Copying experiment: Serum Alpha-2-Macroglobulin Links Type 1 Diabetes Status and Incident Cardiovascular Disease

UW Shao Lab - CACTI_serum

Job Status

Created: 2024-07-18 07:38:54
Modified: 2024-07-18 07:40:46
Email: vsharma@uw.edu
Status: COMPLETE
Info:
Description: Copying experiment: Serum Alpha-2-Macroglobulin Links Type 1 Diabetes Status and Incident Cardiovascular Disease
File Path: /data/labkey/files/Panorama Public/2024/UW Shao Lab - CACTI_serum/@files/Experiment_1963.log
Files: Experiment_1963.log
Completed Runs: CACTI_serumproteins_PRM_15N-APOA1_2024-07-17_17-51-17.sky.zip
CACTI_serumproteins_PRM_2024-07-17_17-27-16.sky.zip

Log File


18 Jul 2024 07:38:54,048 INFO : Copying experiment "Serum Alpha-2-Macroglobulin Links Type 1 Diabetes Status and Incident Cardiovascular Disease" from folder /UW - Shao Lab/CACTI_serum to /Panorama Public/2024/UW Shao Lab - CACTI_serum
18 Jul 2024 07:38:54,048 INFO : =======================================
18 Jul 2024 07:39:23,869 INFO : Starting to run task 'org.labkey.panoramapublic.pipeline.ExperimentExportTask' at location 'webserver-high-priority'
18 Jul 2024 07:39:23,869 INFO :
18 Jul 2024 07:39:23,869 INFO : Exporting experiment.
18 Jul 2024 07:39:44,724 INFO : Exporting files metadata.
18 Jul 2024 07:39:44,892 INFO :
18 Jul 2024 07:39:44,892 INFO : Experiment export completed successfully.
18 Jul 2024 07:39:44,892 INFO : Successfully completed task 'org.labkey.panoramapublic.pipeline.ExperimentExportTask'
18 Jul 2024 07:39:44,915 INFO : Starting to run task 'org.labkey.panoramapublic.pipeline.ExperimentImportTask' at location 'webserver-high-priority'
18 Jul 2024 07:39:44,915 INFO :
18 Jul 2024 07:39:44,915 INFO : Importing experiment.
18 Jul 2024 07:39:44,918 INFO : Loading folder properties (folder type, settings and active modules)
18 Jul 2024 07:39:45,039 INFO : Done importing folder properties (folder type, settings and active modules)
18 Jul 2024 07:39:45,040 INFO : Loading container specific module properties
18 Jul 2024 07:39:45,045 INFO : Done importing container specific module properties
18 Jul 2024 07:39:45,046 INFO : Loading queries
18 Jul 2024 07:39:45,048 INFO : 1 query imported
18 Jul 2024 07:39:45,048 INFO : Done importing queries
18 Jul 2024 07:39:45,049 INFO : Loading etl definitions
18 Jul 2024 07:39:45,050 INFO : Loading wikis
18 Jul 2024 07:39:45,052 INFO : 0 wikis imported
18 Jul 2024 07:39:45,052 INFO : Done importing wikis
18 Jul 2024 07:39:45,053 INFO : Starting Data Class Importer
18 Jul 2024 07:39:45,053 INFO : No types XAR file to process.
18 Jul 2024 07:39:45,053 INFO : Finished Data Class Importer
18 Jul 2024 07:39:45,053 INFO : Starting to copy files
18 Jul 2024 07:39:45,054 INFO : Copied 0 files
18 Jul 2024 07:39:45,054 INFO : Ensuring exp.data rows exist for imported files
18 Jul 2024 07:39:45,133 INFO : Starting Sample Type Importer
18 Jul 2024 07:39:45,133 INFO : No types XAR file to process.
18 Jul 2024 07:39:45,133 INFO : Finished Sample Type Importer
18 Jul 2024 07:39:45,134 INFO : Loading xar
18 Jul 2024 07:39:49,338 INFO : Starting import from CACTI_serumproteins_PRM_2024-07-17_17-27-16.sky.zip
18 Jul 2024 07:39:49,340 INFO : Starting to import Skyline document from CACTI_serumproteins_PRM_2024-07-17_17-27-16.sky.zip
18 Jul 2024 07:39:49,350 INFO : Expanding CACTI_serumproteins_PRM.skyd
18 Jul 2024 07:39:51,116 INFO : Expanding CACTI_serumproteins_PRM.sky.view
18 Jul 2024 07:39:51,117 INFO : Expanding CACTI_serumproteins_PRM.sky
18 Jul 2024 07:39:51,332 INFO : Reading Skyline file, CACTI_serumproteins_PRM.sky, to determine if the TransitionChromInfos in the document should be stored...
