Listening on http://127.0.0.1:33093 Loading required package: bfabricShiny Attaching package: 'bfabricShiny' The following object is masked from 'package:base': save Loading required package: protViz Loading required package: rawDiag Loading required package: parallel Loading required package: tidyr Loading required package: rmarkdown Loading required package: base64enc Loading required package: ggplot2 Loading required package: lattice Loading required package: PKI #rows are 0 saving 'login and webservicepassword' ... output$employee <- renderUI({ read bfabricposturl https://fgcz-c-072.uzh.ch:5000/. Warning in .read(login = login, webservicepassword = webservicepassword, : query failed. bfabricConnectionWorking FALSE output$employee <- renderUI({ Warning in .read(login = login, webservicepassword = webservicepassword, : query failed. bfabricConnectionWorking FALSE output$employee <- renderUI({ bfabricConnectionWorking TRUE 'empdegree' found. saving 'login and webservicepassword' ... saving 'login and webservicepassword' ... saving 'login and webservicepassword' ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p32919/Proteomics/EXPLORIS_2/analytic_20230921/20230921_C32919_003_S564828_W-2_Control.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p32919/Proteomics/EXPLORIS_2/analytic_20230921/20230921_C32919_008_S564832_Wplus3_Group_1.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p32919/Proteomics/EXPLORIS_2/analytic_20230921/20230921_C32919_002_S564829_W-3_Control.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p32919/Proteomics/EXPLORIS_2/analytic_20230921/20230921_C32919_007_S564830_Wplus1_Group_1.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p32919/Proteomics/EXPLORIS_2/analytic_20230921/20230921_C32919_009_S564827_W-1_Control.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p32919/Proteomics/EXPLORIS_2/analytic_20230921/20230921_C32919_004_S564831_Wplus2_Group_1.raw qc ... missing column name(s): LMCorrection, ElapsedScanTimesec, transient, AGCMode, PrescanMode NA values replaced in MasterScanNumber renamed LMmZCorrectionppm to LMCorrection renamed AGCPSMode to PrescanMode missing column name(s): LMCorrection, ElapsedScanTimesec, transient, AGCMode, PrescanMode NA values replaced in MasterScanNumber renamed LMmZCorrectionppm to LMCorrection missing column name(s): LMCorrection, ElapsedScanTimesec, transient, AGCMode, PrescanMode NA values replaced in MasterScanNumber renamed LMmZCorrectionppm to LMCorrection renamed AGCPSMode to PrescanMode missing column name(s): LMCorrection, ElapsedScanTimesec, transient, AGCMode, PrescanMode NA values replaced in MasterScanNumber renamed AGCPSMode to PrescanMode renamed LMmZCorrectionppm to LMCorrection renamed AGCPSMode to PrescanMode missing column name(s): LMCorrection, ElapsedScanTimesec, transient, AGCMode, PrescanMode NA values replaced in MasterScanNumber renamed LMmZCorrectionppm to LMCorrection renamed AGCPSMode to PrescanMode missing column name(s): LMCorrection, ElapsedScanTimesec, transient, AGCMode, PrescanMode NA values replaced in MasterScanNumber renamed LMmZCorrectionppm to LMCorrection renamed AGCPSMode to PrescanMode #rows are 175780 output$tic.basepeak <- renderPlot({ #rows are 175780 output$download 2... saving 'login and webservicepassword' ... ggsave to file /tmp/RtmpgtuKDG/rawDiag-d6564610a722.pdf generated pdf /tmp/RtmpgtuKDG/rawDiag-d6564610a722.pdf bfabricShiny::uploadResource ... list(list(`_classname` = "workunit", `_id` = 293847, application = list(`_classname` = "application", `_id` = 225), container = list(`_classname` = "order", `_id` = 32919), created = "2023-09-22 10:11:19", createdby = "tobiasko", deletable = "true", description = "input