Copying experiment: Absolute abundance of human crystallins in lens

OHSU Proteomics Shared Resource - Crystallin abundance measurement in lens

Job Status

Created: 2024-07-11 10:17:30
Modified: 2024-07-11 11:02:07
Email: vsharma@uw.edu
Status: COMPLETE
Info:
Description: Copying experiment: Absolute abundance of human crystallins in lens
File Path: /data/labkey/files/Panorama Public/2024/OHSU Proteomics Shared Resource - Crystallin abundance measurement in lens/@files/Experiment_1953.log
Files: Experiment_1953.log
Completed Runs: 3_month_mouse_aA_crystallins_OE_7-3-24_2024-07-10_13-05-04.sky.zip
human_15N_crystallins_4_lenses_4_repeats_6-25-24_2024-07-04_10-39-20.sky.zip
human_15N_crystallins_ratios_6-25-24_2024-07-03_16-24-35.sky.zip
crystallin_std_quant_light_bb2_7-9-24_V2_2024-07-09_22-41-26.sky.zip

Log File


11 Jul 2024 10:17:30,712 INFO : Copying experiment "Absolute abundance of human crystallins in lens" from folder /OHSU - Proteomics Shared Resource/PSR Projects/Larry David Projects/Crystallin abundance measurement in lens to /Panorama Public/2024/OHSU Proteomics Shared Resource - Crystallin abundance measurement in lens
11 Jul 2024 10:17:30,712 INFO : =======================================
11 Jul 2024 11:00:49,542 INFO : Starting to run task 'org.labkey.panoramapublic.pipeline.ExperimentExportTask' at location 'webserver-high-priority'
11 Jul 2024 11:00:49,542 INFO :
11 Jul 2024 11:00:49,542 INFO : Exporting experiment.
11 Jul 2024 11:01:30,037 INFO : Exporting files metadata.
11 Jul 2024 11:01:30,106 INFO :
11 Jul 2024 11:01:30,106 INFO : Experiment export completed successfully.
11 Jul 2024 11:01:30,106 INFO : Successfully completed task 'org.labkey.panoramapublic.pipeline.ExperimentExportTask'
11 Jul 2024 11:01:30,129 INFO : Starting to run task 'org.labkey.panoramapublic.pipeline.ExperimentImportTask' at location 'webserver-high-priority'
11 Jul 2024 11:01:30,129 INFO :
11 Jul 2024 11:01:30,129 INFO : Importing experiment.
11 Jul 2024 11:01:30,131 INFO : Loading folder properties (folder type, settings and active modules)
11 Jul 2024 11:01:30,198 INFO : Done importing folder properties (folder type, settings and active modules)
11 Jul 2024 11:01:30,199 INFO : Loading container specific module properties
11 Jul 2024 11:01:30,202 INFO : Done importing container specific module properties
11 Jul 2024 11:01:30,204 INFO : Loading queries
11 Jul 2024 11:01:30,206 INFO : 1 query imported
11 Jul 2024 11:01:30,206 INFO : Done importing queries
11 Jul 2024 11:01:30,207 INFO : Loading etl definitions
11 Jul 2024 11:01:30,208 INFO : Loading wikis
11 Jul 2024 11:01:30,209 INFO : 0 wikis imported
11 Jul 2024 11:01:30,210 INFO : Done importing wikis
11 Jul 2024 11:01:30,211 INFO : Starting Data Class Importer
11 Jul 2024 11:01:30,211 INFO : No types XAR file to process.
11 Jul 2024 11:01:30,211 INFO : Finished Data Class Importer
11 Jul 2024 11:01:30,212 INFO : Starting to copy files
11 Jul 2024 11:01:30,212 INFO : Copied 0 files
11 Jul 2024 11:01:30,212 INFO : Ensuring exp.data rows exist for imported files
11 Jul 2024 11:01:30,482 INFO : Starting Sample Type Importer
11 Jul 2024 11:01:30,482 INFO : No types XAR file to process.
11 Jul 2024 11:01:30,482 INFO : Finished Sample Type Importer
11 Jul 2024 11:01:30,483 INFO : Loading xar
11 Jul 2024 11:01:30,507 INFO : Done importing xar
11 Jul 2024 11:01:30,508 INFO : Loading pages and webpart properties
11 Jul 2024 11:01:30,571 INFO : Done importing 3 page(s) with 5 webpart(s)
11 Jul 2024 11:01:30,571 INFO : Loading File Browser config
11 Jul 2024 11:01:30,571 INFO : Done importing File Browser config
11 Jul 2024 11:01:30,573 INFO : Starting Sample Status Data import
11 Jul 2024 11:01:30,573 INFO : No sample types XAR file to process.
11 Jul 2024 11:01:30,573 INFO : Finished importing Sample Status Data
11 Jul 2024 11:01:30,579 INFO : Starting data import from QCAnnotationType.tsv into targetedms.QCAnnotationType
11 Jul 2024 11:01:30,581 INFO : A row containing [Name: 'Reagent Change', Description: 'null', Color: '800000'] values already exists. Skipping
11 Jul 2024 11:01:30,582 INFO : A row containing [Name: 'Instrumentation Change', Description: 'null', Color: 'FF0000'] values already exists. Skipping
11 Jul 2024 11:01:30,583 INFO : A row containing [Name: 'Technician Change', Description: 'null', Color: '0000FF'] values already exists. Skipping
11 Jul 2024 11:01:30,583 INFO : A row containing [Name: 'Instrument Downtime', Description: 'null', Color: 'CCCC00'] values already exists. Skipping
11 Jul 2024 11:01:30,583 INFO : Finished importing 0 rows from QCAnnotationType.tsv into targetedms.QCAnnotationType
11 Jul 2024 11:01:30,585 INFO : Loading subfolders and container tabs
11 Jul 2024 11:01:30,660 INFO : New folder created with inherited permissions: /Panorama Public/2024/OHSU Proteomics Shared Resource - Crystallin abundance measurement in lens/aA quantitation in WT and N101D mice