18 Jul 2024 07:39:51,560 INFO : TransitionChromInfo counts or precursor counts are within the allowed limits. TransitionChromInfos will be stored
18 Jul 2024 07:39:51,565 INFO : 1% Done
18 Jul 2024 07:39:54,828 INFO : Inserting sp|P01023|A2MG_HUMAN
18 Jul 2024 07:39:54,942 INFO : 2% Done
18 Jul 2024 07:39:55,459 INFO : 4% Done
18 Jul 2024 07:39:55,843 INFO : Inserting sp|P02760|AMBP_HUMAN
18 Jul 2024 07:39:56,183 INFO : 6% Done
18 Jul 2024 07:39:56,822 INFO : 7% Done
18 Jul 2024 07:39:57,300 INFO : 9% Done
18 Jul 2024 07:39:57,630 INFO : Inserting sp|P02647|APOA1_HUMAN
18 Jul 2024 07:39:57,715 INFO : 10% Done
18 Jul 2024 07:39:58,019 INFO : 11% Done
18 Jul 2024 07:39:58,319 INFO : 12% Done
18 Jul 2024 07:39:58,649 INFO : 13% Done
18 Jul 2024 07:39:58,933 INFO : 14% Done
18 Jul 2024 07:39:59,175 INFO : Inserting sp|P02652|APOA2_HUMAN
18 Jul 2024 07:39:59,419 INFO : 16% Done
18 Jul 2024 07:39:59,904 INFO : 17% Done
18 Jul 2024 07:40:00,156 INFO : Inserting sp|P06727|APOA4_HUMAN
18 Jul 2024 07:40:00,375 INFO : 19% Done
18 Jul 2024 07:40:00,938 INFO : 20% Done
18 Jul 2024 07:40:01,359 INFO : 21% Done
18 Jul 2024 07:40:01,686 INFO : 22% Done
18 Jul 2024 07:40:02,039 INFO : 23% Done
18 Jul 2024 07:40:02,283 INFO : Inserting APOB_IAEL
18 Jul 2024 07:40:02,434 INFO : 25% Done
18 Jul 2024 07:40:02,759 INFO : Inserting sp|P04114|APOB_HUMAN
18 Jul 2024 07:40:03,259 INFO : 26% Done
18 Jul 2024 07:40:03,765 INFO : 28% Done
18 Jul 2024 07:40:04,289 INFO : 29% Done
18 Jul 2024 07:40:04,600 INFO : 30% Done
18 Jul 2024 07:40:04,864 INFO : 31% Done
18 Jul 2024 07:40:05,074 INFO : Inserting sp|P02654|APOC1_HUMAN
18 Jul 2024 07:40:05,122 INFO : 32% Done
18 Jul 2024 07:40:05,458 INFO : Inserting APOC2_TAAQ
18 Jul 2024 07:40:05,493 INFO : 33% Done
18 Jul 2024 07:40:05,663 INFO : Inserting sp|P02655|APOC2_HUMAN
18 Jul 2024 07:40:05,711 INFO : 34% Done
18 Jul 2024 07:40:05,960 INFO : 35% Done
18 Jul 2024 07:40:06,170 INFO : Inserting sp|P02656|APOC3_HUMAN
18 Jul 2024 07:40:06,296 INFO : 37% Done
18 Jul 2024 07:40:06,872 INFO : Inserting sp|P55056|APOC4_HUMAN
18 Jul 2024 07:40:06,910 INFO : 38% Done
18 Jul 2024 07:40:07,074 INFO : Inserting APOE_LQAE
18 Jul 2024 07:40:07,099 INFO : 39% Done
18 Jul 2024 07:40:07,243 INFO : Inserting sp|P02649|APOE_HUMAN
18 Jul 2024 07:40:07,596 INFO : 42% Done
18 Jul 2024 07:40:08,466 INFO : 43% Done
18 Jul 2024 07:40:08,713 INFO : 44% Done
18 Jul 2024 07:40:08,954 INFO : Inserting APOL1_VAQE
18 Jul 2024 07:40:08,980 INFO : 45% Done
18 Jul 2024 07:40:09,126 INFO : Inserting sp|O14791|APOL1_HUMAN
18 Jul 2024 07:40:09,250 INFO : 46% Done
18 Jul 2024 07:40:09,583 INFO : 47% Done
18 Jul 2024 07:40:09,824 INFO : 48% Done
