Copying experiment: Selected reaction monitoring of dysregulated proteins in gut tissue of Labeo rohita infected with Aeromonas hydrophila

IIT Bombay Proteomics - SRM_Rohu_GutAH

Job Status

Created: 2024-01-04 15:06:15
Modified: 2024-01-04 15:14:33
Email: vsharma@uw.edu
Status: COMPLETE
Info:
Description: Copying experiment: Selected reaction monitoring of dysregulated proteins in gut tissue of Labeo rohita infected with Aeromonas hydrophila
File Path: /data/labkey/files/Panorama Public/2024/IIT Bombay Proteomics - SRM_Rohu_GutAH/@files/Experiment_1840.log
Files: Experiment_1840.log
Completed Runs: 20240101_SRM_Rohu_GutAH_vs_Control_Refined_ALL_2024-01-03_20-33-06.sky.zip
20240101_SRM_Rohu_GutAH_vs_Control_Refined_Significant_2024-01-03_20-34-42.sky.zip

Log File


04 Jan 2024 15:06:15,896 INFO : Copying experiment "Selected reaction monitoring of dysregulated proteins in gut tissue of Labeo rohita infected with Aeromonas hydrophila" from folder /IIT Bombay - Proteomics/Lab users/Mehar Un Nissa/SRM_Rohu_GutAH to /Panorama Public/2024/IIT Bombay Proteomics - SRM_Rohu_GutAH
04 Jan 2024 15:06:15,896 INFO : =======================================
04 Jan 2024 15:13:41,236 INFO : Starting to run task 'org.labkey.panoramapublic.pipeline.ExperimentExportTask' at location 'webserver-high-priority'
04 Jan 2024 15:13:41,236 INFO :
04 Jan 2024 15:13:41,236 INFO : Exporting experiment.
04 Jan 2024 15:13:50,127 INFO : Exporting files metadata.
04 Jan 2024 15:13:50,141 INFO :
04 Jan 2024 15:13:50,141 INFO : Experiment export completed successfully.
04 Jan 2024 15:13:50,141 INFO : Successfully completed task 'org.labkey.panoramapublic.pipeline.ExperimentExportTask'
04 Jan 2024 15:13:50,160 INFO : Starting to run task 'org.labkey.panoramapublic.pipeline.ExperimentImportTask' at location 'webserver-high-priority'