11 Jul 2024 11:01:30,660 INFO : Loading folder archive for aA quantitation in WT and N101D mice
11 Jul 2024 11:01:30,669 INFO : Loading folder properties (folder type, settings and active modules)
11 Jul 2024 11:01:30,731 INFO : Done importing folder properties (folder type, settings and active modules)
11 Jul 2024 11:01:30,732 INFO : Loading container specific module properties
11 Jul 2024 11:01:30,736 INFO : Done importing container specific module properties
11 Jul 2024 11:01:30,737 INFO : Loading queries
11 Jul 2024 11:01:30,740 INFO : 1 query imported
11 Jul 2024 11:01:30,740 INFO : Done importing queries
11 Jul 2024 11:01:30,741 INFO : Loading etl definitions
11 Jul 2024 11:01:30,742 INFO : Loading wikis
11 Jul 2024 11:01:30,743 INFO : 0 wikis imported
11 Jul 2024 11:01:30,743 INFO : Done importing wikis
11 Jul 2024 11:01:30,744 INFO : Starting Data Class Importer
11 Jul 2024 11:01:30,744 INFO : No types XAR file to process.
11 Jul 2024 11:01:30,744 INFO : Finished Data Class Importer
11 Jul 2024 11:01:30,745 INFO : Starting to copy files
11 Jul 2024 11:01:30,745 INFO : Copied 0 files
11 Jul 2024 11:01:30,745 INFO : Ensuring exp.data rows exist for imported files
11 Jul 2024 11:01:30,750 INFO : Starting Sample Type Importer
11 Jul 2024 11:01:30,750 INFO : No types XAR file to process.
11 Jul 2024 11:01:30,750 INFO : Finished Sample Type Importer
11 Jul 2024 11:01:30,751 INFO : Loading xar
11 Jul 2024 11:01:31,452 INFO : Starting import from 3_month_mouse_aA_crystallins_OE_7-3-24_2024-07-10_13-05-04.sky.zip
11 Jul 2024 11:01:31,455 INFO : Starting to import Skyline document from 3_month_mouse_aA_crystallins_OE_7-3-24_2024-07-10_13-05-04.sky.zip
11 Jul 2024 11:01:31,456 INFO : Expanding mouse_Eclipse.blib
11 Jul 2024 11:01:31,566 INFO : Expanding mouse_Eclipse.redundant.blib
11 Jul 2024 11:01:31,670 INFO : Expanding 3_month_mouse_aA_crystallins_OE_7-3-24.skyd
11 Jul 2024 11:01:31,967 INFO : Expanding 3_month_mouse_aA_crystallins_OE_7-3-24.sky.view
11 Jul 2024 11:01:31,968 INFO : Expanding 3_month_mouse_aA_crystallins_OE_7-3-24.sky
11 Jul 2024 11:01:31,974 INFO : Reading Skyline file, 3_month_mouse_aA_crystallins_OE_7-3-24.sky, to determine if the TransitionChromInfos in the document should be stored...
11 Jul 2024 11:01:31,982 INFO : TransitionChromInfo counts or precursor counts are within the allowed limits. TransitionChromInfos will be stored
11 Jul 2024 11:01:31,985 INFO : 2% Done
11 Jul 2024 11:01:32,275 INFO : Inserting sp|P02489|CRYAA_HUMAN
11 Jul 2024 11:01:32,287 INFO : 9% Done
11 Jul 2024 11:01:32,335 INFO : 16% Done
11 Jul 2024 11:01:32,377 INFO : 23% Done
11 Jul 2024 11:01:32,420 INFO : 29% Done
11 Jul 2024 11:01:32,460 INFO : 36% Done
11 Jul 2024 11:01:32,499 INFO : 43% Done
11 Jul 2024 11:01:32,544 INFO : 50% Done
11 Jul 2024 11:01:32,581 INFO : Inserting Decoys
11 Jul 2024 11:01:32,587 INFO : 57% Done
11 Jul 2024 11:01:32,614 INFO : 64% Done
11 Jul 2024 11:01:32,638 INFO : 71% Done
11 Jul 2024 11:01:32,657 INFO : 77% Done
11 Jul 2024 11:01:32,679 INFO : 84% Done
11 Jul 2024 11:01:32,700 INFO : 91% Done
11 Jul 2024 11:01:32,721 INFO : 98% Done
11 Jul 2024 11:01:32,742 INFO : Done parsing Skyline document.
11 Jul 2024 11:01:32,743 INFO : Creating and populating temp tables for Proportion values
11 Jul 2024 11:01:32,749 INFO : Setting PrecursorModifiedAreaProportion values on precursorchrominfo
11 Jul 2024 11:01:32,805 INFO : Setting ModifiedAreaProportion values on generalmoleculechrominfo
11 Jul 2024 11:01:32,812 INFO : Cleaning up temp tables
11 Jul 2024 11:01:33,079 INFO : Completed import of Skyline document from 3_month_mouse_aA_crystallins_OE_7-3-24_2024-07-10_13-05-04.sky.zip
11 Jul 2024 11:01:33,082 INFO : 100% Done
11 Jul 2024 11:01:33,090 INFO : Done importing xar
11 Jul 2024 11:01:33,091 INFO : Loading pages and webpart properties
11 Jul 2024 11:01:33,154 INFO : Done importing 3 page(s) with 5 webpart(s)
11 Jul 2024 11:01:33,154 INFO : Loading File Browser config
11 Jul 2024 11:01:33,154 INFO : Done importing File Browser config
11 Jul 2024 11:01:33,155 INFO : Starting Sample Status Data import
11 Jul 2024 11:01:33,156 INFO : No sample types XAR file to process.
11 Jul 2024 11:01:33,156 INFO : Finished importing Sample Status Data
11 Jul 2024 11:01:33,160 INFO : Starting data import from QCAnnotationType.tsv into targetedms.QCAnnotationType
11 Jul 2024 11:01:33,163 INFO : A row containing [Name: 'Reagent Change', Description: 'null', Color: '800000'] values already exists. Skipping
11 Jul 2024 11:01:33,163 INFO : A row containing [Name: 'Instrumentation Change', Description: 'null', Color: 'FF0000'] values already exists. Skipping
11 Jul 2024 11:01:33,164 INFO : A row containing [Name: 'Technician Change', Description: 'null', Color: '0000FF'] values already exists. Skipping
11 Jul 2024 11:01:33,164 INFO : A row containing [Name: 'Instrument Downtime', Description: 'null', Color: 'CCCC00'] values already exists. Skipping
