12 Mar 2023 17:12:50,794 INFO : Copying experiment "Dysregulations in the levels of lactate dehydrogenase and pyruvate kinase upon IL-17A and echinomycin treatments in human primary keratinocytes" from folder /IIT Bombay - Proteomics/Lab users/Medha Gayathri J Pai/IL-17A Keratinocyte to /Panorama Public/2023/IIT Bombay Proteomics - IL-17A Keratinocyte

12 Mar 2023 17:12:50,794 INFO : =======================================

12 Mar 2023 17:12:50,810 DEBUG: Resetting Job ID: f2b0524c-a360-103b-8de3-fea6ddf5390e

12 Mar 2023 17:12:50,831 INFO : Starting to run task 'org.labkey.panoramapublic.pipeline.ExperimentExportTask' at location 'webserver-high-priority'

12 Mar 2023 17:12:50,831 INFO : 

12 Mar 2023 17:12:50,831 INFO : Exporting experiment.

12 Mar 2023 17:13:50,590 INFO : Exporting files metadata.

12 Mar 2023 17:13:50,590 DEBUG: [/IIT Bombay - Proteomics/Lab users/Medha Gayathri J Pai/IL-17A Keratinocyte]  Writing files metadata to /data/apache-tomcat/instance/panoramaweb/temp/Pipeline_temp/IIT Bombay Proteomics - IL-17A Keratinocyte_f2b05238-a360-103b-8de3-fea6ddf5390e/_temp__2023-03-12_17-12-50/export

12 Mar 2023 17:13:50,599 INFO : 

12 Mar 2023 17:13:50,599 INFO : Experiment export completed successfully.

12 Mar 2023 17:13:50,599 INFO : Successfully completed task 'org.labkey.panoramapublic.pipeline.ExperimentExportTask'

12 Mar 2023 17:13:50,623 INFO : Starting to run task 'org.labkey.panoramapublic.pipeline.ExperimentImportTask' at location 'webserver-high-priority'

12 Mar 2023 17:13:50,624 INFO : 

12 Mar 2023 17:13:50,624 INFO : Importing experiment.

12 Mar 2023 17:13:50,625 DEBUG: [/Panorama Public/2023/IIT Bombay Proteomics - IL-17A Keratinocyte] Importing folder properties from: /data/apache-tomcat/instance/panoramaweb/temp/Pipeline_temp/IIT Bombay Proteomics - IL-17A Keratinocyte_f2b05238-a360-103b-8de3-fea6ddf5390e/_temp__2023-03-12_17-12-50/export

12 Mar 2023 17:13:50,626 INFO : Loading folder properties (folder type, settings and active modules)

12 Mar 2023 17:13:50,626 DEBUG: [/Panorama Public/2023/IIT Bombay Proteomics - IL-17A Keratinocyte] Folder type: Targeted MS

12 Mar 2023 17:13:50,626 DEBUG: [/Panorama Public/2023/IIT Bombay Proteomics - IL-17A Keratinocyte] Active modules: Issues, API, TargetedMS, Pipeline, Assay, Experiment, MS2, Search, Query, Internal, Announcements, Wiki, FileContent, Core, PanoramaPublic

12 Mar 2023 17:13:50,694 INFO : Done importing folder properties (folder type, settings and active modules)

12 Mar 2023 17:13:50,695 INFO : Loading container specific module properties

12 Mar 2023 17:13:50,703 INFO : Done importing container specific module properties

12 Mar 2023 17:13:50,705 INFO : Loading etl definitions

12 Mar 2023 17:13:50,706 INFO : Loading wikis

12 Mar 2023 17:13:50,707 INFO : 0 wikis imported

12 Mar 2023 17:13:50,707 INFO : Done importing wikis

12 Mar 2023 17:13:50,707 INFO : Starting to copy files

12 Mar 2023 17:14:46,630 INFO : Copied 21 files

12 Mar 2023 17:14:46,630 INFO : Ensuring exp.data rows exist for imported files

12 Mar 2023 17:14:46,716 INFO : Starting Sample Type and Data Class import

12 Mar 2023 17:14:46,716 INFO : No types XAR file to process.

12 Mar 2023 17:14:46,716 INFO : Finished importing Sample Types and Data Classes

12 Mar 2023 17:14:46,718 INFO : Loading xar

12 Mar 2023 17:14:46,955 DEBUG: Finished loading Protocol with LSID 'urn:lsid:uw.edu:Protocol.Folder-11253:TargetedMS.ImportSkyZip'

12 Mar 2023 17:14:46,957 DEBUG: Finished loading Protocol with LSID 'urn:lsid:uw.edu:Protocol.Folder-11253:TargetedMS.ImportSkyZip.Core'

