02 Aug 2021 23:02:06,088 INFO : Copying experiment "Targeted MRM assay Complement System AMD cohort" from folder /Radboud University Medical Center - Translational Metabolic Lab/Targeted MRM assay Complement System for AMD cohort to /Panorama Public/2021/Radboud University Medical Center - Targeted MRM assay Complement System for AMD cohort
02 Aug 2021 23:02:06,088 INFO : =======================================
02 Aug 2021 23:02:06,402 INFO : Starting to run task 'org.labkey.panoramapublic.pipeline.ExperimentExportTask' at location 'webserver-high-priority'
02 Aug 2021 23:02:06,402 INFO :
02 Aug 2021 23:02:06,402 INFO : Exporting experiment.
02 Aug 2021 23:03:27,399 INFO :
02 Aug 2021 23:03:27,400 INFO : Experiment export completed successfully.
02 Aug 2021 23:03:27,400 INFO : Successfully completed task 'org.labkey.panoramapublic.pipeline.ExperimentExportTask'
02 Aug 2021 23:03:27,465 INFO : Starting to run task 'org.labkey.panoramapublic.pipeline.ExperimentImportTask' at location 'webserver-high-priority'
02 Aug 2021 23:03:27,465 INFO :
02 Aug 2021 23:03:27,465 INFO : Importing experiment.
02 Aug 2021 23:03:27,469 INFO : Loading folder properties (folder type, settings and active modules)
02 Aug 2021 23:03:27,543 INFO : Done importing folder properties (folder type, settings and active modules)
02 Aug 2021 23:03:27,545 INFO : Loading etl definitions
02 Aug 2021 23:03:27,548 INFO : Loading wikis
02 Aug 2021 23:03:27,555 INFO : 1 wiki imported
02 Aug 2021 23:03:27,555 INFO : Done importing wikis
02 Aug 2021 23:03:27,556 INFO : Starting to copy files
02 Aug 2021 23:04:04,317 INFO : Copied 971 files
02 Aug 2021 23:04:04,317 INFO : Ensuring exp.data rows exist for imported files
02 Aug 2021 23:04:07,613 INFO : Starting Sample Type and Data Class import
02 Aug 2021 23:04:07,614 INFO : No types XAR file to process.
02 Aug 2021 23:04:07,614 INFO : Finished importing Sample Types and Data Classes
02 Aug 2021 23:04:07,615 INFO : Loading xar
02 Aug 2021 23:04:09,645 DEBUG: Finished loading Protocol with LSID 'urn:lsid:uw.edu:Protocol.Folder-8927:TargetedMS.ImportSkyZip'
02 Aug 2021 23:04:09,647 DEBUG: Finished loading Protocol with LSID 'urn:lsid:uw.edu:Protocol.Folder-8927:TargetedMS.ImportSkyZip.Core'
02 Aug 2021 23:04:09,649 DEBUG: Finished loading Protocol with LSID 'urn:lsid:uw.edu:Protocol.Folder-8927:TargetedMS.ImportSkyZip.Output'
02 Aug 2021 23:04:09,649 DEBUG: Protocol import complete
02 Aug 2021 23:04:09,650 DEBUG: Finished loading Experiment with LSID 'urn:lsid:uw.edu:Experiment.Folder-8927:Targeted+MRM+assay+Compleemntsystemfor+AMD+cohort'