11 Jul 2024 11:01:33,164 INFO : Finished importing 0 rows from QCAnnotationType.tsv into targetedms.QCAnnotationType
11 Jul 2024 11:01:33,166 INFO : Creating a new TargetedMS experiment entry in panoramapublic.ExperimentAnnotations.
11 Jul 2024 11:01:33,171 INFO : Adding runs imported in subfolders.
11 Jul 2024 11:01:33,181 INFO : Moving files to folder /Panorama Public/2024/OHSU Proteomics Shared Resource - Crystallin abundance measurement in lens/aA quantitation in WT and N101D mice and creating symlinks
11 Jul 2024 11:01:33,252 INFO : Aligning data files urls in folder: /Panorama Public/2024/OHSU Proteomics Shared Resource - Crystallin abundance measurement in lens/aA quantitation in WT and N101D mice
11 Jul 2024 11:01:33,260 INFO : Done importing folder archive for aA quantitation in WT and N101D mice
11 Jul 2024 11:01:33,316 INFO : New folder created with inherited permissions: /Panorama Public/2024/OHSU Proteomics Shared Resource - Crystallin abundance measurement in lens/Crystallin quantification 4 human lenses
11 Jul 2024 11:01:33,316 INFO : Loading folder archive for Crystallin quantification 4 human lenses
11 Jul 2024 11:01:33,318 INFO : Loading folder properties (folder type, settings and active modules)
11 Jul 2024 11:01:33,377 INFO : Done importing folder properties (folder type, settings and active modules)
11 Jul 2024 11:01:33,378 INFO : Loading container specific module properties
11 Jul 2024 11:01:33,381 INFO : Done importing container specific module properties
11 Jul 2024 11:01:33,382 INFO : Loading queries
11 Jul 2024 11:01:33,385 INFO : 1 query imported
11 Jul 2024 11:01:33,385 INFO : Done importing queries
11 Jul 2024 11:01:33,386 INFO : Loading etl definitions
11 Jul 2024 11:01:33,387 INFO : Loading wikis
11 Jul 2024 11:01:33,388 INFO : 0 wikis imported
11 Jul 2024 11:01:33,389 INFO : Done importing wikis
11 Jul 2024 11:01:33,390 INFO : Starting Data Class Importer
11 Jul 2024 11:01:33,390 INFO : No types XAR file to process.
11 Jul 2024 11:01:33,390 INFO : Finished Data Class Importer
11 Jul 2024 11:01:33,391 INFO : Starting to copy files
11 Jul 2024 11:01:33,391 INFO : Copied 0 files
11 Jul 2024 11:01:33,391 INFO : Ensuring exp.data rows exist for imported files
11 Jul 2024 11:01:33,396 INFO : Starting Sample Type Importer
11 Jul 2024 11:01:33,396 INFO : No types XAR file to process.
11 Jul 2024 11:01:33,396 INFO : Finished Sample Type Importer
11 Jul 2024 11:01:33,397 INFO : Loading xar
11 Jul 2024 11:01:37,480 INFO : Starting import from human_15N_crystallins_4_lenses_4_repeats_6-25-24_2024-07-04_10-39-20.sky.zip
11 Jul 2024 11:01:37,483 INFO : Starting to import Skyline document from human_15N_crystallins_4_lenses_4_repeats_6-25-24_2024-07-04_10-39-20.sky.zip
11 Jul 2024 11:01:37,493 INFO : Expanding 2021.09_Mus-musculus_UP000000589_10090+human_alphaA.protdb
11 Jul 2024 11:01:40,418 INFO : Expanding human_lens_Eclipse_DDA.blib
11 Jul 2024 11:01:40,457 INFO : Expanding human_lens_Eclipse_DDA.redundant.blib
11 Jul 2024 11:01:40,508 INFO : Expanding human_15N_crystallins_4_lenses_4_repeats_6-25-24.skyd
11 Jul 2024 11:01:41,704 INFO : Expanding human_15N_crystallins_4_lenses_4_repeats_6-25-24.sky.view
11 Jul 2024 11:01:41,705 INFO : Expanding human_15N_crystallins_4_lenses_4_repeats_6-25-24.sky
11 Jul 2024 11:01:41,735 INFO : Reading Skyline file, human_15N_crystallins_4_lenses_4_repeats_6-25-24.sky, to determine if the TransitionChromInfos in the document should be stored...