12 Mar 2023 17:14:46,958 DEBUG: Finished loading Protocol with LSID 'urn:lsid:uw.edu:Protocol.Folder-11253:TargetedMS.ImportSkyZip.Output'

12 Mar 2023 17:14:46,958 DEBUG: Protocol import complete

12 Mar 2023 17:14:46,960 DEBUG: Finished loading Experiment with LSID 'urn:lsid:uw.edu:Experiment.Folder-11253:Dysregulations+in+the+levels+of+lactate+dehydrogenase+and+pyruvate+kinase+upon+IL-17A+and+echinomycin+treatments+in+human+primary+keratinocytes'

12 Mar 2023 17:14:46,960 DEBUG: Experiment/Run group import complete

12 Mar 2023 17:14:46,968 DEBUG: Protocol action set import complete

12 Mar 2023 17:14:46,976 DEBUG: Finished loading ProtocolApplication with LSID 'urn:lsid:uw.edu:Protocol.Folder-11253:TargetedMS.ImportSkyZip'

12 Mar 2023 17:14:46,981 DEBUG: Finished loading Data with LSID 'urn:lsid:uw.edu:skyd.Folder-11253:b7194c52-9ecf-103b-8de3-fea6ddf5390e'

12 Mar 2023 17:14:46,985 DEBUG: Finished loading Data with LSID 'urn:lsid:uw.edu:UploadedFile.Folder-11253:b7194bf8-9ecf-103b-8de3-fea6ddf5390e'

12 Mar 2023 17:14:46,985 DEBUG: Finished loading ProtocolApplication with LSID 'urn:lsid:uw.edu:Protocol.Folder-11253:TargetedMS.ImportSkyZip.Core'

12 Mar 2023 17:14:46,987 DEBUG: Finished loading ProtocolApplication with LSID 'urn:lsid:uw.edu:Protocol.Folder-11253:TargetedMS.ImportSkyZip.Output'

12 Mar 2023 17:14:46,988 DEBUG: Finished loading ExperimentRun with LSID 'urn:lsid:uw.edu:Run.Folder-11253:b7194c67-9ecf-103b-8de3-fea6ddf5390e'

12 Mar 2023 17:14:46,989 DEBUG: Trying to load data file file:///data/apache-tomcat/instance/panoramaweb/temp/Pipeline_temp/IIT%20Bombay%20Proteomics%20-%20IL-17A%20Keratinocyte_f2b05238-a360-103b-8de3-fea6ddf5390e/_temp__2023-03-12_17-12-50/export/xar/experiments_and_runs.xar.exploded/Run152710/IL17A_keratinocyte_MRM_final_2023-03-07_10-13-53/IL17A_keratinocyte_MRM_final.skyd into the system

12 Mar 2023 17:14:46,989 DEBUG: Finished trying to load data file file:///data/apache-tomcat/instance/panoramaweb/temp/Pipeline_temp/IIT%20Bombay%20Proteomics%20-%20IL-17A%20Keratinocyte_f2b05238-a360-103b-8de3-fea6ddf5390e/_temp__2023-03-12_17-12-50/export/xar/experiments_and_runs.xar.exploded/Run152710/IL17A_keratinocyte_MRM_final_2023-03-07_10-13-53/IL17A_keratinocyte_MRM_final.skyd into the system

12 Mar 2023 17:14:46,989 DEBUG: Trying to load data file file:///data/apache-tomcat/instance/panoramaweb/temp/Pipeline_temp/IIT%20Bombay%20Proteomics%20-%20IL-17A%20Keratinocyte_f2b05238-a360-103b-8de3-fea6ddf5390e/_temp__2023-03-12_17-12-50/export/xar/experiments_and_runs.xar.exploded/Run152710/IL17A_keratinocyte_MRM_final_2023-03-07_10-13-53.sky.zip into the system

12 Mar 2023 17:14:46,990 INFO : Starting import from IL17A_keratinocyte_MRM_final_2023-03-07_10-13-53.sky.zip

12 Mar 2023 17:14:46,993 INFO : Starting to import Skyline document from IL17A_keratinocyte_MRM_final_2023-03-07_10-13-53.sky.zip

12 Mar 2023 17:14:46,994 INFO : Expanding IL17_LFQ.blib

12 Mar 2023 17:14:47,495 INFO : Expanding IL17A_keratinocyte_MRM_final.skyd

12 Mar 2023 17:14:47,519 INFO : Expanding IL17A_keratinocyte_MRM_final.sky.view

12 Mar 2023 17:14:47,519 INFO : Expanding IL17A_keratinocyte_MRM_final.sky

12 Mar 2023 17:14:47,521 INFO : Expanding IL17A_keratinocyte_MRM_final.skyl

12 Mar 2023 17:14:47,524 WARN : The version of this Skyline document is 22.2. This is newer than the highest supported version 22.13