02 Aug 2021 23:04:09,650 DEBUG: Experiment/Run group import complete
02 Aug 2021 23:04:09,659 DEBUG: Protocol action set import complete
02 Aug 2021 23:04:09,671 DEBUG: Finished loading ProtocolApplication with LSID 'urn:lsid:uw.edu:Protocol.Folder-8927:TargetedMS.ImportSkyZip'
02 Aug 2021 23:04:09,679 DEBUG: Finished loading Data with LSID 'urn:lsid:uw.edu:skyd.Folder-8927:1f3f7739-d4f3-1039-937c-fea6ddf55d1e'
02 Aug 2021 23:04:09,683 DEBUG: Finished loading Data with LSID 'urn:lsid:uw.edu:UploadedFile.Folder-8927:1f3f75c5-d4f3-1039-937c-fea6ddf55d1e'
02 Aug 2021 23:04:09,683 DEBUG: Finished loading ProtocolApplication with LSID 'urn:lsid:uw.edu:Protocol.Folder-8927:TargetedMS.ImportSkyZip.Core'
02 Aug 2021 23:04:09,686 DEBUG: Finished loading ProtocolApplication with LSID 'urn:lsid:uw.edu:Protocol.Folder-8927:TargetedMS.ImportSkyZip.Output'
02 Aug 2021 23:04:09,686 DEBUG: Finished loading ExperimentRun with LSID 'urn:lsid:uw.edu:Run.Folder-8927:1f3f7b07-d4f3-1039-937c-fea6ddf55d1e'
02 Aug 2021 23:04:09,692 DEBUG: Trying to load data file file:///data/apache-tomcat/instance/panoramaweb/temp/Pipeline_temp/Radboud%20University%20Medical%20Center%20-%20Targeted%20MRM%20assay%20Complement%20System%20for%20AMD%20cohort_ba9c8904-d64c-1039-937c-fea6ddf55d1e/_temp__2021-08-02_23-02-05/export/xar/experiments_and_runs.xar.exploded/Run114802/20210730_Upload_to_Panoramaweb_2021-08-01_13-58-54/20210730_Upload_to_Panoramaweb.skyd into the system
02 Aug 2021 23:04:09,692 DEBUG: Finished trying to load data file file:///data/apache-tomcat/instance/panoramaweb/temp/Pipeline_temp/Radboud%20University%20Medical%20Center%20-%20Targeted%20MRM%20assay%20Complement%20System%20for%20AMD%20cohort_ba9c8904-d64c-1039-937c-fea6ddf55d1e/_temp__2021-08-02_23-02-05/export/xar/experiments_and_runs.xar.exploded/Run114802/20210730_Upload_to_Panoramaweb_2021-08-01_13-58-54/20210730_Upload_to_Panoramaweb.skyd into the system
02 Aug 2021 23:04:09,692 DEBUG: Trying to load data file file:///data/apache-tomcat/instance/panoramaweb/temp/Pipeline_temp/Radboud%20University%20Medical%20Center%20-%20Targeted%20MRM%20assay%20Complement%20System%20for%20AMD%20cohort_ba9c8904-d64c-1039-937c-fea6ddf55d1e/_temp__2021-08-02_23-02-05/export/xar/experiments_and_runs.xar.exploded/Run114802/20210730_Upload_to_Panoramaweb_2021-08-01_13-58-54.sky.zip into the system
02 Aug 2021 23:04:09,693 INFO : Starting import from 20210730_Upload_to_Panoramaweb_2021-08-01_13-58-54.sky.zip
02 Aug 2021 23:04:09,697 INFO : Starting to import Skyline document from 20210730_Upload_to_Panoramaweb_2021-08-01_13-58-54.sky.zip