11 Jul 2024 11:01:41,780 INFO : TransitionChromInfo counts or precursor counts are within the allowed limits. TransitionChromInfos will be stored
11 Jul 2024 11:01:42,547 INFO : Inserting Human_CRYAA
11 Jul 2024 11:01:42,559 INFO : 2% Done
11 Jul 2024 11:01:42,616 INFO : 3% Done
11 Jul 2024 11:01:42,668 INFO : 5% Done
11 Jul 2024 11:01:42,723 INFO : 6% Done
11 Jul 2024 11:01:42,776 INFO : 8% Done
11 Jul 2024 11:01:42,830 INFO : 9% Done
11 Jul 2024 11:01:42,875 INFO : Inserting sp|P02511|CRYAB_HUMAN
11 Jul 2024 11:01:42,885 INFO : 10% Done
11 Jul 2024 11:01:42,937 INFO : 12% Done
11 Jul 2024 11:01:42,989 INFO : 13% Done
11 Jul 2024 11:01:43,041 INFO : 15% Done
11 Jul 2024 11:01:43,084 INFO : Inserting sp|P05813|CRBA1_HUMAN
11 Jul 2024 11:01:43,096 INFO : 16% Done
11 Jul 2024 11:01:43,152 INFO : 17% Done
11 Jul 2024 11:01:43,209 INFO : 19% Done
11 Jul 2024 11:01:43,263 INFO : 20% Done
11 Jul 2024 11:01:43,316 INFO : 22% Done
11 Jul 2024 11:01:43,361 INFO : Inserting sp|P07315|CRGC_HUMAN
11 Jul 2024 11:01:43,372 INFO : 23% Done
11 Jul 2024 11:01:43,424 INFO : 24% Done
11 Jul 2024 11:01:43,473 INFO : 25% Done
11 Jul 2024 11:01:43,528 INFO : 26% Done
11 Jul 2024 11:01:43,574 INFO : Inserting sp|P07316|CRGB_HUMAN
11 Jul 2024 11:01:43,586 INFO : 27% Done
11 Jul 2024 11:01:43,643 INFO : 29% Done
11 Jul 2024 11:01:43,689 INFO : Inserting sp|P07320|CRGD_HUMAN
11 Jul 2024 11:01:43,700 INFO : 30% Done
11 Jul 2024 11:01:43,755 INFO : 32% Done
11 Jul 2024 11:01:43,809 INFO : 33% Done
11 Jul 2024 11:01:43,863 INFO : 34% Done
11 Jul 2024 11:01:43,908 INFO : Inserting sp|P11844|CRGA_HUMAN
11 Jul 2024 11:01:43,920 INFO : 36% Done
11 Jul 2024 11:01:43,976 INFO : 37% Done
11 Jul 2024 11:01:44,031 INFO : 39% Done
11 Jul 2024 11:01:44,085 INFO : 40% Done
11 Jul 2024 11:01:44,129 INFO : Inserting sp|P22914|CRYGS_HUMAN
11 Jul 2024 11:01:44,140 INFO : 41% Done
11 Jul 2024 11:01:44,194 INFO : 43% Done
11 Jul 2024 11:01:44,248 INFO : 44% Done
11 Jul 2024 11:01:44,302 INFO : 46% Done
11 Jul 2024 11:01:44,356 INFO : 47% Done
11 Jul 2024 11:01:44,403 INFO : Inserting sp|P26998|CRBB3_HUMAN
11 Jul 2024 11:01:44,415 INFO : 49% Done
11 Jul 2024 11:01:44,468 INFO : 50% Done
11 Jul 2024 11:01:44,523 INFO : 51% Done
11 Jul 2024 11:01:44,576 INFO : 53% Done
11 Jul 2024 11:01:44,631 INFO : 54% Done
11 Jul 2024 11:01:44,685 INFO : 55% Done
11 Jul 2024 11:01:44,738 INFO : 57% Done
11 Jul 2024 11:01:44,791 INFO : 58% Done
11 Jul 2024 11:01:44,836 INFO : Inserting sp|P43320|CRBB2_HUMAN
11 Jul 2024 11:01:44,848 INFO : 60% Done
11 Jul 2024 11:01:44,906 INFO : 61% Done
11 Jul 2024 11:01:44,960 INFO : 63% Done
11 Jul 2024 11:01:45,014 INFO : 64% Done
11 Jul 2024 11:01:45,067 INFO : 65% Done
11 Jul 2024 11:01:45,122 INFO : 67% Done
11 Jul 2024 11:01:45,175 INFO : 68% Done
11 Jul 2024 11:01:45,229 INFO : 70% Done
11 Jul 2024 11:01:45,282 INFO : 71% Done
11 Jul 2024 11:01:45,328 INFO : Inserting sp|P53672|CRBA2_HUMAN
11 Jul 2024 11:01:45,339 INFO : 72% Done
11 Jul 2024 11:01:45,392 INFO : 74% Done
11 Jul 2024 11:01:45,487 INFO : Inserting sp|P53673|CRBA4_HUMAN
11 Jul 2024 11:01:45,498 INFO : 76% Done
11 Jul 2024 11:01:45,551 INFO : 77% Done
11 Jul 2024 11:01:45,606 INFO : 78% Done
11 Jul 2024 11:01:45,661 INFO : 80% Done
11 Jul 2024 11:01:45,714 INFO : 81% Done
11 Jul 2024 11:01:45,767 INFO : 83% Done
11 Jul 2024 11:01:45,821 INFO : 84% Done
11 Jul 2024 11:01:45,866 INFO : Inserting sp|P53674|CRBB1_HUMAN
11 Jul 2024 11:01:45,877 INFO : 85% Done
11 Jul 2024 11:01:45,929 INFO : 87% Done
11 Jul 2024 11:01:45,982 INFO : 88% Done
11 Jul 2024 11:01:46,034 INFO : 90% Done
11 Jul 2024 11:01:46,086 INFO : 91% Done
11 Jul 2024 11:01:46,139 INFO : 92% Done
11 Jul 2024 11:01:46,194 INFO : 94% Done
11 Jul 2024 11:01:46,248 INFO : 95% Done
11 Jul 2024 11:01:46,301 INFO : 97% Done
11 Jul 2024 11:01:46,354 INFO : 98% Done
11 Jul 2024 11:01:46,399 INFO : Inserting Decoys
11 Jul 2024 11:01:46,400 INFO : Done parsing Skyline document.
11 Jul 2024 11:01:46,401 INFO : Creating and populating temp tables for Proportion values
11 Jul 2024 11:01:46,411 INFO : Setting PrecursorModifiedAreaProportion values on precursorchrominfo
11 Jul 2024 11:01:46,497 INFO : Setting ModifiedAreaProportion values on generalmoleculechrominfo
11 Jul 2024 11:01:46,531 INFO : Cleaning up temp tables
11 Jul 2024 11:01:46,818 INFO : Completed import of Skyline document from human_15N_crystallins_4_lenses_4_repeats_6-25-24_2024-07-04_10-39-20.sky.zip