04 Jan 2024 15:13:50,160 INFO :
04 Jan 2024 15:13:50,160 INFO : Importing experiment.
04 Jan 2024 15:13:50,164 INFO : Loading folder properties (folder type, settings and active modules)
04 Jan 2024 15:13:50,250 INFO : Done importing folder properties (folder type, settings and active modules)
04 Jan 2024 15:13:50,251 INFO : Loading container specific module properties
04 Jan 2024 15:13:50,254 INFO : Done importing container specific module properties
04 Jan 2024 15:13:50,255 INFO : Loading etl definitions
04 Jan 2024 15:13:50,256 INFO : Loading wikis
04 Jan 2024 15:13:51,080 INFO : 2 wikis imported
04 Jan 2024 15:13:51,080 INFO : Done importing wikis
04 Jan 2024 15:13:51,608 INFO : Starting Data Class Importer
04 Jan 2024 15:13:51,608 INFO : No types XAR file to process.
04 Jan 2024 15:13:51,608 INFO : Finished Data Class Importer
04 Jan 2024 15:13:51,847 INFO : Starting to copy files
04 Jan 2024 15:13:51,848 INFO : Copied 0 files
04 Jan 2024 15:13:51,848 INFO : Ensuring exp.data rows exist for imported files
04 Jan 2024 15:13:54,950 INFO : Starting Sample Type Importer
04 Jan 2024 15:13:54,950 INFO : No types XAR file to process.
04 Jan 2024 15:13:54,950 INFO : Finished Sample Type Importer
04 Jan 2024 15:13:54,951 INFO : Loading xar
04 Jan 2024 15:13:58,161 INFO : Starting import from 20240101_SRM_Rohu_GutAH_vs_Control_Refined_ALL_2024-01-03_20-33-06.sky.zip
04 Jan 2024 15:13:58,164 INFO : Starting to import Skyline document from 20240101_SRM_Rohu_GutAH_vs_Control_Refined_ALL_2024-01-03_20-33-06.sky.zip
04 Jan 2024 15:13:58,847 INFO : Expanding Gut_AH_URL1_Prosit.blib
04 Jan 2024 15:13:58,848 INFO : Expanding Gut_AH_LFQ_DDA.blib
04 Jan 2024 15:13:59,182 INFO : Expanding 20240101_SRM_Rohu_GutAH_vs_Control_Refined_ALL.skyd
04 Jan 2024 15:13:59,206 INFO : Expanding 20240101_SRM_Rohu_GutAH_vs_Control_Refined_ALL.sky.view
04 Jan 2024 15:13:59,206 INFO : Expanding 20240101_SRM_Rohu_GutAH_vs_Control_Refined_ALL.sky
04 Jan 2024 15:13:59,780 INFO : Expanding 20240101_SRM_Rohu_GutAH_vs_Control_Refined_ALL.skyl
04 Jan 2024 15:14:02,490 INFO : 1% Done
04 Jan 2024 15:14:02,714 INFO : Inserting A05_Internal_Spiike
04 Jan 2024 15:14:02,720 INFO : 2% Done
04 Jan 2024 15:14:02,745 INFO : Inserting tr|A0A498LVS6|A0A498LVS6_LABRO
04 Jan 2024 15:14:02,751 INFO : 4% Done
04 Jan 2024 15:14:02,767 INFO : 6% Done
04 Jan 2024 15:14:02,784 INFO : 7% Done
04 Jan 2024 15:14:02,804 INFO : 8% Done
04 Jan 2024 15:14:02,819 INFO : 9% Done
04 Jan 2024 15:14:02,834 INFO : 10% Done
04 Jan 2024 15:14:02,853 INFO : 12% Done
04 Jan 2024 15:14:02,868 INFO : 13% Done
04 Jan 2024 15:14:02,886 INFO : 15% Done
04 Jan 2024 15:14:02,910 INFO : 17% Done
04 Jan 2024 15:14:02,927 INFO : 18% Done
04 Jan 2024 15:14:02,942 INFO : 19% Done
04 Jan 2024 15:14:02,958 INFO : 20% Done
04 Jan 2024 15:14:02,972 INFO : Inserting tr|A0A498MJY7|A0A498MJY7_LABRO
04 Jan 2024 15:14:02,979 INFO : 22% Done
04 Jan 2024 15:14:03,000 INFO : 23% Done
04 Jan 2024 15:14:03,018 INFO : 25% Done
04 Jan 2024 15:14:03,034 INFO : 26% Done
04 Jan 2024 15:14:03,050 INFO : 27% Done
04 Jan 2024 15:14:03,065 INFO : 29% Done
04 Jan 2024 15:14:03,082 INFO : 30% Done
04 Jan 2024 15:14:03,095 INFO : 31% Done
04 Jan 2024 15:14:03,110 INFO : 32% Done
04 Jan 2024 15:14:03,124 INFO : 33% Done
04 Jan 2024 15:14:03,139 INFO : 34% Done
04 Jan 2024 15:14:03,158 INFO : 36% Done
04 Jan 2024 15:14:03,176 INFO : 38% Done
04 Jan 2024 15:14:03,204 INFO : 40% Done
04 Jan 2024 15:14:03,218 INFO : Inserting tr|A0A498M9M2|A0A498M9M2_LABRO
04 Jan 2024 15:14:03,223 INFO : 42% Done
