Copying experiment: A microbial supply chain for production of anti-cancer drug vinblastine

JBEI - J. Zhang et al. - vinblastine paper

Job Status

Created: 2021-03-24 20:34:46
Modified: 2021-03-24 20:34:57
Email: vsharma@uw.edu
Status: COMPLETE
Info:
Description: Copying experiment: A microbial supply chain for production of anti-cancer drug vinblastine
File Path: /data/labkey/files/Panorama Public/2021/JBEI - J. Zhang et al. - vinblastine paper/@files/Experiment_1231.log
Files: Experiment_1231.log
Completed Runs: JieZhang paper - all proteins results refined and reintegrated_2021-03-23_14-41-12.sky.zip

Log File


24 Mar 2021 20:34:46,030 INFO : Copying experiment "A microbial supply chain for production of anti-cancer drug vinblastine" from folder /JBEI/J. Zhang et al. - vinblastine paper to /Panorama Public/2021/JBEI - J. Zhang et al. - vinblastine paper
24 Mar 2021 20:34:46,031 INFO : =======================================
24 Mar 2021 20:34:46,306 INFO : Starting to run task 'org.labkey.panoramapublic.pipeline.ExperimentExportTask' at location 'webserver-high-priority'
24 Mar 2021 20:34:46,307 INFO :
24 Mar 2021 20:34:46,307 INFO : Exporting experiment.
24 Mar 2021 20:34:47,612 INFO :
24 Mar 2021 20:34:47,612 INFO : Experiment export completed successfully.
24 Mar 2021 20:34:47,612 INFO : Successfully completed task 'org.labkey.panoramapublic.pipeline.ExperimentExportTask'
24 Mar 2021 20:34:47,676 INFO : Starting to run task 'org.labkey.panoramapublic.pipeline.ExperimentImportTask' at location 'webserver-high-priority'
24 Mar 2021 20:34:47,676 INFO :
24 Mar 2021 20:34:47,676 INFO : Importing experiment.
24 Mar 2021 20:34:47,734 INFO : Loading folder properties (folder type, settings and active modules)
24 Mar 2021 20:34:47,878 INFO : Done importing folder properties (folder type, settings and active modules)
24 Mar 2021 20:34:47,882 INFO : Loading etl definitions
24 Mar 2021 20:34:47,885 INFO : Loading wikis
24 Mar 2021 20:34:47,940 INFO : 0 wikis imported
24 Mar 2021 20:34:47,940 INFO : Done importing wikis
24 Mar 2021 20:34:47,940 INFO : Starting to copy files
24 Mar 2021 20:34:48,232 INFO : Copied 12 files
24 Mar 2021 20:34:48,232 INFO : Ensuring exp.data rows exist for imported files
24 Mar 2021 20:34:48,740 INFO : Loading xar
24 Mar 2021 20:34:48,851 WARN : Unrecognized CpasType 'urn:lsid:uw.edu:.Folder-8362:' loaded for Data object.
24 Mar 2021 20:34:48,890 WARN : Unrecognized CpasType 'urn:lsid:uw.edu:.Folder-8362:' loaded for Data object.
24 Mar 2021 20:34:48,908 INFO : Starting import from JieZhang paper - all proteins results refined and reintegrated_2021-03-23_14-41-12.sky.zip
24 Mar 2021 20:34:48,913 INFO : Starting to import Skyline document from JieZhang paper - all proteins results refined and reintegrated_2021-03-23_14-41-12.sky.zip
24 Mar 2021 20:34:48,914 INFO : Expanding JieZhang paper - all proteins results refined and reintegrated.skyd
24 Mar 2021 20:34:48,927 INFO : Expanding JieZhang paper - all proteins results refined and reintegrated.sky.view
