Copying experiment: Regulation of adaptive growth decisions via phosphorylation of the TRAPPII complex in Arabidopsis.

BayBioMS - Assaad_BIN2_TRAPPII

Job Status

Created: 2023-08-08 14:26:30
Modified: 2023-08-08 14:27:38
Email: vsharma@uw.edu
Status: COMPLETE
Info:
Description: Copying experiment: Regulation of adaptive growth decisions via phosphorylation of the TRAPPII complex in Arabidopsis.
File Path: /data/labkey/files/Panorama Public/2023/BayBioMS - Assaad_BIN2_TRAPPII/@files/Experiment_1741.log
Files: Experiment_1741.log
Completed Runs: SK32_2023-07-24_18-54-55.sky.zip
PPZ_2023-07-25_18-59-00.sky.zip
SK11_2023-07-25_22-42-03.sky.zip
BIL2_2023-07-24_18-07-49.sky.zip
BIN2_2023-07-25_18-41-34.sky.zip
Bikinin_2023-07-25_21-42-04.sky.zip

Log File


08 Aug 2023 14:26:30,284 INFO : Copying experiment "Regulation of adaptive growth decisions via phosphorylation of the TRAPPII complex in Arabidopsis." from folder /BayBioMS/Assaad_BIN2_TRAPPII to /Panorama Public/2023/BayBioMS - Assaad_BIN2_TRAPPII
08 Aug 2023 14:26:30,284 INFO : =======================================
08 Aug 2023 14:26:30,317 INFO : Starting to run task 'org.labkey.panoramapublic.pipeline.ExperimentExportTask' at location 'webserver-high-priority'
08 Aug 2023 14:26:30,317 INFO :
08 Aug 2023 14:26:30,317 INFO : Exporting experiment.
08 Aug 2023 14:27:08,549 INFO : Exporting files metadata.
08 Aug 2023 14:27:08,678 INFO :
08 Aug 2023 14:27:08,678 INFO : Experiment export completed successfully.
08 Aug 2023 14:27:08,678 INFO : Successfully completed task 'org.labkey.panoramapublic.pipeline.ExperimentExportTask'
08 Aug 2023 14:27:08,699 INFO : Starting to run task 'org.labkey.panoramapublic.pipeline.ExperimentImportTask' at location 'webserver-high-priority'