04 Jan 2024 15:14:03,239 INFO : 43% Done
04 Jan 2024 15:14:03,257 INFO : 44% Done
04 Jan 2024 15:14:03,273 INFO : 46% Done
04 Jan 2024 15:14:03,289 INFO : 47% Done
04 Jan 2024 15:14:03,305 INFO : 48% Done
04 Jan 2024 15:14:03,322 INFO : 50% Done
04 Jan 2024 15:14:03,342 INFO : 51% Done
04 Jan 2024 15:14:03,359 INFO : Inserting tr|A0A498ML95|A0A498ML95_LABRO
04 Jan 2024 15:14:03,365 INFO : 53% Done
04 Jan 2024 15:14:03,388 INFO : 55% Done
04 Jan 2024 15:14:03,412 INFO : 56% Done
04 Jan 2024 15:14:03,426 INFO : 58% Done
04 Jan 2024 15:14:03,442 INFO : 59% Done
04 Jan 2024 15:14:03,460 INFO : 60% Done
04 Jan 2024 15:14:03,475 INFO : 61% Done
04 Jan 2024 15:14:03,490 INFO : 62% Done
04 Jan 2024 15:14:03,504 INFO : Inserting tr|A0A498MM94|A0A498MM94_LABRO
04 Jan 2024 15:14:03,510 INFO : 64% Done
04 Jan 2024 15:14:03,527 INFO : 66% Done
04 Jan 2024 15:14:03,553 INFO : 67% Done
04 Jan 2024 15:14:03,568 INFO : 69% Done
04 Jan 2024 15:14:03,583 INFO : 70% Done
04 Jan 2024 15:14:03,599 INFO : 71% Done
04 Jan 2024 15:14:03,611 INFO : Inserting tr|A0A498N568|A0A498N568_LABRO
04 Jan 2024 15:14:03,615 INFO : 72% Done
04 Jan 2024 15:14:03,632 INFO : 74% Done
04 Jan 2024 15:14:03,645 INFO : Inserting tr|A0A498LK83|A0A498LK83_LABRO
04 Jan 2024 15:14:03,651 INFO : 75% Done
04 Jan 2024 15:14:03,670 INFO : 76% Done
04 Jan 2024 15:14:03,686 INFO : 77% Done
04 Jan 2024 15:14:03,686 INFO : Inserting tr|A0A498M8B4|A0A498M8B4_LABRO
04 Jan 2024 15:14:03,691 INFO : 78% Done
04 Jan 2024 15:14:03,702 INFO : Inserting tr|A0A498MN46|A0A498MN46_LABRO
04 Jan 2024 15:14:03,718 INFO : Inserting tr|A0A498NIQ5|A0A498NIQ5_LABRO
04 Jan 2024 15:14:03,726 INFO : 80% Done
04 Jan 2024 15:14:03,742 INFO : Done parsing Skyline document.
04 Jan 2024 15:14:03,825 INFO : Calculating fold changes
04 Jan 2024 15:14:04,336 INFO : 98% Done
04 Jan 2024 15:14:04,336 INFO : Done calculating fold changes.
04 Jan 2024 15:14:06,711 INFO : Creating and populating temp tables for Proportion values
04 Jan 2024 15:14:06,875 INFO : Setting PrecursorModifiedAreaProportion values on precursorchrominfo
04 Jan 2024 15:14:06,906 INFO : Setting ModifiedAreaProportion values on generalmoleculechrominfo
04 Jan 2024 15:14:06,927 INFO : Cleaning up temp tables
04 Jan 2024 15:14:07,558 INFO : Completed import of Skyline document from 20240101_SRM_Rohu_GutAH_vs_Control_Refined_ALL_2024-01-03_20-33-06.sky.zip
04 Jan 2024 15:14:07,560 INFO : 100% Done
04 Jan 2024 15:14:07,566 INFO : Starting import from 20240101_SRM_Rohu_GutAH_vs_Control_Refined_Significant_2024-01-03_20-34-42.sky.zip
04 Jan 2024 15:14:07,568 INFO : Starting to import Skyline document from 20240101_SRM_Rohu_GutAH_vs_Control_Refined_Significant_2024-01-03_20-34-42.sky.zip
04 Jan 2024 15:14:07,720 INFO : Expanding Gut_AH_URL1_Prosit.blib
04 Jan 2024 15:14:07,722 INFO : Expanding Gut_AH_LFQ_DDA.blib
04 Jan 2024 15:14:07,839 INFO : Expanding 20240101_SRM_Rohu_GutAH_vs_Control_Refined_Significant.skyd
04 Jan 2024 15:14:07,864 INFO : Expanding 20240101_SRM_Rohu_GutAH_vs_Control_Refined_Significant.sky.view
04 Jan 2024 15:14:07,877 INFO : Expanding 20240101_SRM_Rohu_GutAH_vs_Control_Refined_Significant.sky
04 Jan 2024 15:14:07,926 INFO : Expanding 20240101_SRM_Rohu_GutAH_vs_Control_Refined_Significant.skyl
04 Jan 2024 15:14:08,116 INFO : 2% Done
04 Jan 2024 15:14:08,331 INFO : Inserting A05_Internal_Spiike
04 Jan 2024 15:14:08,337 INFO : 6% Done
04 Jan 2024 15:14:08,360 INFO : Inserting tr|A0A498LVS6|A0A498LVS6_LABRO
04 Jan 2024 15:14:08,366 INFO : 10% Done
04 Jan 2024 15:14:08,385 INFO : 12% Done