12 Mar 2023 17:14:47,528 INFO : 2% Done

12 Mar 2023 17:14:47,535 DEBUG: Starting to load chromatogram headers

12 Mar 2023 17:14:47,536 DEBUG: Done loading chromatogram headers

12 Mar 2023 17:14:47,668 INFO : Inserting sp|P00338|LDHA_HUMAN

12 Mar 2023 17:14:47,675 INFO : 9% Done

12 Mar 2023 17:14:47,695 INFO : 14% Done

12 Mar 2023 17:14:47,708 INFO : 20% Done

12 Mar 2023 17:14:47,721 INFO : 25% Done

12 Mar 2023 17:14:47,734 INFO : 32% Done

12 Mar 2023 17:14:47,750 INFO : 39% Done

12 Mar 2023 17:14:47,763 DEBUG: Total peptides inserted: 6

12 Mar 2023 17:14:47,764 INFO : 40% Done

12 Mar 2023 17:14:47,764 INFO : Inserting sp|P14618|KPYM_HUMAN

12 Mar 2023 17:14:47,771 INFO : 48% Done

12 Mar 2023 17:14:47,788 INFO : 54% Done

12 Mar 2023 17:14:47,803 INFO : 65% Done

12 Mar 2023 17:14:47,823 INFO : 71% Done

12 Mar 2023 17:14:47,837 INFO : 75% Done

12 Mar 2023 17:14:47,850 INFO : 83% Done

12 Mar 2023 17:14:47,867 INFO : 92% Done

12 Mar 2023 17:14:47,885 INFO : 98% Done

12 Mar 2023 17:14:47,897 DEBUG: Total peptides inserted: 8

12 Mar 2023 17:14:47,898 INFO : Done parsing Skyline document.

12 Mar 2023 17:14:48,001 INFO : Creating and populating temp tables for Proportion values

12 Mar 2023 17:14:48,057 INFO : Setting PrecursorModifiedAreaProportion values on precursorchrominfo

12 Mar 2023 17:14:48,063 INFO : Setting ModifiedAreaProportion values on generalmoleculechrominfo

12 Mar 2023 17:14:48,067 INFO : Cleaning up temp tables

12 Mar 2023 17:14:48,436 INFO : Completed import of Skyline document from IL17A_keratinocyte_MRM_final_2023-03-07_10-13-53.sky.zip

12 Mar 2023 17:14:48,438 INFO : 100% Done

12 Mar 2023 17:14:48,441 DEBUG: Finished trying to load data file file:///data/apache-tomcat/instance/panoramaweb/temp/Pipeline_temp/IIT%20Bombay%20Proteomics%20-%20IL-17A%20Keratinocyte_f2b05238-a360-103b-8de3-fea6ddf5390e/_temp__2023-03-12_17-12-50/export/xar/experiments_and_runs.xar.exploded/Run152710/IL17A_keratinocyte_MRM_final_2023-03-07_10-13-53.sky.zip into the system

12 Mar 2023 17:14:48,447 INFO : Done importing xar

12 Mar 2023 17:14:48,448 INFO : Loading pages and webpart properties

12 Mar 2023 17:14:48,536 INFO : Done importing 4 page(s) with 7 webpart(s)

12 Mar 2023 17:14:48,536 INFO : Loading File Browser config

12 Mar 2023 17:14:48,536 INFO : Done importing File Browser config

12 Mar 2023 17:14:48,537 INFO : Starting Sample Status Data import

12 Mar 2023 17:14:48,537 INFO : No sample types XAR file to process.

12 Mar 2023 17:14:48,537 INFO : Finished importing Sample Status Data

12 Mar 2023 17:14:48,541 INFO : Starting data import from QCAnnotationType.tsv into targetedms.QCAnnotationType

12 Mar 2023 17:14:48,542 INFO : A row containing [Description: 'null', Color: '800000', Name: 'Reagent Change'] values already exists. Skipping

12 Mar 2023 17:14:48,543 INFO : A row containing [Description: 'null', Color: 'FF0000', Name: 'Instrumentation Change'] values already exists. Skipping

12 Mar 2023 17:14:48,543 INFO : A row containing [Description: 'null', Color: '0000FF', Name: 'Technician Change'] values already exists. Skipping

12 Mar 2023 17:14:48,543 INFO : Finished importing 0 rows from QCAnnotationType.tsv into targetedms.QCAnnotationType

12 Mar 2023 17:14:48,543 INFO : Importing files metadata.

12 Mar 2023 17:14:48,543 DEBUG: [/Panorama Public/2023/IIT Bombay Proteomics - IL-17A Keratinocyte]  Reading files metadata from /data/apache-tomcat/instance/panoramaweb/temp/Pipeline_temp/IIT Bombay Proteomics - IL-17A Keratinocyte_f2b05238-a360-103b-8de3-fea6ddf5390e/_temp__2023-03-12_17-12-50/export