08 Aug 2023 14:27:08,700 INFO :
08 Aug 2023 14:27:08,700 INFO : Importing experiment.
08 Aug 2023 14:27:08,702 INFO : Loading folder properties (folder type, settings and active modules)
08 Aug 2023 14:27:08,763 INFO : Done importing folder properties (folder type, settings and active modules)
08 Aug 2023 14:27:08,764 INFO : Loading container specific module properties
08 Aug 2023 14:27:08,767 INFO : Done importing container specific module properties
08 Aug 2023 14:27:08,768 INFO : Loading etl definitions
08 Aug 2023 14:27:08,769 INFO : Loading wikis
08 Aug 2023 14:27:08,770 INFO : 0 wikis imported
08 Aug 2023 14:27:08,770 INFO : Done importing wikis
08 Aug 2023 14:27:08,772 INFO : Starting Data Class Importer
08 Aug 2023 14:27:08,772 INFO : No types XAR file to process.
08 Aug 2023 14:27:08,772 INFO : Finished Data Class Importer
08 Aug 2023 14:27:08,772 INFO : Starting to copy files
08 Aug 2023 14:27:08,772 INFO : Copied 0 files
08 Aug 2023 14:27:08,772 INFO : Ensuring exp.data rows exist for imported files
08 Aug 2023 14:27:08,821 INFO : Starting Sample Type Importer
08 Aug 2023 14:27:08,821 INFO : No types XAR file to process.
08 Aug 2023 14:27:08,821 INFO : Finished Sample Type Importer
08 Aug 2023 14:27:08,822 INFO : Loading xar
08 Aug 2023 14:27:17,691 INFO : Starting import from BIL2_2023-07-24_18-07-49.sky.zip
08 Aug 2023 14:27:17,695 INFO : Starting to import Skyline document from BIL2_2023-07-24_18-07-49.sky.zip
08 Aug 2023 14:27:17,739 INFO : Expanding BIL2.blib
08 Aug 2023 14:27:17,851 INFO : Expanding BIL2.redundant.blib
08 Aug 2023 14:27:18,639 INFO : Expanding BIL2.skyd
08 Aug 2023 14:27:18,975 INFO : Expanding BIL2.sky.view
08 Aug 2023 14:27:18,977 INFO : Expanding BIL2.sky
08 Aug 2023 14:27:19,029 INFO : Expanding BIL2.skyl
08 Aug 2023 14:27:19,069 WARN : The version of this Skyline document is 22.2. This is newer than the highest supported version 22.13
08 Aug 2023 14:27:19,073 INFO : 44% Done
08 Aug 2023 14:27:19,851 INFO : 58% Done
08 Aug 2023 14:27:19,851 INFO : Inserting sp|AT5G11040.1|ATTRS120_Ara
08 Aug 2023 14:27:19,857 INFO : 79% Done
08 Aug 2023 14:27:19,863 WARN : 'skyline_analysis_only_phosphopeptides' library was not found in settings.
08 Aug 2023 14:27:19,882 INFO : 98% Done
08 Aug 2023 14:27:19,898 INFO : Done parsing Skyline document.
08 Aug 2023 14:27:19,924 INFO : Creating and populating temp tables for Proportion values
08 Aug 2023 14:27:20,009 INFO : Setting PrecursorModifiedAreaProportion values on precursorchrominfo
08 Aug 2023 14:27:20,012 INFO : Setting ModifiedAreaProportion values on generalmoleculechrominfo
08 Aug 2023 14:27:20,013 INFO : Cleaning up temp tables
08 Aug 2023 14:27:20,320 INFO : Completed import of Skyline document from BIL2_2023-07-24_18-07-49.sky.zip
08 Aug 2023 14:27:20,322 INFO : 100% Done
08 Aug 2023 14:27:20,327 INFO : Starting import from SK32_2023-07-24_18-54-55.sky.zip
08 Aug 2023 14:27:20,329 INFO : Starting to import Skyline document from SK32_2023-07-24_18-54-55.sky.zip
08 Aug 2023 14:27:20,330 INFO : Expanding SK32.blib
08 Aug 2023 14:27:20,458 INFO : Expanding SK32.redundant.blib
08 Aug 2023 14:27:21,284 INFO : Expanding SK32.skyd
08 Aug 2023 14:27:21,408 INFO : Expanding SK32.sky.view
08 Aug 2023 14:27:21,412 INFO : Expanding SK32.sky
08 Aug 2023 14:27:21,414 INFO : Expanding SK32.skyl
08 Aug 2023 14:27:21,417 WARN : The version of this Skyline document is 22.2. This is newer than the highest supported version 22.13
08 Aug 2023 14:27:21,420 INFO : 48% Done
08 Aug 2023 14:27:21,579 INFO : Inserting sp|AT5G11040.1|ATTRS120_Ara
08 Aug 2023 14:27:21,583 INFO : 78% Done
08 Aug 2023 14:27:21,604 INFO : 98% Done
08 Aug 2023 14:27:21,608 WARN : 'skyline_analysis' library was not found in settings.
08 Aug 2023 14:27:21,622 INFO : Done parsing Skyline document.
08 Aug 2023 14:27:21,691 INFO : Creating and populating temp tables for Proportion values
08 Aug 2023 14:27:21,766 INFO : Setting PrecursorModifiedAreaProportion values on precursorchrominfo
08 Aug 2023 14:27:21,768 INFO : Setting ModifiedAreaProportion values on generalmoleculechrominfo
08 Aug 2023 14:27:21,770 INFO : Cleaning up temp tables
08 Aug 2023 14:27:21,996 INFO : Completed import of Skyline document from SK32_2023-07-24_18-54-55.sky.zip
08 Aug 2023 14:27:22,000 INFO : 100% Done
08 Aug 2023 14:27:22,004 INFO : Starting import from BIN2_2023-07-25_18-41-34.sky.zip
08 Aug 2023 14:27:22,006 INFO : Starting to import Skyline document from BIN2_2023-07-25_18-41-34.sky.zip
08 Aug 2023 14:27:22,006 INFO : Expanding BIN2.blib
08 Aug 2023 14:27:22,102 INFO : Expanding BIN2.redundant.blib
08 Aug 2023 14:27:22,706 INFO : Expanding BIN2.skyd
08 Aug 2023 14:27:22,718 INFO : Expanding BIN2.sky.view
08 Aug 2023 14:27:22,719 INFO : Expanding BIN2.sky
08 Aug 2023 14:27:22,720 INFO : Expanding BIN2.skyl
08 Aug 2023 14:27:22,723 WARN : The version of this Skyline document is 22.2. This is newer than the highest supported version 22.13
