023/UC%20Riverside%20Metabolomics%20Core%20-%20Le%20Roch%20Lab_MED6-189/@files/20200817%20Malaria%20Polar%20Neg%20no%20edits_2023-02-01_15-48-20.sky.zip

02 Feb 2023 21:51:08,126 INFO : Updating dataFileUrls for run 20200817 Malaria Polar Neg AV_2023-02-01_15-49-07.sky.zip; targetedms run ID 152065

02 Feb 2023 21:51:08,126 INFO : Updating dataFileUrl...

02 Feb 2023 21:51:08,126 INFO : from: file:///data/apache-tomcat/instance/panoramaweb/temp/Pipeline_temp/UC%20Riverside%20Metabolomics%20Core%20-%20Le%20Roch%20Lab_MED6-189_239ec698-85b4-103b-b327-fea6ddf5f3bc/_temp__2023-02-02_21-50-19/export/xar/experiments_and_runs.xar.exploded/Run150066/20200817%20Malaria%20Polar%20Neg%20AV_2023-02-01_15-49-07.sky.zip

02 Feb 2023 21:51:08,126 INFO : to: file:///data/labkey/files/Panorama%20Public/2023/UC%20Riverside%20Metabolomics%20Core%20-%20Le%20Roch%20Lab_MED6-189/@files/20200817%20Malaria%20Polar%20Neg%20AV_2023-02-01_15-49-07.sky.zip

02 Feb 2023 21:51:08,127 INFO : Updating dataFileUrl...

02 Feb 2023 21:51:08,128 INFO : from: file:///data/apache-tomcat/instance/panoramaweb/temp/Pipeline_temp/UC%20Riverside%20Metabolomics%20Core%20-%20Le%20Roch%20Lab_MED6-189_239ec698-85b4-103b-b327-fea6ddf5f3bc/_temp__2023-02-02_21-50-19/export/xar/experiments_and_runs.xar.exploded/Run150066/20200817%20Malaria%20Polar%20Neg%20AV_2023-02-01_15-49-07/20200817%20Malaria%20Polar%20Neg%20AV.skyd

02 Feb 2023 21:51:08,128 INFO : to: file:///data/labkey/files/Panorama%20Public/2023/UC%20Riverside%20Metabolomics%20Core%20-%20Le%20Roch%20Lab_MED6-189/@files/20200817%20Malaria%20Polar%20Neg%20AV_2023-02-01_15-49-07/20200817%20Malaria%20Polar%20Neg%20AV.skyd

02 Feb 2023 21:51:08,133 INFO : Creating a reviewer account.

02 Feb 2023 21:51:08,342 INFO : Created reviewer with email: User panorama+reviewer169@proteinms.net

02 Feb 2023 21:51:08,352 INFO : Hiding the Data Pipeline tab.

02 Feb 2023 21:51:08,356 INFO : Updating Submission. Setting copiedExperimentId to 1569

02 Feb 2023 21:51:08,468 INFO : Successfully completed task 'org.labkey.panoramapublic.pipeline.CopyExperimentFinalTask'