11 Jul 2024 11:01:46,820 INFO : 100% Done
11 Jul 2024 11:01:46,831 INFO : Done importing xar
11 Jul 2024 11:01:46,832 INFO : Loading pages and webpart properties
11 Jul 2024 11:01:46,893 INFO : Done importing 3 page(s) with 5 webpart(s)
11 Jul 2024 11:01:46,893 INFO : Loading File Browser config
11 Jul 2024 11:01:46,893 INFO : Done importing File Browser config
11 Jul 2024 11:01:46,894 INFO : Starting Sample Status Data import
11 Jul 2024 11:01:46,894 INFO : No sample types XAR file to process.
11 Jul 2024 11:01:46,894 INFO : Finished importing Sample Status Data
11 Jul 2024 11:01:46,899 INFO : Starting data import from QCAnnotationType.tsv into targetedms.QCAnnotationType
11 Jul 2024 11:01:46,901 INFO : A row containing [Name: 'Reagent Change', Description: 'null', Color: '800000'] values already exists. Skipping
11 Jul 2024 11:01:46,901 INFO : A row containing [Name: 'Instrumentation Change', Description: 'null', Color: 'FF0000'] values already exists. Skipping
11 Jul 2024 11:01:46,902 INFO : A row containing [Name: 'Technician Change', Description: 'null', Color: '0000FF'] values already exists. Skipping
11 Jul 2024 11:01:46,902 INFO : A row containing [Name: 'Instrument Downtime', Description: 'null', Color: 'CCCC00'] values already exists. Skipping
11 Jul 2024 11:01:46,902 INFO : Finished importing 0 rows from QCAnnotationType.tsv into targetedms.QCAnnotationType
11 Jul 2024 11:01:46,903 INFO : Moving files to folder /Panorama Public/2024/OHSU Proteomics Shared Resource - Crystallin abundance measurement in lens/Crystallin quantification 4 human lenses and creating symlinks
11 Jul 2024 11:01:46,992 INFO : Aligning data files urls in folder: /Panorama Public/2024/OHSU Proteomics Shared Resource - Crystallin abundance measurement in lens/Crystallin quantification 4 human lenses
11 Jul 2024 11:01:46,997 INFO : Done importing folder archive for Crystallin quantification 4 human lenses
11 Jul 2024 11:01:47,090 INFO : New folder created with inherited permissions: /Panorama Public/2024/OHSU Proteomics Shared Resource - Crystallin abundance measurement in lens/Linearity of measurement
11 Jul 2024 11:01:47,090 INFO : Loading folder archive for Linearity of measurement
11 Jul 2024 11:01:47,091 INFO : Loading folder properties (folder type, settings and active modules)
11 Jul 2024 11:01:47,186 INFO : Done importing folder properties (folder type, settings and active modules)
11 Jul 2024 11:01:47,188 INFO : Loading container specific module properties
11 Jul 2024 11:01:47,191 INFO : Done importing container specific module properties
11 Jul 2024 11:01:47,192 INFO : Loading queries
11 Jul 2024 11:01:47,195 INFO : 1 query imported
11 Jul 2024 11:01:47,195 INFO : Done importing queries
11 Jul 2024 11:01:47,196 INFO : Loading etl definitions
11 Jul 2024 11:01:47,197 INFO : Loading wikis
11 Jul 2024 11:01:47,198 INFO : 0 wikis imported
11 Jul 2024 11:01:47,199 INFO : Done importing wikis
11 Jul 2024 11:01:47,200 INFO : Starting Data Class Importer
11 Jul 2024 11:01:47,200 INFO : No types XAR file to process.
11 Jul 2024 11:01:47,200 INFO : Finished Data Class Importer
11 Jul 2024 11:01:47,201 INFO : Starting to copy files
11 Jul 2024 11:01:47,201 INFO : Copied 0 files
11 Jul 2024 11:01:47,201 INFO : Ensuring exp.data rows exist for imported files
11 Jul 2024 11:01:47,206 INFO : Starting Sample Type Importer
11 Jul 2024 11:01:47,206 INFO : No types XAR file to process.
11 Jul 2024 11:01:47,206 INFO : Finished Sample Type Importer
11 Jul 2024 11:01:47,207 INFO : Loading xar
11 Jul 2024 11:01:50,570 INFO : Starting import from human_15N_crystallins_ratios_6-25-24_2024-07-03_16-24-35.sky.zip
11 Jul 2024 11:01:50,573 INFO : Starting to import Skyline document from human_15N_crystallins_ratios_6-25-24_2024-07-03_16-24-35.sky.zip
11 Jul 2024 11:01:50,574 INFO : Expanding 2021.09_Mus-musculus_UP000000589_10090+human_alphaA.protdb
11 Jul 2024 11:01:53,416 INFO : Expanding human_lens_Eclipse_DDA.blib
11 Jul 2024 11:01:53,456 INFO : Expanding human_lens_Eclipse_DDA.redundant.blib
11 Jul 2024 11:01:53,509 INFO : Expanding human_15N_crystallins_ratios_6-25-24.skyd
11 Jul 2024 11:01:54,578 INFO : Expanding human_15N_crystallins_ratios_6-25-24.sky.view
11 Jul 2024 11:01:54,579 INFO : Expanding human_15N_crystallins_ratios_6-25-24.sky
11 Jul 2024 11:01:54,598 INFO : Reading Skyline file, human_15N_crystallins_ratios_6-25-24.sky, to determine if the TransitionChromInfos in the document should be stored...