files:\np32919/Proteomics/EXPLORIS_2/analytic_20230921/20230921_C32919_004_S564831_Wplus2_Group_1.raw\np32919/Proteomics/EXPLORIS_2/analytic_20230921/20230921_C32919_003_S564828_W-2_Control.raw \np32919/Proteomics/EXPLORIS_2/analytic_20230921/20230921_C32919_008_S564832_Wplus3_Group_1.raw\np32919/Proteomics/EXPLORIS_2/analytic_20230921/20230921_C32919_007_S564830_Wplus1_Group_1.raw\np32919/Proteomics/EXPLORIS_2/analytic_20230921/20230921_C32919_002_S564829_W-3_Control.raw \np32919/Proteomics/EXPLORIS_2/analytic_20230921/20230921_C32919_009_S564827_W-1_Control.raw \n\nGenerated by Rpkg https://github.com/fgcz/bfabricShiny/ version 0.12.22.\nSystem information: Linux, 5.10.0-21-amd64, #1 SMP Debian 5.10.162-1 (2023-01-21), fgcz-c-072, x86_64, unknown, www-data, www-data\n\nTo help us funding further development, please cite:\n(bfabricSiny) PMID: 36073980 DOI: 10.1515/jib-2022-0031", exportable = "false", inputresource = list(list(`_classname` = "resource", `_id` = 2359825), list(`_classname` = "resource", `_id` = 2359824), list(`_classname` = "resource", `_id` = 2359823), list(`_classname` = "resource", `_id` = 2359822), list(`_classname` = "resource", `_id` = 2359821), list(`_classname` = "resource", `_id` = 2359820)), modified = "2023-09-22 10:11:19", modifiedby = "tobiasko", name = "TIC and basepeak plot", status = "AVAILABLE", updatable = "true"))list(list(`_classname` = "resource", `_id` = 2359834, container = list(`_classname` = "order", `_id` = 32919), created = "2023-09-22 10:11:20", createdby = "tobiasko", deletable = "true", filechecksum = "e3e66fd9ecfb4e254c9648dbc060b359", junk = "false", modified = "2023-09-22 10:11:20", modifiedby = "tobiasko", name = "WU293847-20230922-1011-rawDiag.pdf", relativepath = "container_32919/workunit_293847/WU293847-20230922-1011-rawDiag.pdf", size = "162569", status = "available", storage = list(`_classname` = "storage", `_id` = 10), updatable = "true", uri = list("https://fgcz-bfabric.uzh.ch/dmexternal/container_32919/workunit_293847/WU293847-20230922-1011-rawDiag.pdf", "scp://localhost/export/bfabric/data/b-fabric-external-repo/container_32919/workunit_293847/WU293847-20230922-1011-rawDiag.pdf"), workunit = list(`_classname` = "workunit", `_id` = 293847))) The current plot is available as workunit 293847 #rows are 175780 output$download 1... saving 'login and webservicepassword' ... output$tic.basepeak <- renderPlot({ #rows are 175780 output$download 2... ggsave to file /tmp/RtmpgtuKDG/rawDiag-d65645bb4eb4b.pdf generated pdf /tmp/RtmpgtuKDG/rawDiag-d65645bb4eb4b.pdf bfabricShiny::uploadResource ... list(list(`_classname` = "workunit", `_id` = 293848, application = list(`_classname` = "application", `_id` = 225), container = list(`_classname` = "order", `_id` = 32919), created = "2023-09-22 10:11:29", createdby = "tobiasko", deletable = "true", description = "input files:\np32919/Proteomics/EXPLORIS_2/analytic_20230921/20230921_C32919_004_S564831_Wplus2_Group_1.raw\np32919/Proteomics/EXPLORIS_2/analytic_20230921/20230921_C32919_003_S564828_W-2_Control.raw \np32919/Proteomics/EXPLORIS_2/analytic_20230921/20230921_C32919_008_S564832_Wplus3_Group_1.raw\np32919/Proteomics/EXPLORIS_2/analytic_20230921/20230921_C32919_007_S564830_Wplus1_Group_1.raw\np32919/Proteomics/EXPLORIS_2/analytic_20230921/20230921_C32919_002_S564829_W-3_Control.raw \np32919/Proteomics/EXPLORIS_2/analytic_20230921/20230921_C32919_009_S564827_W-1_Control.raw \n\nGenerated by Rpkg https://github.com/fgcz/bfabricShiny/ version 0.12.22.