08 Aug 2023 14:27:22,727 INFO : 36% Done
08 Aug 2023 14:27:22,878 INFO : Inserting sp|AT5G11040.1|ATTRS120_Ara
08 Aug 2023 14:27:22,882 INFO : 63% Done
08 Aug 2023 14:27:22,885 WARN : 'skyline_analysis_phospho2' library was not found in settings.
08 Aug 2023 14:27:22,898 INFO : 82% Done
08 Aug 2023 14:27:22,912 INFO : 98% Done
08 Aug 2023 14:27:22,924 INFO : Done parsing Skyline document.
08 Aug 2023 14:27:22,950 INFO : Creating and populating temp tables for Proportion values
08 Aug 2023 14:27:23,016 INFO : Setting PrecursorModifiedAreaProportion values on precursorchrominfo
08 Aug 2023 14:27:23,019 INFO : Setting ModifiedAreaProportion values on generalmoleculechrominfo
08 Aug 2023 14:27:23,021 INFO : Cleaning up temp tables
08 Aug 2023 14:27:23,272 INFO : Completed import of Skyline document from BIN2_2023-07-25_18-41-34.sky.zip
08 Aug 2023 14:27:23,275 INFO : 100% Done
08 Aug 2023 14:27:23,280 INFO : Starting import from PPZ_2023-07-25_18-59-00.sky.zip
08 Aug 2023 14:27:23,282 INFO : Starting to import Skyline document from PPZ_2023-07-25_18-59-00.sky.zip
08 Aug 2023 14:27:23,283 INFO : Expanding MaxQuant_COIP.blib
08 Aug 2023 14:27:23,444 INFO : Expanding MaxQuant_COIP.redundant.blib
08 Aug 2023 14:27:24,252 INFO : Expanding PPZ.skyd
08 Aug 2023 14:27:24,602 INFO : Expanding PPZ.sky.view
08 Aug 2023 14:27:24,617 INFO : Expanding PPZ.sky
08 Aug 2023 14:27:24,809 INFO : Expanding PPZ.skyl
08 Aug 2023 14:27:24,818 WARN : The version of this Skyline document is 22.2. This is newer than the highest supported version 22.13
08 Aug 2023 14:27:24,822 INFO : 4% Done
08 Aug 2023 14:27:25,125 INFO : Inserting TRS120
08 Aug 2023 14:27:25,140 INFO : 6% Done
08 Aug 2023 14:27:25,150 INFO : 7% Done
08 Aug 2023 14:27:25,161 INFO : 9% Done
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08 Aug 2023 14:27:26,494 INFO : 96% Done
08 Aug 2023 14:27:26,494 INFO : Inserting phospho_sites
08 Aug 2023 14:27:26,506 INFO : 97% Done
08 Aug 2023 14:27:26,516 INFO : 98% Done
08 Aug 2023 14:27:26,535 INFO : Done parsing Skyline document.
08 Aug 2023 14:27:26,671 INFO : Creating and populating temp tables for Proportion values
08 Aug 2023 14:27:26,751 INFO : Setting PrecursorModifiedAreaProportion values on precursorchrominfo
08 Aug 2023 14:27:26,795 INFO : Setting ModifiedAreaProportion values on generalmoleculechrominfo
08 Aug 2023 14:27:26,826 INFO : Cleaning up temp tables
08 Aug 2023 14:27:27,070 INFO : Completed import of Skyline document from PPZ_2023-07-25_18-59-00.sky.zip
08 Aug 2023 14:27:27,072 INFO : 100% Done
08 Aug 2023 14:27:27,077 INFO : Starting import from Bikinin_2023-07-25_21-42-04.sky.zip
08 Aug 2023 14:27:27,079 INFO : Starting to import Skyline document from Bikinin_2023-07-25_21-42-04.sky.zip
08 Aug 2023 14:27:27,080 INFO : Expanding P041_06_Bikinin.blib
08 Aug 2023 14:27:27,277 INFO : Expanding P041_06_Bikinin.redundant.blib
08 Aug 2023 14:27:27,958 INFO : Expanding Bikinin.skyd
08 Aug 2023 14:27:28,113 INFO : Expanding Bikinin.sky.view
08 Aug 2023 14:27:28,120 INFO : Expanding Bikinin.sky
08 Aug 2023 14:27:28,126 INFO : Expanding Bikinin.skyl
08 Aug 2023 14:27:28,144 WARN : The version of this Skyline document is 22.2. This is newer than the highest supported version 22.13
08 Aug 2023 14:27:28,148 INFO : 1% Done
08 Aug 2023 14:27:28,496 INFO : 2% Done
08 Aug 2023 14:27:28,496 INFO : Inserting AT5G11040.1
08 Aug 2023 14:27:28,509 INFO : 3% Done
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08 Aug 2023 14:27:29,347 INFO : 98% Done