11 Jul 2024 11:01:54,638 INFO : TransitionChromInfo counts or precursor counts are within the allowed limits. TransitionChromInfos will be stored
11 Jul 2024 11:01:54,641 INFO : 1% Done
11 Jul 2024 11:01:55,445 INFO : Inserting Human_CRYAA
11 Jul 2024 11:01:55,455 INFO : 2% Done
11 Jul 2024 11:01:55,497 INFO : 3% Done
11 Jul 2024 11:01:55,534 INFO : 5% Done
11 Jul 2024 11:01:55,570 INFO : 6% Done
11 Jul 2024 11:01:55,606 INFO : 8% Done
11 Jul 2024 11:01:55,642 INFO : 9% Done
11 Jul 2024 11:01:55,671 INFO : Inserting sp|P02511|CRYAB_HUMAN
11 Jul 2024 11:01:55,678 INFO : 10% Done
11 Jul 2024 11:01:55,712 INFO : 12% Done
11 Jul 2024 11:01:55,745 INFO : 13% Done
11 Jul 2024 11:01:55,777 INFO : 15% Done
11 Jul 2024 11:01:55,805 INFO : Inserting sp|P05813|CRBA1_HUMAN
11 Jul 2024 11:01:55,812 INFO : 16% Done
11 Jul 2024 11:01:55,847 INFO : 17% Done
11 Jul 2024 11:01:55,882 INFO : 19% Done
11 Jul 2024 11:01:55,916 INFO : 20% Done
11 Jul 2024 11:01:55,950 INFO : 22% Done
11 Jul 2024 11:01:55,979 INFO : Inserting sp|P07315|CRGC_HUMAN
11 Jul 2024 11:01:55,987 INFO : 23% Done
11 Jul 2024 11:01:56,021 INFO : 24% Done
11 Jul 2024 11:01:56,054 INFO : 25% Done
11 Jul 2024 11:01:56,089 INFO : 26% Done
11 Jul 2024 11:01:56,118 INFO : Inserting sp|P07316|CRGB_HUMAN
11 Jul 2024 11:01:56,126 INFO : 28% Done
11 Jul 2024 11:01:56,161 INFO : 29% Done
11 Jul 2024 11:01:56,191 INFO : Inserting sp|P07320|CRGD_HUMAN
11 Jul 2024 11:01:56,199 INFO : 30% Done
11 Jul 2024 11:01:56,236 INFO : 32% Done
11 Jul 2024 11:01:56,273 INFO : 33% Done
11 Jul 2024 11:01:56,309 INFO : 35% Done
11 Jul 2024 11:01:56,339 INFO : Inserting sp|P11844|CRGA_HUMAN
11 Jul 2024 11:01:56,347 INFO : 36% Done
11 Jul 2024 11:01:56,385 INFO : 37% Done
11 Jul 2024 11:01:56,419 INFO : 39% Done
11 Jul 2024 11:01:56,452 INFO : 40% Done
11 Jul 2024 11:01:56,481 INFO : Inserting sp|P22914|CRYGS_HUMAN
11 Jul 2024 11:01:56,489 INFO : 42% Done
11 Jul 2024 11:01:56,522 INFO : 43% Done
11 Jul 2024 11:01:56,558 INFO : 44% Done
11 Jul 2024 11:01:56,594 INFO : 46% Done
11 Jul 2024 11:01:56,629 INFO : 47% Done
11 Jul 2024 11:01:56,659 INFO : Inserting sp|P26998|CRBB3_HUMAN
11 Jul 2024 11:01:56,667 INFO : 49% Done
11 Jul 2024 11:01:56,703 INFO : 50% Done
11 Jul 2024 11:01:56,737 INFO : 51% Done
11 Jul 2024 11:01:56,771 INFO : 53% Done
11 Jul 2024 11:01:56,807 INFO : 54% Done
11 Jul 2024 11:01:56,847 INFO : 56% Done
11 Jul 2024 11:01:56,892 INFO : 57% Done
11 Jul 2024 11:01:56,938 INFO : 58% Done
11 Jul 2024 11:01:56,980 INFO : Inserting sp|P43320|CRBB2_HUMAN
11 Jul 2024 11:01:56,989 INFO : 60% Done
11 Jul 2024 11:01:57,035 INFO : 61% Done
11 Jul 2024 11:01:57,081 INFO : 63% Done
11 Jul 2024 11:01:57,124 INFO : 64% Done
11 Jul 2024 11:01:57,164 INFO : 65% Done
11 Jul 2024 11:01:57,202 INFO : 67% Done
11 Jul 2024 11:01:57,238 INFO : 68% Done
11 Jul 2024 11:01:57,272 INFO : 70% Done
11 Jul 2024 11:01:57,309 INFO : 71% Done
11 Jul 2024 11:01:57,339 INFO : Inserting sp|P53672|CRBA2_HUMAN
11 Jul 2024 11:01:57,347 INFO : 72% Done
11 Jul 2024 11:01:57,383 INFO : 74% Done
11 Jul 2024 11:01:57,450 INFO : Inserting sp|P53673|CRBA4_HUMAN
11 Jul 2024 11:01:57,459 INFO : 76% Done
11 Jul 2024 11:01:57,495 INFO : 77% Done
11 Jul 2024 11:01:57,532 INFO : 78% Done
11 Jul 2024 11:01:57,570 INFO : 80% Done
11 Jul 2024 11:01:57,606 INFO : 81% Done
11 Jul 2024 11:01:57,642 INFO : 83% Done
11 Jul 2024 11:01:57,680 INFO : 84% Done
11 Jul 2024 11:01:57,716 INFO : Inserting sp|P53674|CRBB1_HUMAN
11 Jul 2024 11:01:57,724 INFO : 85% Done
11 Jul 2024 11:01:57,767 INFO : 87% Done
11 Jul 2024 11:01:57,811 INFO : 88% Done
11 Jul 2024 11:01:57,854 INFO : 90% Done
11 Jul 2024 11:01:57,896 INFO : 91% Done
11 Jul 2024 11:01:57,938 INFO : 92% Done
11 Jul 2024 11:01:57,977 INFO : 94% Done
11 Jul 2024 11:01:58,018 INFO : 95% Done
11 Jul 2024 11:01:58,058 INFO : 97% Done
11 Jul 2024 11:01:58,099 INFO : 98% Done
11 Jul 2024 11:01:58,133 INFO : Done parsing Skyline document.
11 Jul 2024 11:01:58,134 INFO : Creating and populating temp tables for Proportion values
11 Jul 2024 11:01:58,143 INFO : Setting PrecursorModifiedAreaProportion values on precursorchrominfo
11 Jul 2024 11:01:58,233 INFO : Setting ModifiedAreaProportion values on generalmoleculechrominfo
11 Jul 2024 11:01:58,254 INFO : Cleaning up temp tables
11 Jul 2024 11:01:58,528 INFO : Completed import of Skyline document from human_15N_crystallins_ratios_6-25-24_2024-07-03_16-24-35.sky.zip