12 Mar 2023 17:14:48,544 INFO : 

12 Mar 2023 17:14:48,544 INFO : Experiment import completed successfully.

12 Mar 2023 17:14:48,544 INFO : Successfully completed task 'org.labkey.panoramapublic.pipeline.ExperimentImportTask'

12 Mar 2023 17:14:48,564 INFO : Starting to run task 'org.labkey.panoramapublic.pipeline.CopyLibraryStateTask' at location 'webserver-high-priority'

12 Mar 2023 17:14:48,564 INFO : 

12 Mar 2023 17:14:48,564 INFO : Checking for library folders.

12 Mar 2023 17:14:48,566 INFO : Successfully completed task 'org.labkey.panoramapublic.pipeline.CopyLibraryStateTask'

12 Mar 2023 17:14:48,583 INFO : Starting to run task 'org.labkey.panoramapublic.pipeline.CopyExperimentFinalTask' at location 'webserver-high-priority'

12 Mar 2023 17:14:48,583 INFO : 

12 Mar 2023 17:14:48,583 INFO : Finishing up experiment copy.

12 Mar 2023 17:14:48,590 INFO : Creating a new TargetedMS experiment entry in panoramapublic.ExperimentAnnotations.

12 Mar 2023 17:14:48,590 INFO : Setting version on new experiment to 2

12 Mar 2023 17:14:48,590 INFO : Copying ProteomeXchange ID from the previous copy of the data.

12 Mar 2023 17:14:48,590 INFO : Copying DOI from the previous copy of the data.

12 Mar 2023 17:14:48,592 INFO : Updating access URL to point to the new copy of the data.

12 Mar 2023 17:14:48,596 INFO : Removing copy permissions given to Panorama Public

12 Mar 2023 17:14:48,608 INFO : Adding read permissions to all users that are folder admins in the source folder.

12 Mar 2023 17:14:48,609 INFO : Adding read permissions to all users that had read access to previous copy.

12 Mar 2023 17:14:48,618 INFO : Updating the 'Raw Data' tab configuration

12 Mar 2023 17:14:48,620 INFO : Updating dataFileUrls for run IL17A_keratinocyte_MRM_final_2023-03-07_10-13-53.sky.zip; targetedms run ID 155141

12 Mar 2023 17:14:48,620 INFO : Updating dataFileUrl...

12 Mar 2023 17:14:48,620 INFO : from: file:///data/apache-tomcat/instance/panoramaweb/temp/Pipeline_temp/IIT%20Bombay%20Proteomics%20-%20IL-17A%20Keratinocyte_f2b05238-a360-103b-8de3-fea6ddf5390e/_temp__2023-03-12_17-12-50/export/xar/experiments_and_runs.xar.exploded/Run152710/IL17A_keratinocyte_MRM_final_2023-03-07_10-13-53.sky.zip

12 Mar 2023 17:14:48,620 INFO : to: file:///data/labkey/files/Panorama%20Public/2023/IIT%20Bombay%20Proteomics%20-%20IL-17A%20Keratinocyte/@files/IL17A_keratinocyte_MRM_final_2023-03-07_10-13-53.sky.zip

12 Mar 2023 17:14:48,622 INFO : Updating dataFileUrl...

12 Mar 2023 17:14:48,622 INFO : from: file:///data/apache-tomcat/instance/panoramaweb/temp/Pipeline_temp/IIT%20Bombay%20Proteomics%20-%20IL-17A%20Keratinocyte_f2b05238-a360-103b-8de3-fea6ddf5390e/_temp__2023-03-12_17-12-50/export/xar/experiments_and_runs.xar.exploded/Run152710/IL17A_keratinocyte_MRM_final_2023-03-07_10-13-53/IL17A_keratinocyte_MRM_final.skyd

12 Mar 2023 17:14:48,622 INFO : to: file:///data/labkey/files/Panorama%20Public/2023/IIT%20Bombay%20Proteomics%20-%20IL-17A%20Keratinocyte/@files/IL17A_keratinocyte_MRM_final_2023-03-07_10-13-53/IL17A_keratinocyte_MRM_final.skyd

12 Mar 2023 17:14:48,627 INFO : Hiding the Data Pipeline tab.

12 Mar 2023 17:14:48,632 INFO : Updating Submission. Setting copiedExperimentId to 1595

12 Mar 2023 17:14:48,633 INFO : Deleting old folder /Panorama Public/2023/IIT Bombay Proteomics - IL-17A Keratinocyte V.1

12 Mar 2023 17:14:51,120 INFO : Successfully completed task 'org.labkey.panoramapublic.pipeline.CopyExperimentFinalTask'