04 Jan 2024 15:14:08,399 INFO : 15% Done
04 Jan 2024 15:14:08,413 INFO : Inserting tr|A0A498MJY7|A0A498MJY7_LABRO
04 Jan 2024 15:14:08,420 INFO : 19% Done
04 Jan 2024 15:14:08,441 INFO : 22% Done
04 Jan 2024 15:14:08,459 INFO : 25% Done
04 Jan 2024 15:14:08,476 INFO : 27% Done
04 Jan 2024 15:14:08,493 INFO : 30% Done
04 Jan 2024 15:14:08,510 INFO : 34% Done
04 Jan 2024 15:14:08,531 INFO : 36% Done
04 Jan 2024 15:14:08,547 INFO : 38% Done
04 Jan 2024 15:14:08,561 INFO : 39% Done
04 Jan 2024 15:14:08,561 INFO : Inserting tr|A0A498M9M2|A0A498M9M2_LABRO
04 Jan 2024 15:14:08,566 INFO : 42% Done
04 Jan 2024 15:14:08,583 INFO : 44% Done
04 Jan 2024 15:14:08,600 INFO : 48% Done
04 Jan 2024 15:14:08,618 INFO : 50% Done
04 Jan 2024 15:14:08,635 INFO : 54% Done
04 Jan 2024 15:14:08,654 INFO : 58% Done
04 Jan 2024 15:14:08,673 INFO : Inserting tr|A0A498ML95|A0A498ML95_LABRO
04 Jan 2024 15:14:08,678 INFO : 60% Done
04 Jan 2024 15:14:08,694 INFO : 63% Done
04 Jan 2024 15:14:08,709 INFO : Inserting tr|A0A498MM94|A0A498MM94_LABRO
04 Jan 2024 15:14:08,714 INFO : 66% Done
04 Jan 2024 15:14:08,729 INFO : 69% Done
04 Jan 2024 15:14:08,744 INFO : 72% Done
04 Jan 2024 15:14:08,759 INFO : Inserting tr|A0A498N568|A0A498N568_LABRO
04 Jan 2024 15:14:08,764 INFO : 74% Done
04 Jan 2024 15:14:08,779 INFO : Inserting tr|A0A498LK83|A0A498LK83_LABRO
04 Jan 2024 15:14:08,784 INFO : 78% Done
04 Jan 2024 15:14:08,800 INFO : Inserting tr|A0A498M8B4|A0A498M8B4_LABRO
04 Jan 2024 15:14:08,804 INFO : 80% Done
04 Jan 2024 15:14:08,818 INFO : Done parsing Skyline document.
04 Jan 2024 15:14:08,879 INFO : Calculating fold changes
04 Jan 2024 15:14:09,111 INFO : 89% Done
04 Jan 2024 15:14:09,354 INFO : 98% Done
04 Jan 2024 15:14:09,354 INFO : Done calculating fold changes.
04 Jan 2024 15:14:12,223 INFO : Creating and populating temp tables for Proportion values
04 Jan 2024 15:14:12,392 INFO : Setting PrecursorModifiedAreaProportion values on precursorchrominfo
04 Jan 2024 15:14:12,408 INFO : Setting ModifiedAreaProportion values on generalmoleculechrominfo
04 Jan 2024 15:14:12,419 INFO : Cleaning up temp tables
04 Jan 2024 15:14:13,054 INFO : Completed import of Skyline document from 20240101_SRM_Rohu_GutAH_vs_Control_Refined_Significant_2024-01-03_20-34-42.sky.zip
04 Jan 2024 15:14:13,056 INFO : 100% Done
04 Jan 2024 15:14:13,067 INFO : Done importing xar
04 Jan 2024 15:14:13,068 INFO : Loading pages and webpart properties
04 Jan 2024 15:14:13,484 INFO : Done importing 3 page(s) with 8 webpart(s)
04 Jan 2024 15:14:13,484 INFO : Loading File Browser config
04 Jan 2024 15:14:13,484 INFO : Done importing File Browser config
04 Jan 2024 15:14:13,486 INFO : Starting Sample Status Data import
04 Jan 2024 15:14:13,486 INFO : No sample types XAR file to process.
04 Jan 2024 15:14:13,486 INFO : Finished importing Sample Status Data
04 Jan 2024 15:14:13,490 INFO : Starting data import from QCAnnotationType.tsv into targetedms.QCAnnotationType
04 Jan 2024 15:14:13,493 INFO : A row containing [Name: 'Reagent Change', Description: 'null', Color: '800000'] values already exists. Skipping
04 Jan 2024 15:14:13,494 INFO : A row containing [Name: 'Instrumentation Change', Description: 'null', Color: 'FF0000'] values already exists. Skipping
04 Jan 2024 15:14:13,494 INFO : A row containing [Name: 'Technician Change', Description: 'null', Color: '0000FF'] values already exists. Skipping
04 Jan 2024 15:14:13,495 INFO : A row containing [Name: 'Instrument Downtime', Description: 'null', Color: 'CCCC00'] values already exists. Skipping