18 Jul 2024 07:40:10,022 INFO : Inserting APOM_AFLL
18 Jul 2024 07:40:10,139 INFO : Inserting sp|O95445|APOM_HUMAN
18 Jul 2024 07:40:10,289 INFO : 50% Done
18 Jul 2024 07:40:10,813 INFO : Inserting sp|P61769|B2MG_HUMAN
18 Jul 2024 07:40:11,100 INFO : 52% Done
18 Jul 2024 07:40:11,625 INFO : 53% Done
18 Jul 2024 07:40:11,867 INFO : Inserting CETP_GVSL
18 Jul 2024 07:40:11,945 INFO : 54% Done
18 Jul 2024 07:40:12,181 INFO : Inserting sp|P11597|CETP_HUMAN
18 Jul 2024 07:40:12,239 INFO : 55% Done
18 Jul 2024 07:40:12,528 INFO : 56% Done
18 Jul 2024 07:40:12,777 INFO : Inserting sp|P00739|HPTR_HUMAN
18 Jul 2024 07:40:12,874 INFO : 57% Done
18 Jul 2024 07:40:13,134 INFO : Inserting IGF2_GIVE
18 Jul 2024 07:40:13,159 INFO : 58% Done
18 Jul 2024 07:40:13,308 INFO : Inserting sp|P01344|IGF2_HUMAN
18 Jul 2024 07:40:13,336 INFO : 59% Done
18 Jul 2024 07:40:13,619 INFO : 60% Done
18 Jul 2024 07:40:13,915 INFO : Inserting sp|Q14624|ITIH4_HUMAN
18 Jul 2024 07:40:13,996 INFO : 61% Done
18 Jul 2024 07:40:14,251 INFO : 62% Done
18 Jul 2024 07:40:14,428 INFO : 63% Done
18 Jul 2024 07:40:14,627 INFO : Inserting LCAT_STEL
18 Jul 2024 07:40:14,719 INFO : 64% Done
18 Jul 2024 07:40:14,978 INFO : Inserting LCAT_TYSV
18 Jul 2024 07:40:15,021 INFO : 65% Done
18 Jul 2024 07:40:15,205 INFO : Inserting sp|P04180|LCAT_HUMAN
18 Jul 2024 07:40:15,273 INFO : 66% Done
18 Jul 2024 07:40:15,542 INFO : 67% Done
18 Jul 2024 07:40:15,725 INFO : Inserting sp|P08519|APOA_HUMAN
18 Jul 2024 07:40:15,902 INFO : 68% Done
18 Jul 2024 07:40:16,239 INFO : Inserting PLG_EAQL
18 Jul 2024 07:40:16,319 INFO : 69% Done
18 Jul 2024 07:40:16,559 INFO : Inserting sp|P00747|PLMN_HUMAN
18 Jul 2024 07:40:16,658 INFO : 71% Done
18 Jul 2024 07:40:17,073 INFO : 72% Done
18 Jul 2024 07:40:17,320 INFO : Inserting PLTP_AVEP
18 Jul 2024 07:40:17,376 INFO : 73% Done
18 Jul 2024 07:40:17,646 INFO : Inserting sp|P55058|PLTP_HUMAN
18 Jul 2024 07:40:17,733 INFO : 74% Done
18 Jul 2024 07:40:18,023 INFO : Inserting PON1_SFNP
18 Jul 2024 07:40:18,207 INFO : Inserting sp|P27169|PON1_HUMAN
18 Jul 2024 07:40:18,857 INFO : 76% Done
18 Jul 2024 07:40:19,327 INFO : 77% Done
18 Jul 2024 07:40:19,535 INFO : Inserting PON3_ILIG
18 Jul 2024 07:40:19,685 INFO : 79% Done
18 Jul 2024 07:40:20,008 INFO : Inserting sp|Q15166|PON3_HUMAN
18 Jul 2024 07:40:20,333 INFO : 81% Done
18 Jul 2024 07:40:20,656 INFO : Inserting PTGDS_AQGF
18 Jul 2024 07:40:20,771 INFO : 82% Done
18 Jul 2024 07:40:21,064 INFO : Inserting sp|P02753|RET4_HUMAN
18 Jul 2024 07:40:21,138 INFO : 83% Done
18 Jul 2024 07:40:21,818 INFO : 85% Done
18 Jul 2024 07:40:22,656 INFO : 86% Done