02 Aug 2021 23:04:09,729 INFO : Expanding HumanPlasma_2012-08_all.sptxt
02 Aug 2021 23:04:13,933 INFO : Expanding 20210730_Upload_to_Panoramaweb.skyd
02 Aug 2021 23:04:14,700 INFO : Expanding 20210730_Upload_to_Panoramaweb.sky.view
02 Aug 2021 23:04:14,701 INFO : Expanding 20210730_Upload_to_Panoramaweb.sky
02 Aug 2021 23:04:15,058 INFO : 1% Done
02 Aug 2021 23:04:16,431 DEBUG: Starting to load chromatogram headers
02 Aug 2021 23:04:16,584 DEBUG: Done loading chromatogram headers
02 Aug 2021 23:04:17,536 INFO : Inserting sp|P02745|C1QA_HUMAN
02 Aug 2021 23:04:17,629 INFO : 2% Done
02 Aug 2021 23:04:18,130 DEBUG: Total peptides inserted: 1
02 Aug 2021 23:04:18,313 INFO : Inserting sp|P02746|C1QB_HUMAN
02 Aug 2021 23:04:18,373 INFO : 3% Done
02 Aug 2021 23:04:18,912 INFO : 4% Done
02 Aug 2021 23:04:19,343 DEBUG: Total peptides inserted: 2
02 Aug 2021 23:04:19,346 INFO : Inserting sp|P02747|C1QC_HUMAN
02 Aug 2021 23:04:19,388 INFO : 6% Done
02 Aug 2021 23:04:19,847 INFO : 7% Done
02 Aug 2021 23:04:20,274 DEBUG: Total peptides inserted: 2
02 Aug 2021 23:04:20,277 INFO : Inserting sp|P00736|C1R_HUMAN
02 Aug 2021 23:04:20,319 INFO : 8% Done
02 Aug 2021 23:04:20,786 INFO : 10% Done
02 Aug 2021 23:04:21,254 DEBUG: Total peptides inserted: 2
02 Aug 2021 23:04:21,258 INFO : Inserting sp|P09871|C1S_HUMAN
02 Aug 2021 23:04:21,706 INFO : 12% Done
02 Aug 2021 23:04:22,130 DEBUG: Total peptides inserted: 2
02 Aug 2021 23:04:22,133 INFO : Inserting sp|P06681|CO2_HUMAN
02 Aug 2021 23:04:22,183 INFO : 13% Done
02 Aug 2021 23:04:22,648 INFO : 14% Done
02 Aug 2021 23:04:23,081 DEBUG: Total peptides inserted: 2
02 Aug 2021 23:04:23,085 INFO : Inserting sp|P01024|CO3_HUMAN
02 Aug 2021 23:04:23,125 INFO : 15% Done
02 Aug 2021 23:04:23,610 INFO : 17% Done
02 Aug 2021 23:04:24,064 DEBUG: Total peptides inserted: 2
02 Aug 2021 23:04:24,068 INFO : Inserting sp|P0C0L5|CO4_HUMAN
02 Aug 2021 23:04:24,112 INFO : 18% Done
02 Aug 2021 23:04:24,607 INFO : 19% Done
02 Aug 2021 23:04:24,997 INFO : 21% Done
02 Aug 2021 23:04:25,483 INFO : 22% Done
02 Aug 2021 23:04:25,910 DEBUG: Total peptides inserted: 4
02 Aug 2021 23:04:25,914 INFO : Inserting sp|P01031|CO5_HUMAN
02 Aug 2021 23:04:25,954 INFO : 23% Done
02 Aug 2021 23:04:26,410 INFO : 24% Done
02 Aug 2021 23:04:26,859 INFO : 26% Done
02 Aug 2021 23:04:27,780 DEBUG: Total peptides inserted: 4
02 Aug 2021 23:04:27,784 INFO : Inserting sp|P13671|CO6_HUMAN
02 Aug 2021 23:04:27,823 INFO : 28% Done
02 Aug 2021 23:04:28,276 INFO : 29% Done
02 Aug 2021 23:04:28,623 DEBUG: Total peptides inserted: 2
02 Aug 2021 23:04:28,626 INFO : Inserting sp|P10643|CO7_HUMAN
02 Aug 2021 23:04:28,677 INFO : 30% Done
02 Aug 2021 23:04:29,154 INFO : 31% Done
02 Aug 2021 23:04:29,575 DEBUG: Total peptides inserted: 2
02 Aug 2021 23:04:29,578 INFO : Inserting sp|P07357|CO8A_HUMAN
02 Aug 2021 23:04:29,620 INFO : 33% Done
02 Aug 2021 23:04:30,094 INFO : 34% Done
02 Aug 2021 23:04:30,517 DEBUG: Total peptides inserted: 2