08 Aug 2023 14:27:29,354 INFO : Done parsing Skyline document.
08 Aug 2023 14:27:29,377 INFO : Creating and populating temp tables for Proportion values
08 Aug 2023 14:27:29,455 INFO : Setting PrecursorModifiedAreaProportion values on precursorchrominfo
08 Aug 2023 14:27:29,496 INFO : Setting ModifiedAreaProportion values on generalmoleculechrominfo
08 Aug 2023 14:27:29,520 INFO : Cleaning up temp tables
08 Aug 2023 14:27:29,786 INFO : Completed import of Skyline document from Bikinin_2023-07-25_21-42-04.sky.zip
08 Aug 2023 14:27:29,788 INFO : 100% Done
08 Aug 2023 14:27:29,793 INFO : Starting import from SK11_2023-07-25_22-42-03.sky.zip
08 Aug 2023 14:27:29,794 INFO : Starting to import Skyline document from SK11_2023-07-25_22-42-03.sky.zip
08 Aug 2023 14:27:29,795 INFO : Expanding SK11.blib
08 Aug 2023 14:27:30,012 INFO : Expanding SK11.redundant.blib
08 Aug 2023 14:27:32,357 INFO : Expanding SK11.skyd
08 Aug 2023 14:27:33,477 INFO : Expanding SK11.sky.view
08 Aug 2023 14:27:33,478 INFO : Expanding SK11.sky
08 Aug 2023 14:27:33,481 INFO : Expanding SK11.skyl
08 Aug 2023 14:27:33,485 WARN : The version of this Skyline document is 22.2. This is newer than the highest supported version 22.13
08 Aug 2023 14:27:33,490 INFO : 46% Done
08 Aug 2023 14:27:34,862 INFO : 57% Done
08 Aug 2023 14:27:34,862 INFO : Inserting sp|AT5G11040.1|ATTRS120_Ara
08 Aug 2023 14:27:34,867 INFO : 65% Done
08 Aug 2023 14:27:34,873 WARN : 'skyline_analysis_onlyphospho_peptides3_CL' library was not found in settings.
08 Aug 2023 14:27:34,898 INFO : 73% Done
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08 Aug 2023 14:27:34,951 INFO : 98% Done