04 Jan 2024 15:14:13,495 INFO : Finished importing 0 rows from QCAnnotationType.tsv into targetedms.QCAnnotationType
04 Jan 2024 15:14:13,497 INFO : Creating a new TargetedMS experiment entry in panoramapublic.ExperimentAnnotations.
04 Jan 2024 15:14:13,502 INFO : Moving files to folder /Panorama Public/2024/IIT Bombay Proteomics - SRM_Rohu_GutAH and creating symlinks
04 Jan 2024 15:14:24,139 INFO : Aligning data files urls in folder: /Panorama Public/2024/IIT Bombay Proteomics - SRM_Rohu_GutAH
04 Jan 2024 15:14:24,150 INFO : Importing files metadata.
04 Jan 2024 15:14:24,157 INFO :
04 Jan 2024 15:14:24,157 INFO : Experiment import completed successfully.
04 Jan 2024 15:14:24,157 INFO : Successfully completed task 'org.labkey.panoramapublic.pipeline.ExperimentImportTask'
04 Jan 2024 15:14:24,178 INFO : Starting to run task 'org.labkey.panoramapublic.pipeline.CopyLibraryStateTask' at location 'webserver-high-priority'
04 Jan 2024 15:14:24,179 INFO :
04 Jan 2024 15:14:24,179 INFO : Checking for library folders.
04 Jan 2024 15:14:24,180 INFO : Successfully completed task 'org.labkey.panoramapublic.pipeline.CopyLibraryStateTask'
04 Jan 2024 15:14:24,198 INFO : Starting to run task 'org.labkey.panoramapublic.pipeline.CopyExperimentFinalTask' at location 'webserver-high-priority'
04 Jan 2024 15:14:24,198 INFO :
04 Jan 2024 15:14:24,198 INFO : Finishing up experiment copy.
04 Jan 2024 15:14:24,201 INFO : Updating TargetedMS experiment entry in target folder /Panorama Public/2024/IIT Bombay Proteomics - SRM_Rohu_GutAH
04 Jan 2024 15:14:24,202 INFO : Setting version on new experiment to 1
04 Jan 2024 15:14:24,204 INFO : Updating permanent link to point to the new copy of the data.
04 Jan 2024 15:14:24,336 INFO : Removing copy permissions given to Panorama Public
04 Jan 2024 15:14:24,342 INFO : Adding read permissions to all users that are folder admins in the source folder.
04 Jan 2024 15:14:24,343 INFO : Assigning ReaderRole to meharunnissakohli@gmail.com
04 Jan 2024 15:14:24,343 INFO : Assigning ReaderRole to mgjpai@gmail.com
04 Jan 2024 15:14:24,343 INFO : Assigning ReaderRole to sanjeeva@iitb.ac.in
04 Jan 2024 15:14:24,343 INFO : Assigning PanoramaPublicSubmitterRole to meharunnissakohli@gmail.com
04 Jan 2024 15:14:24,343 INFO : Assigning PanoramaPublicSubmitterRole to sanjeeva@iitb.ac.in
04 Jan 2024 15:14:24,347 INFO : Adding user meharunnissakohli@gmail.com to group Panorama Public Submitters
04 Jan 2024 15:14:24,351 INFO : User sanjeeva@iitb.ac.in is already a member of group Panorama Public Submitters
04 Jan 2024 15:14:24,351 INFO : Updating the 'Raw Data' tab configuration
04 Jan 2024 15:14:24,352 INFO : Creating a reviewer account.
04 Jan 2024 15:14:24,570 INFO : Created reviewer with email: User panorama+reviewer235@proteinms.net
04 Jan 2024 15:14:24,574 INFO : Adding user panorama+reviewer235@proteinms.net to group Reviewers
04 Jan 2024 15:14:24,575 INFO : Hiding the Data Pipeline tab.
04 Jan 2024 15:14:24,582 INFO : Updating Submission. Setting copiedExperimentId to 1755
04 Jan 2024 15:14:30,976 INFO : Assigning a ProteomeXchange ID.
04 Jan 2024 15:14:32,284 INFO : Assigned ProteomeXchange ID: PXD048261
04 Jan 2024 15:14:32,285 INFO : Assigning a DOI.
04 Jan 2024 15:14:33,129 INFO : Assigned DOI: 10.6069/jdxh-5923
04 Jan 2024 15:14:33,275 INFO : Successfully completed task 'org.labkey.panoramapublic.pipeline.CopyExperimentFinalTask'