02 Aug 2021 23:04:30,520 INFO : Inserting sp|P07358|CO8B_HUMAN
02 Aug 2021 23:04:30,562 INFO : 35% Done
02 Aug 2021 23:04:31,030 INFO : 37% Done
02 Aug 2021 23:04:31,449 DEBUG: Total peptides inserted: 2
02 Aug 2021 23:04:31,452 INFO : Inserting sp|P07360|CO8G_HUMAN
02 Aug 2021 23:04:31,491 INFO : 38% Done
02 Aug 2021 23:04:31,948 INFO : 39% Done
02 Aug 2021 23:04:32,417 INFO : 41% Done
02 Aug 2021 23:04:32,854 DEBUG: Total peptides inserted: 3
02 Aug 2021 23:04:32,857 INFO : Inserting sp|P02748|CO9_HUMAN
02 Aug 2021 23:04:32,900 INFO : 42% Done
02 Aug 2021 23:04:33,365 INFO : 43% Done
02 Aug 2021 23:04:33,741 INFO : 44% Done
02 Aug 2021 23:04:34,177 DEBUG: Total peptides inserted: 3
02 Aug 2021 23:04:34,180 INFO : Inserting sp|P00751|CFAB_HUMAN
02 Aug 2021 23:04:34,217 INFO : 46% Done
02 Aug 2021 23:04:35,235 INFO : 48% Done
02 Aug 2021 23:04:35,684 DEBUG: Total peptides inserted: 3
02 Aug 2021 23:04:35,687 INFO : Inserting sp|P00746|CFAD_HUMAN
02 Aug 2021 23:04:35,724 INFO : 50% Done
02 Aug 2021 23:04:36,156 DEBUG: Total peptides inserted: 1
02 Aug 2021 23:04:36,159 INFO : Inserting sp|P08603|CFAH_HUMAN
02 Aug 2021 23:04:36,702 INFO : 52% Done
02 Aug 2021 23:04:37,187 INFO : 53% Done
02 Aug 2021 23:04:37,621 DEBUG: Total peptides inserted: 3
02 Aug 2021 23:04:37,624 INFO : Inserting sp|P05156|CFAI_HUMAN
02 Aug 2021 23:04:37,664 INFO : 54% Done
02 Aug 2021 23:04:38,100 DEBUG: Total peptides inserted: 1
02 Aug 2021 23:04:38,103 INFO : Inserting sp|P02741|CRP_HUMAN
02 Aug 2021 23:04:38,145 INFO : 56% Done
02 Aug 2021 23:04:38,563 DEBUG: Total peptides inserted: 1
02 Aug 2021 23:04:38,566 INFO : Inserting sp|P27918|PROP_HUMAN
02 Aug 2021 23:04:38,597 INFO : 57% Done
02 Aug 2021 23:04:38,941 DEBUG: Total peptides inserted: 1
02 Aug 2021 23:04:38,944 INFO : Inserting sp|P48740|MASP1_HUMAN
02 Aug 2021 23:04:38,984 INFO : 58% Done
02 Aug 2021 23:04:39,455 INFO : 59% Done
02 Aug 2021 23:04:39,915 INFO : 60% Done
02 Aug 2021 23:04:40,256 DEBUG: Total peptides inserted: 3
02 Aug 2021 23:04:40,259 INFO : Inserting sp|P48740-2|MASP3_HUMAN
02 Aug 2021 23:04:40,312 INFO : 62% Done
02 Aug 2021 23:04:40,733 DEBUG: Total peptides inserted: 1
02 Aug 2021 23:04:40,736 INFO : Inserting sp|P11226|MBL2_HUMAN
02 Aug 2021 23:04:41,151 INFO : 64% Done
02 Aug 2021 23:04:41,575 DEBUG: Total peptides inserted: 2
02 Aug 2021 23:04:41,578 INFO : Inserting sp|O75636|FCN3_HUMAN
02 Aug 2021 23:04:41,616 INFO : 65% Done
02 Aug 2021 23:04:42,079 INFO : 66% Done
02 Aug 2021 23:04:42,507 DEBUG: Total peptides inserted: 2
02 Aug 2021 23:04:42,511 INFO : Inserting sp|Q9BWP8|COL11_HUMAN
02 Aug 2021 23:04:42,551 INFO : 67% Done
02 Aug 2021 23:04:42,980 DEBUG: Total peptides inserted: 1
02 Aug 2021 23:04:42,982 INFO : Inserting sp|P04003|C4BPA_HUMAN
02 Aug 2021 23:04:43,025 INFO : 69% Done
02 Aug 2021 23:04:43,481 INFO : 70% Done
02 Aug 2021 23:04:43,895 DEBUG: Total peptides inserted: 2
02 Aug 2021 23:04:43,898 INFO : Inserting sp|P20851|C4BPB_HUMAN