24 Mar 2021 20:34:48,928 INFO : Expanding JieZhang paper - all proteins results refined and reintegrated.sky
24 Mar 2021 20:34:48,947 INFO : 1% Done
24 Mar 2021 20:34:49,024 INFO : 2% Done
24 Mar 2021 20:34:49,165 INFO : Inserting tr|Q8LKJ2|Q8LKJ2_ABIGR
24 Mar 2021 20:34:49,268 INFO : 3% Done
24 Mar 2021 20:34:49,437 INFO : 4% Done
24 Mar 2021 20:34:49,483 INFO : 5% Done
24 Mar 2021 20:34:49,576 INFO : Inserting sp|P08836|FPPS_CHICK
24 Mar 2021 20:34:49,612 INFO : 6% Done
24 Mar 2021 20:34:49,719 INFO : 7% Done
24 Mar 2021 20:34:49,815 INFO : 9% Done
24 Mar 2021 20:34:50,000 INFO : Inserting tr|J9PZR5|J9PZR5_CATRO
24 Mar 2021 20:34:50,020 INFO : 12% Done
24 Mar 2021 20:34:50,126 INFO : 13% Done
24 Mar 2021 20:34:50,240 INFO : Inserting sp|Q8VWZ7|C76B6_CATRO
24 Mar 2021 20:34:50,270 INFO : 14% Done
24 Mar 2021 20:34:50,329 INFO : 16% Done
24 Mar 2021 20:34:50,373 INFO : 18% Done
24 Mar 2021 20:34:50,514 INFO : Inserting sp|Q6V4H0|10HGO_CATRO
24 Mar 2021 20:34:50,549 INFO : 19% Done
24 Mar 2021 20:34:50,595 INFO : 20% Done
24 Mar 2021 20:34:50,645 INFO : 22% Done
24 Mar 2021 20:34:50,727 INFO : Inserting sp|K7WDL7|IRIS_CATRO
24 Mar 2021 20:34:50,782 INFO : 24% Done
24 Mar 2021 20:34:50,886 INFO : 25% Done
24 Mar 2021 20:34:51,009 INFO : Inserting tr|W8JIS5|W8JIS5_CATRO
24 Mar 2021 20:34:51,040 INFO : 26% Done
24 Mar 2021 20:34:51,094 INFO : 27% Done
24 Mar 2021 20:34:51,167 INFO : 29% Done
24 Mar 2021 20:34:51,250 INFO : Inserting tr|U5NH37|U5NH37_CATRO
24 Mar 2021 20:34:51,269 INFO : 31% Done
24 Mar 2021 20:34:51,314 INFO : 32% Done
24 Mar 2021 20:34:51,343 INFO : 34% Done
24 Mar 2021 20:34:51,390 INFO : Inserting tr|U5NE19|U5NE19_CATRO
24 Mar 2021 20:34:51,395 INFO : 35% Done
24 Mar 2021 20:34:51,451 INFO : 37% Done
24 Mar 2021 20:34:51,515 INFO : 38% Done
24 Mar 2021 20:34:51,647 INFO : Inserting tr|B2KPR3|B2KPR3_CATRO
24 Mar 2021 20:34:51,677 INFO : 40% Done
24 Mar 2021 20:34:51,731 INFO : 42% Done
24 Mar 2021 20:34:51,781 INFO : 43% Done
24 Mar 2021 20:34:51,867 INFO : Inserting sp|Q05047|C72A1_CATRO
24 Mar 2021 20:34:51,904 INFO : 44% Done
24 Mar 2021 20:34:51,950 INFO : 46% Done
24 Mar 2021 20:34:52,010 INFO : 47% Done
24 Mar 2021 20:34:52,117 INFO : Inserting sp|P18417|STSY_CATRO
24 Mar 2021 20:34:52,144 INFO : 48% Done
24 Mar 2021 20:34:52,195 INFO : Inserting sp|P17770|DDC_CATRO
24 Mar 2021 20:34:52,236 INFO : 49% Done
24 Mar 2021 20:34:52,288 INFO : 51% Done
24 Mar 2021 20:34:52,352 INFO : 52% Done
24 Mar 2021 20:34:52,414 INFO : Inserting tr|B8PRP4|B8PRP4_CATRO
24 Mar 2021 20:34:52,433 INFO : 53% Done
24 Mar 2021 20:34:52,480 INFO : 54% Done
24 Mar 2021 20:34:52,511 INFO : Inserting tr|B8PRP4B|B8PRP4B_CATRO
24 Mar 2021 20:34:52,517 INFO : 55% Done
24 Mar 2021 20:34:52,577 INFO : Inserting tr|A0A0F6SD02|A0A0F6SD02_CATRO
24 Mar 2021 20:34:52,605 INFO : 57% Done
24 Mar 2021 20:34:52,670 INFO : 58% Done
24 Mar 2021 20:34:52,742 INFO : Inserting tr|A0A0F6SD02B|A0A0F6SD02B_CATRO
24 Mar 2021 20:34:52,748 INFO : 60% Done
24 Mar 2021 20:34:52,778 INFO : 62% Done