11 Jul 2024 11:01:58,531 INFO : 100% Done
11 Jul 2024 11:01:58,542 INFO : Done importing xar
11 Jul 2024 11:01:58,544 INFO : Loading pages and webpart properties
11 Jul 2024 11:01:58,609 INFO : Done importing 3 page(s) with 5 webpart(s)
11 Jul 2024 11:01:58,609 INFO : Loading File Browser config
11 Jul 2024 11:01:58,609 INFO : Done importing File Browser config
11 Jul 2024 11:01:58,610 INFO : Starting Sample Status Data import
11 Jul 2024 11:01:58,610 INFO : No sample types XAR file to process.
11 Jul 2024 11:01:58,610 INFO : Finished importing Sample Status Data
11 Jul 2024 11:01:58,616 INFO : Starting data import from QCAnnotationType.tsv into targetedms.QCAnnotationType
11 Jul 2024 11:01:58,618 INFO : A row containing [Name: 'Reagent Change', Description: 'null', Color: '800000'] values already exists. Skipping
11 Jul 2024 11:01:58,619 INFO : A row containing [Name: 'Instrumentation Change', Description: 'null', Color: 'FF0000'] values already exists. Skipping
11 Jul 2024 11:01:58,619 INFO : A row containing [Name: 'Technician Change', Description: 'null', Color: '0000FF'] values already exists. Skipping
11 Jul 2024 11:01:58,620 INFO : A row containing [Name: 'Instrument Downtime', Description: 'null', Color: 'CCCC00'] values already exists. Skipping
11 Jul 2024 11:01:58,620 INFO : Finished importing 0 rows from QCAnnotationType.tsv into targetedms.QCAnnotationType
11 Jul 2024 11:01:58,621 INFO : Moving files to folder /Panorama Public/2024/OHSU Proteomics Shared Resource - Crystallin abundance measurement in lens/Linearity of measurement and creating symlinks
11 Jul 2024 11:01:58,674 INFO : Aligning data files urls in folder: /Panorama Public/2024/OHSU Proteomics Shared Resource - Crystallin abundance measurement in lens/Linearity of measurement
11 Jul 2024 11:01:58,681 INFO : Done importing folder archive for Linearity of measurement
11 Jul 2024 11:01:58,737 INFO : New folder created with inherited permissions: /Panorama Public/2024/OHSU Proteomics Shared Resource - Crystallin abundance measurement in lens/Quantitation of 15N labeled standards
11 Jul 2024 11:01:58,737 INFO : Loading folder archive for Quantitation of 15N labeled standards
11 Jul 2024 11:01:58,738 INFO : Loading folder properties (folder type, settings and active modules)
11 Jul 2024 11:01:58,798 INFO : Done importing folder properties (folder type, settings and active modules)
11 Jul 2024 11:01:58,799 INFO : Loading container specific module properties
11 Jul 2024 11:01:58,803 INFO : Done importing container specific module properties
11 Jul 2024 11:01:58,804 INFO : Loading queries
11 Jul 2024 11:01:58,807 INFO : 1 query imported
11 Jul 2024 11:01:58,807 INFO : Done importing queries
11 Jul 2024 11:01:58,808 INFO : Loading etl definitions
11 Jul 2024 11:01:58,809 INFO : Loading wikis
11 Jul 2024 11:01:58,811 INFO : 0 wikis imported
11 Jul 2024 11:01:58,811 INFO : Done importing wikis
11 Jul 2024 11:01:58,812 INFO : Starting Data Class Importer
11 Jul 2024 11:01:58,812 INFO : No types XAR file to process.
11 Jul 2024 11:01:58,812 INFO : Finished Data Class Importer
11 Jul 2024 11:01:58,813 INFO : Starting to copy files
11 Jul 2024 11:01:58,813 INFO : Copied 0 files
11 Jul 2024 11:01:58,813 INFO : Ensuring exp.data rows exist for imported files
11 Jul 2024 11:01:58,819 INFO : Starting Sample Type Importer
11 Jul 2024 11:01:58,819 INFO : No types XAR file to process.
11 Jul 2024 11:01:58,819 INFO : Finished Sample Type Importer
11 Jul 2024 11:01:58,820 INFO : Loading xar
11 Jul 2024 11:01:59,930 INFO : Starting import from crystallin_std_quant_light_bb2_7-9-24_V2_2024-07-09_22-41-26.sky.zip
11 Jul 2024 11:01:59,933 INFO : Starting to import Skyline document from crystallin_std_quant_light_bb2_7-9-24_V2_2024-07-09_22-41-26.sky.zip
11 Jul 2024 11:01:59,941 INFO : Expanding 2024.03_UP000000625_83333_EscherichiaColi_canonical+SUMO.protdb
11 Jul 2024 11:02:00,338 INFO : Expanding Sumo_digest.blib
11 Jul 2024 11:02:00,355 INFO : Expanding Sumo_digest.redundant.blib
11 Jul 2024 11:02:00,384 INFO : Expanding crystallin_std_quant_light_bb2_7-9-24_V2.skyd
11 Jul 2024 11:02:00,835 INFO : Expanding crystallin_std_quant_light_bb2_7-9-24_V2.sky.view
11 Jul 2024 11:02:00,836 INFO : Expanding crystallin_std_quant_light_bb2_7-9-24_V2.sky
11 Jul 2024 11:02:00,839 INFO : Reading Skyline file, crystallin_std_quant_light_bb2_7-9-24_V2.sky, to determine if the TransitionChromInfos in the document should be stored...
11 Jul 2024 11:02:00,843 INFO : TransitionChromInfo counts or precursor counts are within the allowed limits. TransitionChromInfos will be stored
11 Jul 2024 11:02:00,846 INFO : 8% Done
11 Jul 2024 11:02:01,089 INFO : Inserting SUMO
11 Jul 2024 11:02:01,108 INFO : 54% Done
11 Jul 2024 11:02:01,240 INFO : 98% Done
11 Jul 2024 11:02:01,351 INFO : Done parsing Skyline document.
11 Jul 2024 11:02:01,352 INFO : Creating and populating temp tables for Proportion values
11 Jul 2024 11:02:01,357 INFO : Setting PrecursorModifiedAreaProportion values on precursorchrominfo
11 Jul 2024 11:02:01,376 INFO : Setting ModifiedAreaProportion values on generalmoleculechrominfo
11 Jul 2024 11:02:01,379 INFO : Cleaning up temp tables
11 Jul 2024 11:02:01,636 INFO : Completed import of Skyline document from crystallin_std_quant_light_bb2_7-9-24_V2_2024-07-09_22-41-26.sky.zip