02 Aug 2021 23:04:43,934 INFO : 71% Done
02 Aug 2021 23:04:44,347 DEBUG: Total peptides inserted: 1
02 Aug 2021 23:04:44,350 INFO : Inserting sp|P05155|IC1_HUMAN
02 Aug 2021 23:04:44,385 INFO : 73% Done
02 Aug 2021 23:04:44,830 INFO : 74% Done
02 Aug 2021 23:04:45,301 DEBUG: Total peptides inserted: 2
02 Aug 2021 23:04:45,305 INFO : Inserting sp|P10909|CLUS_HUMAN
02 Aug 2021 23:04:45,340 INFO : 75% Done
02 Aug 2021 23:04:45,743 INFO : 76% Done
02 Aug 2021 23:04:46,191 DEBUG: Total peptides inserted: 2
02 Aug 2021 23:04:46,194 INFO : Inserting sp|P04004|VTNC_HUMAN
02 Aug 2021 23:04:46,234 INFO : 78% Done
02 Aug 2021 23:04:47,150 DEBUG: Total peptides inserted: 2
02 Aug 2021 23:04:47,153 INFO : Inserting sp|P36980|FHR2_HUMAN
02 Aug 2021 23:04:47,190 INFO : 80% Done
02 Aug 2021 23:04:47,604 DEBUG: Total peptides inserted: 1
02 Aug 2021 23:04:47,606 INFO : Done parsing Skyline document.
02 Aug 2021 23:04:47,632 INFO : No group comparisons found.
02 Aug 2021 23:04:47,632 INFO : Calculating calibration curves
02 Aug 2021 23:04:47,633 DEBUG: Calculating calibration curve for sp|P02745|C1QA_HUMAN, 1 of 32
02 Aug 2021 23:04:47,748 INFO : 81% Done
02 Aug 2021 23:04:47,748 DEBUG: Calculating calibration curve for sp|P02746|C1QB_HUMAN, 2 of 32
02 Aug 2021 23:04:47,960 DEBUG: Calculating calibration curve for sp|P02747|C1QC_HUMAN, 3 of 32
02 Aug 2021 23:04:48,178 INFO : 82% Done
02 Aug 2021 23:04:48,178 DEBUG: Calculating calibration curve for sp|P00736|C1R_HUMAN, 4 of 32
02 Aug 2021 23:04:48,384 DEBUG: Calculating calibration curve for sp|P09871|C1S_HUMAN, 5 of 32
02 Aug 2021 23:04:48,552 INFO : 83% Done
02 Aug 2021 23:04:48,552 DEBUG: Calculating calibration curve for sp|P06681|CO2_HUMAN, 6 of 32
02 Aug 2021 23:04:48,748 DEBUG: Calculating calibration curve for sp|P01024|CO3_HUMAN, 7 of 32
02 Aug 2021 23:04:48,970 INFO : 84% Done
02 Aug 2021 23:04:48,970 DEBUG: Calculating calibration curve for sp|P0C0L5|CO4_HUMAN, 8 of 32
02 Aug 2021 23:04:49,313 INFO : 85% Done
02 Aug 2021 23:04:49,313 DEBUG: Calculating calibration curve for sp|P01031|CO5_HUMAN, 9 of 32
02 Aug 2021 23:04:49,662 DEBUG: Calculating calibration curve for sp|P13671|CO6_HUMAN, 10 of 32
02 Aug 2021 23:04:49,814 INFO : 86% Done
02 Aug 2021 23:04:49,814 DEBUG: Calculating calibration curve for sp|P10643|CO7_HUMAN, 11 of 32
02 Aug 2021 23:04:49,992 DEBUG: Calculating calibration curve for sp|P07357|CO8A_HUMAN, 12 of 32
02 Aug 2021 23:04:50,168 INFO : 87% Done
02 Aug 2021 23:04:50,168 DEBUG: Calculating calibration curve for sp|P07358|CO8B_HUMAN, 13 of 32
02 Aug 2021 23:04:50,340 DEBUG: Calculating calibration curve for sp|P07360|CO8G_HUMAN, 14 of 32
02 Aug 2021 23:04:50,602 INFO : 88% Done
02 Aug 2021 23:04:50,602 DEBUG: Calculating calibration curve for sp|P02748|CO9_HUMAN, 15 of 32
02 Aug 2021 23:04:50,835 DEBUG: Calculating calibration curve for sp|P00751|CFAB_HUMAN, 16 of 32
02 Aug 2021 23:04:51,108 INFO : 89% Done