24 Mar 2021 20:34:52,834 INFO : Inserting AFX82679.1
24 Mar 2021 20:34:52,855 INFO : Inserting tr|A0A0C5DKP2|A0A0C5DKP2_CATRO
24 Mar 2021 20:34:52,872 INFO : 63% Done
24 Mar 2021 20:34:52,901 INFO : 64% Done
24 Mar 2021 20:34:53,042 INFO : Inserting sp|P40312|CYB5_YEAST
24 Mar 2021 20:34:53,088 INFO : 66% Done
24 Mar 2021 20:34:53,139 INFO : 67% Done
24 Mar 2021 20:34:53,228 INFO : Inserting sp|Q05001|NCPR_CATRO
24 Mar 2021 20:34:53,242 INFO : 69% Done
24 Mar 2021 20:34:53,281 INFO : 70% Done
24 Mar 2021 20:34:53,342 INFO : 72% Done
24 Mar 2021 20:34:53,368 INFO : 73% Done
24 Mar 2021 20:34:53,417 INFO : 74% Done
24 Mar 2021 20:34:53,480 INFO : Inserting tr|Q1PQK4|Q1PQK4_ARTAN
24 Mar 2021 20:34:53,518 INFO : 75% Done
24 Mar 2021 20:34:53,569 INFO : 77% Done
24 Mar 2021 20:34:53,719 INFO : Inserting sp|Q9SB48|NCPR1_ARATH
24 Mar 2021 20:34:53,756 INFO : 79% Done
24 Mar 2021 20:34:53,802 INFO : 80% Done
24 Mar 2021 20:34:53,822 INFO : Inserting tr|A0A0C5DM37|A0A0C5DM37_CATRO
24 Mar 2021 20:34:53,829 INFO : 82% Done
24 Mar 2021 20:34:53,867 INFO : 83% Done
24 Mar 2021 20:34:53,919 INFO : 84% Done
24 Mar 2021 20:34:54,010 INFO : Inserting sp|P12683|HMDH1_YEAST
24 Mar 2021 20:34:54,034 INFO : 86% Done
24 Mar 2021 20:34:54,065 INFO : 88% Done
24 Mar 2021 20:34:54,114 INFO : 89% Done
24 Mar 2021 20:34:54,160 INFO : Inserting P02769|ALBU_BOVIN
24 Mar 2021 20:34:54,191 INFO : 90% Done
24 Mar 2021 20:34:54,214 INFO : 91% Done
24 Mar 2021 20:34:54,274 INFO : Inserting ENO1
24 Mar 2021 20:34:54,290 INFO : 92% Done
24 Mar 2021 20:34:54,352 INFO : 93% Done
24 Mar 2021 20:34:54,371 INFO : Inserting TDH3
24 Mar 2021 20:34:54,384 INFO : 95% Done
24 Mar 2021 20:34:54,416 INFO : 96% Done
24 Mar 2021 20:34:54,479 INFO : Inserting TDH2
24 Mar 2021 20:34:54,484 INFO : 97% Done
24 Mar 2021 20:34:54,594 INFO : 98% Done
24 Mar 2021 20:34:54,610 INFO : Done parsing Skyline document.
24 Mar 2021 20:34:54,612 INFO : Creating and populating temp tables for Proportion values
24 Mar 2021 20:34:54,630 INFO : Setting PrecursorModifiedAreaProportion values on precursorchrominfo
24 Mar 2021 20:34:54,684 INFO : Setting ModifiedAreaProportion values on generalmoleculechrominfo
24 Mar 2021 20:34:54,715 INFO : Cleaning up temp tables
24 Mar 2021 20:34:55,175 INFO : Completed import of Skyline document from JieZhang paper - all proteins results refined and reintegrated_2021-03-23_14-41-12.sky.zip
24 Mar 2021 20:34:55,195 INFO : 100% Done
24 Mar 2021 20:34:55,220 INFO : Done importing xar
24 Mar 2021 20:34:55,225 INFO : Loading pages and webpart properties
24 Mar 2021 20:34:55,405 INFO : Done importing pages and webpart properties
24 Mar 2021 20:34:55,405 INFO :
24 Mar 2021 20:34:55,405 INFO : Experiment import completed successfully.
24 Mar 2021 20:34:55,406 INFO : Successfully completed task 'org.labkey.panoramapublic.pipeline.ExperimentImportTask'
24 Mar 2021 20:34:55,476 INFO : Starting to run task 'org.labkey.panoramapublic.pipeline.CopyExperimentFinalTask' at location 'webserver-high-priority'