18 Jul 2024 07:40:23,054 INFO : Inserting sp|P0DJI8|SAA1_HUMAN
18 Jul 2024 07:40:23,217 INFO : 88% Done
18 Jul 2024 07:40:23,897 INFO : 89% Done
18 Jul 2024 07:40:25,100 INFO : 92% Done
18 Jul 2024 07:40:25,711 INFO : Inserting sp|P01009|A1AT_HUMAN
18 Jul 2024 07:40:25,995 INFO : 94% Done
18 Jul 2024 07:40:26,355 INFO : 95% Done
18 Jul 2024 07:40:27,190 INFO : 97% Done
18 Jul 2024 07:40:27,854 INFO : 98% Done
18 Jul 2024 07:40:28,045 INFO : Done parsing Skyline document.
18 Jul 2024 07:40:28,046 INFO : Creating and populating temp tables for Proportion values
18 Jul 2024 07:40:28,102 INFO : Setting PrecursorModifiedAreaProportion values on precursorchrominfo
18 Jul 2024 07:40:28,923 INFO : Setting ModifiedAreaProportion values on generalmoleculechrominfo
18 Jul 2024 07:40:29,502 INFO : Cleaning up temp tables
18 Jul 2024 07:40:29,809 INFO : Completed import of Skyline document from CACTI_serumproteins_PRM_2024-07-17_17-27-16.sky.zip
18 Jul 2024 07:40:29,811 INFO : 100% Done
18 Jul 2024 07:40:29,817 INFO : Starting import from CACTI_serumproteins_PRM_15N-APOA1_2024-07-17_17-51-17.sky.zip
18 Jul 2024 07:40:29,819 INFO : Starting to import Skyline document from CACTI_serumproteins_PRM_15N-APOA1_2024-07-17_17-51-17.sky.zip
18 Jul 2024 07:40:29,829 INFO : Expanding CACTI_serumproteomics_proton.blib
18 Jul 2024 07:40:29,964 INFO : Expanding CACTI_serumproteins_PRM_15N-APOA1.skyd
18 Jul 2024 07:40:30,246 INFO : Expanding CACTI_serumproteins_PRM_15N-APOA1.sky.view
18 Jul 2024 07:40:30,247 INFO : Expanding CACTI_serumproteins_PRM_15N-APOA1.sky
18 Jul 2024 07:40:30,289 INFO : Reading Skyline file, CACTI_serumproteins_PRM_15N-APOA1.sky, to determine if the TransitionChromInfos in the document should be stored...
18 Jul 2024 07:40:30,347 INFO : TransitionChromInfo counts or precursor counts are within the allowed limits. TransitionChromInfos will be stored
18 Jul 2024 07:40:30,354 INFO : 2% Done
18 Jul 2024 07:40:31,975 INFO : Inserting mature_APOA1
18 Jul 2024 07:40:32,228 INFO : 24% Done
18 Jul 2024 07:40:33,381 INFO : 42% Done
18 Jul 2024 07:40:34,463 INFO : 63% Done
18 Jul 2024 07:40:36,057 INFO : 98% Done
18 Jul 2024 07:40:37,474 INFO : Done parsing Skyline document.
18 Jul 2024 07:40:37,475 INFO : Creating and populating temp tables for Proportion values
18 Jul 2024 07:40:37,484 INFO : Setting PrecursorModifiedAreaProportion values on precursorchrominfo
18 Jul 2024 07:40:37,552 INFO : Setting ModifiedAreaProportion values on generalmoleculechrominfo
18 Jul 2024 07:40:37,575 INFO : Cleaning up temp tables
18 Jul 2024 07:40:37,882 INFO : Completed import of Skyline document from CACTI_serumproteins_PRM_15N-APOA1_2024-07-17_17-51-17.sky.zip