02 Aug 2021 23:04:51,108 DEBUG: Calculating calibration curve for sp|P00746|CFAD_HUMAN, 17 of 32
02 Aug 2021 23:04:51,197 INFO : 90% Done
02 Aug 2021 23:04:51,197 DEBUG: Calculating calibration curve for sp|P08603|CFAH_HUMAN, 18 of 32
02 Aug 2021 23:04:51,468 DEBUG: Calculating calibration curve for sp|P05156|CFAI_HUMAN, 19 of 32
02 Aug 2021 23:04:51,556 INFO : 91% Done
02 Aug 2021 23:04:51,556 DEBUG: Calculating calibration curve for sp|P02741|CRP_HUMAN, 20 of 32
02 Aug 2021 23:04:51,646 DEBUG: Calculating calibration curve for sp|P27918|PROP_HUMAN, 21 of 32
02 Aug 2021 23:04:51,711 INFO : 92% Done
02 Aug 2021 23:04:51,711 DEBUG: Calculating calibration curve for sp|P48740|MASP1_HUMAN, 22 of 32
02 Aug 2021 23:04:51,977 DEBUG: Calculating calibration curve for sp|P48740-2|MASP3_HUMAN, 23 of 32
02 Aug 2021 23:04:52,084 INFO : 93% Done
02 Aug 2021 23:04:52,084 DEBUG: Calculating calibration curve for sp|P11226|MBL2_HUMAN, 24 of 32
02 Aug 2021 23:04:52,250 INFO : 94% Done
02 Aug 2021 23:04:52,250 DEBUG: Calculating calibration curve for sp|O75636|FCN3_HUMAN, 25 of 32
02 Aug 2021 23:04:52,436 DEBUG: Calculating calibration curve for sp|Q9BWP8|COL11_HUMAN, 26 of 32
02 Aug 2021 23:04:52,544 INFO : 95% Done
02 Aug 2021 23:04:52,544 DEBUG: Calculating calibration curve for sp|P04003|C4BPA_HUMAN, 27 of 32
02 Aug 2021 23:04:52,855 DEBUG: Calculating calibration curve for sp|P20851|C4BPB_HUMAN, 28 of 32
02 Aug 2021 23:04:52,995 INFO : 96% Done
02 Aug 2021 23:04:52,996 DEBUG: Calculating calibration curve for sp|P05155|IC1_HUMAN, 29 of 32
02 Aug 2021 23:04:53,252 DEBUG: Calculating calibration curve for sp|P10909|CLUS_HUMAN, 30 of 32
02 Aug 2021 23:04:53,445 INFO : 97% Done
02 Aug 2021 23:04:53,445 DEBUG: Calculating calibration curve for sp|P04004|VTNC_HUMAN, 31 of 32
02 Aug 2021 23:04:53,622 DEBUG: Calculating calibration curve for sp|P36980|FHR2_HUMAN, 32 of 32
02 Aug 2021 23:04:53,713 INFO : 98% Done
02 Aug 2021 23:04:53,723 INFO : Done calculating calibration curves.
02 Aug 2021 23:04:53,724 INFO : Creating and populating temp tables for Proportion values
02 Aug 2021 23:04:54,117 INFO : Setting PrecursorModifiedAreaProportion values on precursorchrominfo
02 Aug 2021 23:04:56,804 INFO : Setting ModifiedAreaProportion values on generalmoleculechrominfo
02 Aug 2021 23:04:57,737 INFO : Cleaning up temp tables
02 Aug 2021 23:04:57,970 INFO : Completed import of Skyline document from 20210730_Upload_to_Panoramaweb_2021-08-01_13-58-54.sky.zip
02 Aug 2021 23:04:57,973 INFO : 100% Done
02 Aug 2021 23:04:57,978 DEBUG: Finished trying to load data file file:///data/apache-tomcat/instance/panoramaweb/temp/Pipeline_temp/Radboud%20University%20Medical%20Center%20-%20Targeted%20MRM%20assay%20Complement%20System%20for%20AMD%20cohort_ba9c8904-d64c-1039-937c-fea6ddf55d1e/_temp__2021-08-02_23-02-05/export/xar/experiments_and_runs.xar.exploded/Run114802/20210730_Upload_to_Panoramaweb_2021-08-01_13-58-54.sky.zip into the system