24 Mar 2021 20:34:55,476 INFO :
24 Mar 2021 20:34:55,476 INFO : Finishing up experiment copy.
24 Mar 2021 20:34:55,478 INFO : Creating a new TargetedMS experiment entry in panoramapublic.ExperimentAnnotations.
24 Mar 2021 20:34:55,480 INFO : Assigning a ProteomeXchange ID.
24 Mar 2021 20:34:56,167 INFO : Updating access URL to point to the new copy of the data.
24 Mar 2021 20:34:56,265 INFO : Setting the 'copied' timestamp and journalExperimentId on the JournalExperiment table.
24 Mar 2021 20:34:56,267 INFO : Removing copy permissions given to journal.
24 Mar 2021 20:34:56,283 INFO : Adding read permissions to all users that are folder admins in the source container.
24 Mar 2021 20:34:56,297 INFO : Setting the TargetedMS folder type to 'Experimental Data'
24 Mar 2021 20:34:56,306 INFO : Updating the 'Raw Data' tab configuration
24 Mar 2021 20:34:56,310 INFO : Updating dataFileUrls for run JieZhang paper - all proteins results refined and reintegrated_2021-03-23_14-41-12.sky.zip; targetedms run ID 106494
24 Mar 2021 20:34:56,311 INFO : Adding ExpData for .skyd file
24 Mar 2021 20:34:56,311 INFO : Updating dataFileUrl...
24 Mar 2021 20:34:56,312 INFO : from: file:///data/apache-tomcat/temp/Pipeline_temp/JBEI%20-%20J.%20Zhang%20et%20al.%20-%20vinblastine%20paper_d677f447-6f47-1039-9674-3013bb9b91fd/_temp__2021-03-24_20-34-45/export/xar/experiments_and_runs.xar.exploded/Run104171/JieZhang%20paper%20-%20all%20proteins%20results%20refined%20and%20reintegrated.skyd
24 Mar 2021 20:34:56,312 INFO : to: file:///data/labkey/files/Panorama%20Public/2021/JBEI%20-%20J.%20Zhang%20et%20al.%20-%20vinblastine%20paper/@files/JieZhang%20paper%20-%20all%20proteins%20results%20refined%20and%20reintegrated_2021-03-23_14-41-12/JieZhang%20paper%20-%20all%20proteins%20results%20refined%20and%20reintegrated.skyd
24 Mar 2021 20:34:56,384 INFO : Updating dataFileUrl...
24 Mar 2021 20:34:56,384 INFO : from: file:///data/apache-tomcat/temp/Pipeline_temp/JBEI%20-%20J.%20Zhang%20et%20al.%20-%20vinblastine%20paper_d677f447-6f47-1039-9674-3013bb9b91fd/_temp__2021-03-24_20-34-45/export/xar/experiments_and_runs.xar.exploded/Run104171/JieZhang%20paper%20-%20all%20proteins%20results%20refined%20and%20reintegrated_2021-03-23_14-41-12.sky.zip
24 Mar 2021 20:34:56,384 INFO : to: file:///data/labkey/files/Panorama%20Public/2021/JBEI%20-%20J.%20Zhang%20et%20al.%20-%20vinblastine%20paper/@files/JieZhang%20paper%20-%20all%20proteins%20results%20refined%20and%20reintegrated_2021-03-23_14-41-12.sky.zip
24 Mar 2021 20:34:56,387 INFO : Updating dataFileUrl...
24 Mar 2021 20:34:56,387 INFO : from: file:///data/apache-tomcat/temp/Pipeline_temp/JBEI%20-%20J.%20Zhang%20et%20al.%20-%20vinblastine%20paper_d677f447-6f47-1039-9674-3013bb9b91fd/_temp__2021-03-24_20-34-45/export/xar/experiments_and_runs.xar.exploded/Run104171/JieZhang%20paper%20-%20all%20proteins%20results%20refined%20and%20reintegrated_2021-03-23_14-41-12/JieZhang%20paper%20-%20all%20proteins%20results%20refined%20and%20reintegrated.skyd
24 Mar 2021 20:34:56,387 INFO : to: file:///data/labkey/files/Panorama%20Public/2021/JBEI%20-%20J.%20Zhang%20et%20al.%20-%20vinblastine%20paper/@files/JieZhang%20paper%20-%20all%20proteins%20results%20refined%20and%20reintegrated_2021-03-23_14-41-12/JieZhang%20paper%20-%20all%20proteins%20results%20refined%20and%20reintegrated.skyd
24 Mar 2021 20:34:56,391 INFO : Creating a reviewer account.
24 Mar 2021 20:34:56,874 INFO : Created reviewer with email: User panorama+reviewer17@proteinms.net
24 Mar 2021 20:34:56,890 INFO : Hiding the Data Pipeline tab.
24 Mar 2021 20:34:57,119 INFO : Emailing submitter.
24 Mar 2021 20:34:57,372 INFO : Successfully completed task 'org.labkey.panoramapublic.pipeline.CopyExperimentFinalTask'