18 Jul 2024 07:40:37,884 INFO : 100% Done
18 Jul 2024 07:40:37,894 INFO : Done importing xar
18 Jul 2024 07:40:37,895 INFO : Loading pages and webpart properties
18 Jul 2024 07:40:37,964 INFO : Done importing 3 page(s) with 5 webpart(s)
18 Jul 2024 07:40:37,964 INFO : Loading File Browser config
18 Jul 2024 07:40:37,964 INFO : Done importing File Browser config
18 Jul 2024 07:40:37,966 INFO : Starting Sample Status Data import
18 Jul 2024 07:40:37,966 INFO : No sample types XAR file to process.
18 Jul 2024 07:40:37,966 INFO : Finished importing Sample Status Data
18 Jul 2024 07:40:37,972 INFO : Starting data import from QCAnnotationType.tsv into targetedms.QCAnnotationType
18 Jul 2024 07:40:37,973 INFO : A row containing [Name: 'Reagent Change', Description: 'null', Color: '800000'] values already exists. Skipping
18 Jul 2024 07:40:37,974 INFO : A row containing [Name: 'Instrumentation Change', Description: 'null', Color: 'FF0000'] values already exists. Skipping
18 Jul 2024 07:40:37,974 INFO : A row containing [Name: 'Technician Change', Description: 'null', Color: '0000FF'] values already exists. Skipping
18 Jul 2024 07:40:37,975 INFO : A row containing [Name: 'Instrument Downtime', Description: 'null', Color: 'CCCC00'] values already exists. Skipping
18 Jul 2024 07:40:37,975 INFO : Finished importing 0 rows from QCAnnotationType.tsv into targetedms.QCAnnotationType
18 Jul 2024 07:40:37,977 INFO : Creating a new TargetedMS experiment entry in panoramapublic.ExperimentAnnotations.
18 Jul 2024 07:40:37,984 INFO : Moving files to folder /Panorama Public/2024/UW Shao Lab - CACTI_serum and creating symlinks
18 Jul 2024 07:40:38,780 INFO : Aligning data files urls in folder: /Panorama Public/2024/UW Shao Lab - CACTI_serum
18 Jul 2024 07:40:38,790 INFO : Importing files metadata.
18 Jul 2024 07:40:38,791 INFO :
18 Jul 2024 07:40:38,791 INFO : Experiment import completed successfully.
18 Jul 2024 07:40:38,791 INFO : Successfully completed task 'org.labkey.panoramapublic.pipeline.ExperimentImportTask'
18 Jul 2024 07:40:38,811 INFO : Starting to run task 'org.labkey.panoramapublic.pipeline.CopyLibraryStateTask' at location 'webserver-high-priority'
18 Jul 2024 07:40:38,811 INFO :
18 Jul 2024 07:40:38,812 INFO : Checking for library folders.
18 Jul 2024 07:40:38,813 INFO : Successfully completed task 'org.labkey.panoramapublic.pipeline.CopyLibraryStateTask'
18 Jul 2024 07:40:38,831 INFO : Starting to run task 'org.labkey.panoramapublic.pipeline.CopyExperimentFinalTask' at location 'webserver-high-priority'
18 Jul 2024 07:40:38,831 INFO :
18 Jul 2024 07:40:38,831 INFO : Finishing up experiment copy.
18 Jul 2024 07:40:38,832 INFO : Updating TargetedMS experiment entry in target folder /Panorama Public/2024/UW Shao Lab - CACTI_serum
18 Jul 2024 07:40:38,833 INFO : Setting version on new experiment to 1
18 Jul 2024 07:40:38,836 INFO : Updating permanent link to point to the new copy of the data.
18 Jul 2024 07:40:38,865 INFO : Removing copy permissions given to Panorama Public
18 Jul 2024 07:40:38,868 INFO : Adding read permissions to all users that are folder admins in the source folder.
18 Jul 2024 07:40:38,869 INFO : Assigning ReaderRole to bhshao@uw.edu
18 Jul 2024 07:40:38,869 INFO : Assigning PanoramaPublicSubmitterRole to bhshao@uw.edu
18 Jul 2024 07:40:38,873 INFO : User bhshao@uw.edu is already a member of group Panorama Public Submitters
18 Jul 2024 07:40:38,873 INFO : Updating the 'Raw Data' tab configuration
18 Jul 2024 07:40:38,874 INFO : Creating a reviewer account.
18 Jul 2024 07:40:38,951 INFO : Created reviewer with email: panorama+reviewer278@proteinms.net
18 Jul 2024 07:40:38,951 INFO : Generating password.
18 Jul 2024 07:40:39,085 INFO : Set reviewer password successfully.
18 Jul 2024 07:40:39,093 INFO : Adding user panorama+reviewer278@proteinms.net to group Reviewers
18 Jul 2024 07:40:39,095 INFO : Hiding the Data Pipeline tab.
18 Jul 2024 07:40:39,100 INFO : Updating Submission. Setting copiedExperimentId to 1874
18 Jul 2024 07:40:41,054 INFO : Assigning a ProteomeXchange ID.
18 Jul 2024 07:40:45,832 INFO : Assigned ProteomeXchange ID: PXD054039
18 Jul 2024 07:40:45,832 INFO : Assigning a DOI.
18 Jul 2024 07:40:46,687 INFO : Assigned DOI: 10.6069/w68t-3s89
18 Jul 2024 07:40:46,805 INFO : Successfully completed task 'org.labkey.panoramapublic.pipeline.CopyExperimentFinalTask'