02 Aug 2021 23:04:57,984 INFO : Done importing xar
02 Aug 2021 23:04:57,986 INFO : Loading pages and webpart properties
02 Aug 2021 23:04:58,053 INFO : Done importing pages and webpart properties
02 Aug 2021 23:04:58,054 INFO :
02 Aug 2021 23:04:58,054 INFO : Experiment import completed successfully.
02 Aug 2021 23:04:58,054 INFO : Successfully completed task 'org.labkey.panoramapublic.pipeline.ExperimentImportTask'
02 Aug 2021 23:04:58,106 INFO : Starting to run task 'org.labkey.panoramapublic.pipeline.CopyExperimentFinalTask' at location 'webserver-high-priority'
02 Aug 2021 23:04:58,106 INFO :
02 Aug 2021 23:04:58,106 INFO : Finishing up experiment copy.
02 Aug 2021 23:04:58,107 INFO : Creating a new TargetedMS experiment entry in panoramapublic.ExperimentAnnotations.
02 Aug 2021 23:04:58,109 INFO : Assigning a ProteomeXchange ID.
02 Aug 2021 23:04:59,053 INFO : Assigning a DOI.
02 Aug 2021 23:05:01,340 INFO : Assigned DOI: 10.6069/93zy-n716
02 Aug 2021 23:05:01,345 INFO : Updating access URL to point to the new copy of the data.
02 Aug 2021 23:05:01,351 INFO : Setting the 'copied' timestamp and journalExperimentId on the JournalExperiment table.
02 Aug 2021 23:05:01,352 INFO : Removing copy permissions given to journal.
02 Aug 2021 23:05:01,361 INFO : Adding read permissions to all users that are folder admins in the source container.
02 Aug 2021 23:05:01,367 INFO : Setting the TargetedMS folder type to 'Experimental Data'
02 Aug 2021 23:05:01,371 INFO : Updating the 'Raw Data' tab configuration
02 Aug 2021 23:05:01,373 INFO : Updating dataFileUrls for run 20210730_Upload_to_Panoramaweb_2021-08-01_13-58-54.sky.zip; targetedms run ID 117405
02 Aug 2021 23:05:01,373 INFO : Updating dataFileUrl...
02 Aug 2021 23:05:01,373 INFO : from: file:///data/apache-tomcat/instance/panoramaweb/temp/Pipeline_temp/Radboud%20University%20Medical%20Center%20-%20Targeted%20MRM%20assay%20Complement%20System%20for%20AMD%20cohort_ba9c8904-d64c-1039-937c-fea6ddf55d1e/_temp__2021-08-02_23-02-05/export/xar/experiments_and_runs.xar.exploded/Run114802/20210730_Upload_to_Panoramaweb_2021-08-01_13-58-54/20210730_Upload_to_Panoramaweb.skyd
02 Aug 2021 23:05:01,373 INFO : to: file:///data/labkey/files/Panorama%20Public/2021/Radboud%20University%20Medical%20Center%20-%20Targeted%20MRM%20assay%20Complement%20System%20for%20AMD%20cohort/@files/20210730_Upload_to_Panoramaweb_2021-08-01_13-58-54/20210730_Upload_to_Panoramaweb.skyd
02 Aug 2021 23:05:01,375 INFO : Updating dataFileUrl...
02 Aug 2021 23:05:01,375 INFO : from: file:///data/apache-tomcat/instance/panoramaweb/temp/Pipeline_temp/Radboud%20University%20Medical%20Center%20-%20Targeted%20MRM%20assay%20Complement%20System%20for%20AMD%20cohort_ba9c8904-d64c-1039-937c-fea6ddf55d1e/_temp__2021-08-02_23-02-05/export/xar/experiments_and_runs.xar.exploded/Run114802/20210730_Upload_to_Panoramaweb_2021-08-01_13-58-54.sky.zip
02 Aug 2021 23:05:01,375 INFO : to: file:///data/labkey/files/Panorama%20Public/2021/Radboud%20University%20Medical%20Center%20-%20Targeted%20MRM%20assay%20Complement%20System%20for%20AMD%20cohort/@files/20210730_Upload_to_Panoramaweb_2021-08-01_13-58-54.sky.zip
02 Aug 2021 23:05:01,378 INFO : Creating a reviewer account.
02 Aug 2021 23:05:01,573 INFO : Created reviewer with email: User panorama+reviewer53@proteinms.net
02 Aug 2021 23:05:01,580 INFO : Hiding the Data Pipeline tab.
02 Aug 2021 23:05:01,667 INFO : Emailing submitter.
02 Aug 2021 23:05:01,765 INFO : Successfully completed task 'org.labkey.panoramapublic.pipeline.CopyExperimentFinalTask'