08 Aug 2023 14:27:34,978 INFO : Done parsing Skyline document.
08 Aug 2023 14:27:35,219 INFO : Creating and populating temp tables for Proportion values
08 Aug 2023 14:27:35,290 INFO : Setting PrecursorModifiedAreaProportion values on precursorchrominfo
08 Aug 2023 14:27:35,296 INFO : Setting ModifiedAreaProportion values on generalmoleculechrominfo
08 Aug 2023 14:27:35,301 INFO : Cleaning up temp tables
08 Aug 2023 14:27:35,560 INFO : Completed import of Skyline document from SK11_2023-07-25_22-42-03.sky.zip
08 Aug 2023 14:27:35,562 INFO : 100% Done
08 Aug 2023 14:27:35,589 INFO : Done importing xar
08 Aug 2023 14:27:35,591 INFO : Loading pages and webpart properties
08 Aug 2023 14:27:35,648 INFO : Done importing 3 page(s) with 7 webpart(s)
08 Aug 2023 14:27:35,648 INFO : Loading File Browser config
08 Aug 2023 14:27:35,648 INFO : Done importing File Browser config
08 Aug 2023 14:27:35,649 INFO : Starting Sample Status Data import
08 Aug 2023 14:27:35,649 INFO : No sample types XAR file to process.
08 Aug 2023 14:27:35,649 INFO : Finished importing Sample Status Data
08 Aug 2023 14:27:35,653 INFO : Starting data import from QCAnnotationType.tsv into targetedms.QCAnnotationType
08 Aug 2023 14:27:35,655 INFO : A row containing [Name: 'Reagent Change', Description: 'null', Color: '800000'] values already exists. Skipping
08 Aug 2023 14:27:35,656 INFO : A row containing [Name: 'Instrumentation Change', Description: 'null', Color: 'FF0000'] values already exists. Skipping
08 Aug 2023 14:27:35,656 INFO : A row containing [Name: 'Technician Change', Description: 'null', Color: '0000FF'] values already exists. Skipping
08 Aug 2023 14:27:35,657 INFO : A row containing [Name: 'Instrument Downtime', Description: 'null', Color: 'CCCC00'] values already exists. Skipping
08 Aug 2023 14:27:35,657 INFO : Finished importing 0 rows from QCAnnotationType.tsv into targetedms.QCAnnotationType
08 Aug 2023 14:27:35,658 INFO : Creating a new TargetedMS experiment entry in panoramapublic.ExperimentAnnotations.
08 Aug 2023 14:27:35,664 INFO : Moving files to folder /Panorama Public/2023/BayBioMS - Assaad_BIN2_TRAPPII and creating symlinks
08 Aug 2023 14:27:36,746 INFO : Aligning data files urls in folder: /Panorama Public/2023/BayBioMS - Assaad_BIN2_TRAPPII
08 Aug 2023 14:27:36,778 INFO : Importing files metadata.
08 Aug 2023 14:27:36,779 INFO :
08 Aug 2023 14:27:36,779 INFO : Experiment import completed successfully.
08 Aug 2023 14:27:36,779 INFO : Successfully completed task 'org.labkey.panoramapublic.pipeline.ExperimentImportTask'
08 Aug 2023 14:27:36,800 INFO : Starting to run task 'org.labkey.panoramapublic.pipeline.CopyLibraryStateTask' at location 'webserver-high-priority'
08 Aug 2023 14:27:36,800 INFO :
08 Aug 2023 14:27:36,800 INFO : Checking for library folders.
08 Aug 2023 14:27:36,801 INFO : Successfully completed task 'org.labkey.panoramapublic.pipeline.CopyLibraryStateTask'
08 Aug 2023 14:27:36,818 INFO : Starting to run task 'org.labkey.panoramapublic.pipeline.CopyExperimentFinalTask' at location 'webserver-high-priority'
08 Aug 2023 14:27:36,818 INFO :
08 Aug 2023 14:27:36,818 INFO : Finishing up experiment copy.
08 Aug 2023 14:27:36,822 INFO : Updating TargetedMS experiment entry in target folder /Panorama Public/2023/BayBioMS - Assaad_BIN2_TRAPPII
08 Aug 2023 14:27:36,823 INFO : Setting version on new experiment to 2
08 Aug 2023 14:27:36,825 INFO : Updating permanent link to point to the new copy of the data.
08 Aug 2023 14:27:36,827 INFO : Removing copy permissions given to Panorama Public
08 Aug 2023 14:27:36,839 INFO : Adding read permissions to all users that are folder admins in the source folder.
08 Aug 2023 14:27:36,840 INFO : Adding read permissions to all users that had read access to previous copy.
08 Aug 2023 14:27:36,840 INFO : Assigning ReaderRole to tina.ludwig@tum.de
08 Aug 2023 14:27:36,840 INFO : Assigning ReaderRole to panorama+reviewer200@proteinms.net
08 Aug 2023 14:27:36,840 INFO : Assigning PanoramaPublicSubmitterRole to tina.ludwig@tum.de
08 Aug 2023 14:27:36,848 INFO : User tina.ludwig@tum.de is already a member of group Panorama Public Submitters
08 Aug 2023 14:27:36,848 INFO : Updating the 'Raw Data' tab configuration
08 Aug 2023 14:27:36,849 INFO : Hiding the Data Pipeline tab.
08 Aug 2023 14:27:36,853 INFO : Creating a new versioned URL for the previous copy of the data: phosphoTRAPP_Ara_v1
08 Aug 2023 14:27:36,857 INFO : Setting the permanent link on the previous copy to phosphoTRAPP_Ara_v1
08 Aug 2023 14:27:36,859 INFO : Updating Submission. Setting copiedExperimentId to 1665
08 Aug 2023 14:27:38,276 INFO : Copying ProteomeXchange ID from the previous copy of the data.
08 Aug 2023 14:27:38,276 INFO : Copying DOI from the previous copy of the data.
08 Aug 2023 14:27:38,276 INFO : Removing DOI from the previous copy
08 Aug 2023 14:27:38,329 INFO : Successfully completed task 'org.labkey.panoramapublic.pipeline.CopyExperimentFinalTask'