11 Jul 2024 11:02:01,638 INFO : 100% Done
11 Jul 2024 11:02:01,649 INFO : Done importing xar
11 Jul 2024 11:02:01,650 INFO : Loading pages and webpart properties
11 Jul 2024 11:02:01,713 INFO : Done importing 3 page(s) with 5 webpart(s)
11 Jul 2024 11:02:01,713 INFO : Loading File Browser config
11 Jul 2024 11:02:01,714 INFO : Done importing File Browser config
11 Jul 2024 11:02:01,715 INFO : Starting Sample Status Data import
11 Jul 2024 11:02:01,715 INFO : No sample types XAR file to process.
11 Jul 2024 11:02:01,715 INFO : Finished importing Sample Status Data
11 Jul 2024 11:02:01,720 INFO : Starting data import from QCAnnotationType.tsv into targetedms.QCAnnotationType
11 Jul 2024 11:02:01,723 INFO : A row containing [Name: 'Reagent Change', Description: 'null', Color: '800000'] values already exists. Skipping
11 Jul 2024 11:02:01,723 INFO : A row containing [Name: 'Instrumentation Change', Description: 'null', Color: 'FF0000'] values already exists. Skipping
11 Jul 2024 11:02:01,724 INFO : A row containing [Name: 'Technician Change', Description: 'null', Color: '0000FF'] values already exists. Skipping
11 Jul 2024 11:02:01,724 INFO : A row containing [Name: 'Instrument Downtime', Description: 'null', Color: 'CCCC00'] values already exists. Skipping
11 Jul 2024 11:02:01,724 INFO : Finished importing 0 rows from QCAnnotationType.tsv into targetedms.QCAnnotationType
11 Jul 2024 11:02:01,725 INFO : Moving files to folder /Panorama Public/2024/OHSU Proteomics Shared Resource - Crystallin abundance measurement in lens/Quantitation of 15N labeled standards and creating symlinks
11 Jul 2024 11:02:01,876 INFO : Aligning data files urls in folder: /Panorama Public/2024/OHSU Proteomics Shared Resource - Crystallin abundance measurement in lens/Quantitation of 15N labeled standards
11 Jul 2024 11:02:01,883 INFO : Done importing folder archive for Quantitation of 15N labeled standards
11 Jul 2024 11:02:01,883 INFO : Done importing subfolders and container tabs
11 Jul 2024 11:02:01,884 INFO : Moving files to folder /Panorama Public/2024/OHSU Proteomics Shared Resource - Crystallin abundance measurement in lens and creating symlinks
11 Jul 2024 11:02:01,975 INFO : Aligning data files urls in folder: /Panorama Public/2024/OHSU Proteomics Shared Resource - Crystallin abundance measurement in lens
11 Jul 2024 11:02:01,977 INFO : Importing files metadata.
11 Jul 2024 11:02:01,992 INFO :
11 Jul 2024 11:02:01,992 INFO : Experiment import completed successfully.
11 Jul 2024 11:02:01,992 INFO : Successfully completed task 'org.labkey.panoramapublic.pipeline.ExperimentImportTask'
11 Jul 2024 11:02:02,014 INFO : Starting to run task 'org.labkey.panoramapublic.pipeline.CopyLibraryStateTask' at location 'webserver-high-priority'
11 Jul 2024 11:02:02,014 INFO :
11 Jul 2024 11:02:02,014 INFO : Checking for library folders.
11 Jul 2024 11:02:02,018 INFO : Successfully completed task 'org.labkey.panoramapublic.pipeline.CopyLibraryStateTask'
11 Jul 2024 11:02:02,036 INFO : Starting to run task 'org.labkey.panoramapublic.pipeline.CopyExperimentFinalTask' at location 'webserver-high-priority'
11 Jul 2024 11:02:02,036 INFO :
11 Jul 2024 11:02:02,036 INFO : Finishing up experiment copy.
11 Jul 2024 11:02:02,037 INFO : Updating TargetedMS experiment entry in target folder /Panorama Public/2024/OHSU Proteomics Shared Resource - Crystallin abundance measurement in lens
11 Jul 2024 11:02:02,038 INFO : Setting version on new experiment to 1
11 Jul 2024 11:02:02,041 INFO : Updating permanent link to point to the new copy of the data.
11 Jul 2024 11:02:02,065 INFO : Removing copy permissions given to Panorama Public
11 Jul 2024 11:02:02,078 INFO : Adding read permissions to all users that are folder admins in the source folder.
11 Jul 2024 11:02:02,079 INFO : Assigning ReaderRole to zientek@ohsu.edu
11 Jul 2024 11:02:02,079 INFO : Assigning ReaderRole to davidl@ohsu.edu
11 Jul 2024 11:02:02,079 INFO : Assigning ReaderRole to reddyas@ohsu.edu
11 Jul 2024 11:02:02,079 INFO : Assigning PanoramaPublicSubmitterRole to davidl@ohsu.edu
11 Jul 2024 11:02:02,086 INFO : Adding user davidl@ohsu.edu to group Panorama Public Submitters
11 Jul 2024 11:02:02,087 INFO : Updating the 'Raw Data' tab configuration
11 Jul 2024 11:02:02,091 INFO : Creating a reviewer account.
11 Jul 2024 11:02:02,168 INFO : Created reviewer with email: panorama+reviewer276@proteinms.net
11 Jul 2024 11:02:02,168 INFO : Generating password.
11 Jul 2024 11:02:02,309 INFO : Set reviewer password successfully.
11 Jul 2024 11:02:02,317 INFO : Adding user panorama+reviewer276@proteinms.net to group Reviewers
11 Jul 2024 11:02:02,318 INFO : Hiding the Data Pipeline tab.
11 Jul 2024 11:02:02,337 INFO : Updating Submission. Setting copiedExperimentId to 1870
11 Jul 2024 11:02:06,125 INFO : Assigning a ProteomeXchange ID.
11 Jul 2024 11:02:07,018 INFO : Assigned ProteomeXchange ID: PXD053890
11 Jul 2024 11:02:07,018 INFO : Assigning a DOI.
11 Jul 2024 11:02:07,734 INFO : Assigned DOI: 10.6069/4b63-nt93
11 Jul 2024 11:02:07,870 INFO : Successfully completed task 'org.labkey.panoramapublic.pipeline.CopyExperimentFinalTask'