\nSystem information: Linux, 5.10.0-21-amd64, #1 SMP Debian 5.10.162-1 (2023-01-21), fgcz-c-072, x86_64, unknown, www-data, www-data\n\nTo help us funding further development, please cite:\n(bfabricSiny) PMID: 36073980 DOI: 10.1515/jib-2022-0031", exportable = "false", inputresource = list(list(`_classname` = "resource", `_id` = 2359825), list(`_classname` = "resource", `_id` = 2359824), list(`_classname` = "resource", `_id` = 2359823), list(`_classname` = "resource", `_id` = 2359822), list(`_classname` = "resource", `_id` = 2359821), list(`_classname` = "resource", `_id` = 2359820)), modified = "2023-09-22 10:11:29", modifiedby = "tobiasko", name = "TIC and basepeak plot", status = "AVAILABLE", updatable = "true"))list(list(`_classname` = "resource", `_id` = 2359835, container = list(`_classname` = "order", `_id` = 32919), created = "2023-09-22 10:11:30", createdby = "tobiasko", deletable = "true", filechecksum = "abeb4ab2a0b698781eb5d370c7831db4", junk = "false", modified = "2023-09-22 10:11:30", modifiedby = "tobiasko", name = "WU293848-20230922-1011-rawDiag.pdf", relativepath = "container_32919/workunit_293848/WU293848-20230922-1011-rawDiag.pdf", size = "175587", status = "available", storage = list(`_classname` = "storage", `_id` = 10), updatable = "true", uri = list("https://fgcz-bfabric.uzh.ch/dmexternal/container_32919/workunit_293848/WU293848-20230922-1011-rawDiag.pdf", "scp://localhost/export/bfabric/data/b-fabric-external-repo/container_32919/workunit_293848/WU293848-20230922-1011-rawDiag.pdf"), workunit = list(`_classname` = "workunit", `_id` = 293848))) The current plot is available as workunit 293848 #rows are 175780 output$download 1... output$tic.basepeak <- renderPlot({ #rows are 175780 output$download 2... output$scan.frequency <- renderPlot Warning: Removed 29 rows containing missing values (`geom_line()`). #rows are 175780 output$download 2... ggsave to file /tmp/RtmpgtuKDG/rawDiag-d656415b58e4e.pdf Warning: Removed 29 rows containing missing values (`geom_line()`). generated pdf /tmp/RtmpgtuKDG/rawDiag-d656415b58e4e.pdf bfabricShiny::uploadResource ... list(list(`_classname` = "workunit", `_id` = 293849, application = list(`_classname` = "application", `_id` = 225), container = list(`_classname` = "order", `_id` = 32919), created = "2023-09-22 10:11:45", createdby = "tobiasko", deletable = "true", description = "input files:\np32919/Proteomics/EXPLORIS_2/analytic_20230921/20230921_C32919_004_S564831_Wplus2_Group_1.raw\np32919/Proteomics/EXPLORIS_2/analytic_20230921/20230921_C32919_003_S564828_W-2_Control.raw \np32919/Proteomics/EXPLORIS_2/analytic_20230921/20230921_C32919_008_S564832_Wplus3_Group_1.raw\np32919/Proteomics/EXPLORIS_2/analytic_20230921/20230921_C32919_007_S564830_Wplus1_Group_1.raw\np32919/Proteomics/EXPLORIS_2/analytic_20230921/20230921_C32919_002_S564829_W-3_Control.raw \np32919/Proteomics/EXPLORIS_2/analytic_20230921/20230921_C32919_009_S564827_W-1_Control.raw \n\nGenerated by Rpkg https://github.com/fgcz/bfabricShiny/ version 0.12.22.\nSystem information: Linux, 5.10.0-21-amd64, #1 SMP Debian 5.10.162-1 (2023-01-21), fgcz-c-072, x86_64, unknown, www-data, www-data\n\nTo help us funding further development, please cite:\n(bfabricSiny) PMID: 36073980 DOI: 10.1515/jib-2022-0031", exportable = "false", inputresource = list(list(`_classname` = "resource", `_id` = 2359825), list(`_classname` = "resource", `_id` = 2359824), list(`_classname` = "resource", `_id` = 2359823), list(`_classname` = "resource", `_id` = 2359822), list(`_classname` = "resource", `_id` = 2359821), list(`_classname` = "resource", `_id` = 2359820)), modified = "2023-09-22 10:11:45", modifiedby = "tobiasko", name = "scan frequency plot", status = "AVAILABLE", updatable = "true"))list(list(`_classname` = "resource", `_id` = 2359836, container = list(`_classname` = "order", `_id` = 32919), created = "2023-09-22 10:11:46", createdby = "tobiasko", deletable = "true", filechecksum = "9f403788e047f46b30f3092b10885a97", junk = "false", modified = "2023-09-22 10:11:46", modifiedby = "tobiasko", name = "WU293849-20230922-1011-rawDiag.pdf", relativepath = "container_32919/workunit_293849/WU293849-20230922-1011-rawDiag.pdf", size = "182036", status = "available", storage = list(`_classname` = "storage", `_id` = 10), updatable = "true", uri = list("https://fgcz-bfabric.uzh.ch/dmexternal/container_32919/workunit_293849/WU293849-20230922-1011-rawDiag.pdf", "scp://localhost/export/bfabric/data/b-fabric-external-repo/container_32919/workunit_293849/WU293849-20230922-1011-rawDiag.pdf"), workunit = list(`_classname` = "workunit", `_id` = 293849))) The current plot is available as workunit 293849 #rows are 175780 output$download 1... `geom_smooth()` using formula = 'y ~ x' #rows are 175780 output$download 2... ggsave to file /tmp/RtmpgtuKDG/rawDiag-d6564224ddf8d.pdf `geom_smooth()` using formula = 'y ~ x' generated pdf /tmp/RtmpgtuKDG/rawDiag-d6564224ddf8d.pdf bfabricShiny::uploadResource ... list(list(`_classname` = "workunit", `_id` = 293850, application = list(`_classname` = "application", `_id` = 225), container = list(`_classname` = "order", `_id` = 32919), created = "2023-09-22 10:12:02", createdby = "tobiasko", deletable = "true", description = "input files:\np32919/Proteomics/EXPLORIS_2/analytic_20230921/20230921_C32919_004_S564831_Wplus2_Group_1.raw\np32919/Proteomics/EXPLORIS_2/analytic_20230921/20230921_C32919_003_S564828_W-2_Control.raw \np32919/Proteomics/EXPLORIS_2/analytic_20230921/20230921_C32919_008_S564832_Wplus3_Group_1.raw\np32919/Proteomics/EXPLORIS_2/analytic_20230921/20230921_C32919_007_S564830_Wplus1_Group_1.raw\np32919/Proteomics/EXPLORIS_2/analytic_20230921/20230921_C32919_002_S564829_W-3_Control.raw \np32919/Proteomics/EXPLORIS_2/analytic_20230921/20230921_C32919_009_S564827_W-1_Control.raw \n\nGenerated by Rpkg https://github.com/fgcz/bfabricShiny/ version 0.12.22.\nSystem information: Linux, 5.10.0-21-amd64, #1 SMP Debian 5.10.162-1 (2023-01-21), fgcz-c-072, x86_64, unknown, www-data, www-data\n\nTo help us funding further development, please cite:\n(bfabricSiny) PMID: 36073980 DOI: 10.1515/jib-2022-0031", exportable = "false", inputresource = list(list(`_classname` = "resource", `_id` = 2359825), list(`_classname` = "resource", `_id` = 2359824), list(`_classname` = "resource", `_id` = 2359823), list(`_classname` = "resource", `_id` = 2359822), list(`_classname` = "resource", `_id` = 2359821), list(`_classname` = "resource", `_id` = 2359820)), modified = "2023-09-22 10:12:02", modifiedby = "tobiasko", name = "cycle load plot", status = "AVAILABLE", updatable = "true"))list(list(`_classname` = "resource", `_id` = 2359837, container = list(`_classname` = "order", `_id` = 32919), created = "2023-09-22 10:12:03", createdby = "tobiasko", deletable = "true", filechecksum = "be8b77fdf901ebe1b6188c611e5a28e7", junk = "false", modified = "2023-09-22 10:12:03", modifiedby = "tobiasko", name = "WU293850-20230922-1012-rawDiag.pdf", relativepath = "container_32919/workunit_293850/WU293850-20230922-1012-rawDiag.pdf", size = "301837", status = "available", storage = list(`_classname` = "storage", `_id` = 10), updatable = "true", uri = list("https://fgcz-bfabric.uzh.ch/dmexternal/container_32919/workunit_293850/WU293850-20230922-1012-rawDiag.pdf", "scp://localhost/export/bfabric/data/b-fabric-external-repo/container_32919/workunit_293850/WU293850-20230922-1012-rawDiag.pdf"), workunit = list(`_classname` = "workunit", `_id` = 293850))) The current plot is available as workunit 293850 #rows are 175780 output$download 1... #rows are 175780 output$download 2... ggsave to file /tmp/RtmpgtuKDG/rawDiag-d65644690929c.pdf generated pdf /tmp/RtmpgtuKDG/rawDiag-d65644690929c.pdf bfabricShiny::uploadResource ... list(list(`_classname` = "workunit", `_id` = 293851, application = list(`_classname` = "application", `_id` = 225), container = list(`_classname` = "order", `_id` = 32919), created = "2023-09-22 10:12:13", createdby = "tobiasko", deletable = "true", description = "input files:\np32919/Proteomics/EXPLORIS_2/analytic_20230921/20230921_C32919_004_S564831_Wplus2_Group_1.raw\np32919/Proteomics/EXPLORIS_2/analytic_20230921/20230921_C32919_003_S564828_W-2_Control.raw \np32919/Proteomics/EXPLORIS_2/analytic_20230921/20230921_C32919_008_S564832_Wplus3_Group_1.raw\np32919/Proteomics/EXPLORIS_2/analytic_20230921/20230921_C32919_007_S564830_Wplus1_Group_1.raw\np32919/Proteomics/EXPLORIS_2/analytic_20230921/20230921_C32919_002_S564829_W-3_Control.raw \np32919/Proteomics/EXPLORIS_2/analytic_20230921/20230921_C32919_009_S564827_W-1_Control.raw \n\nGenerated by Rpkg https://github.com/fgcz/bfabricShiny/ version 0.12.22.\nSystem information: Linux, 5.10.0-21-amd64, #1 SMP Debian 5.10.162-1 (2023-01-21), fgcz-c-072, x86_64, unknown, www-data, www-data\n\nTo help us funding further development, please cite:\n(bfabricSiny) PMID: 36073980 DOI: 10.1515/jib-2022-0031", exportable = "false", inputresource = list(list(`_classname` = "resource", `_id` = 2359825), list(`_classname` = "resource", `_id` = 2359824), list(`_classname` = "resource", `_id` = 2359823), list(`_classname` = "resource", `_id` = 2359822), list(`_classname` = "resource", `_id` = 2359821), list(`_classname` = "resource", `_id` = 2359820)), modified = "2023-09-22 10:12:13", modifiedby = "tobiasko", name = "lock mass correction plot", status = "AVAILABLE", updatable = "true"))list(list(`_classname` = "resource", `_id` = 2359838, container = list(`_classname` = "order", `_id` = 32919), created = "2023-09-22 10:12:14", createdby = "tobiasko", deletable = "true", filechecksum = "98dca6e6e912dc9e876d442247c40bb8", junk = "false", modified = "2023-09-22 10:12:14", modifiedby = "tobiasko", name = "WU293851-20230922-1012-rawDiag.pdf", relativepath = "container_32919/workunit_293851/WU293851-20230922-1012-rawDiag.pdf", size = "96393", status = "available", storage = list(`_classname` = "storage", `_id` = 10), updatable = "true", uri = list("https://fgcz-bfabric.uzh.ch/dmexternal/container_32919/workunit_293851/WU293851-20230922-1012-rawDiag.pdf", "scp://localhost/export/bfabric/data/b-fabric-external-repo/container_32919/workunit_293851/WU293851-20230922-1012-rawDiag.pdf"), workunit = list(`_classname` = "workunit", `_id` = 293851))) The current plot is available as workunit 293851 #rows are 175780 output$download 1... #rows are 175780 output$download 2... ggsave to file /tmp/RtmpgtuKDG/rawDiag-d65646a68e915.pdf generated pdf /tmp/RtmpgtuKDG/rawDiag-d65646a68e915.pdf bfabricShiny::uploadResource ... list(list(`_classname` = "workunit", `_id` = 293852, application = list(`_classname` = "application", `_id` = 225), container = list(`_classname` = "order", `_id` = 32919), created = "2023-09-22 10:12:32", createdby = "tobiasko", deletable = "true", description = "input files:\np32919/Proteomics/EXPLORIS_2/analytic_20230921/20230921_C32919_004_S564831_Wplus2_Group_1.raw\np32919/Proteomics/EXPLORIS_2/analytic_20230921/20230921_C32919_003_S564828_W-2_Control.raw \np32919/Proteomics/EXPLORIS_2/analytic_20230921/20230921_C32919_008_S564832_Wplus3_Group_1.raw\np32919/Proteomics/EXPLORIS_2/analytic_20230921/20230921_C32919_007_S564830_Wplus1_Group_1.raw\np32919/Proteomics/EXPLORIS_2/analytic_20230921/20230921_C32919_002_S564829_W-3_Control.raw \np32919/Proteomics/EXPLORIS_2/analytic_20230921/20230921_C32919_009_S564827_W-1_Control.raw \n\nGenerated by Rpkg https://github.com/fgcz/bfabricShiny/ version 0.12.22.\nSystem information: Linux, 5.10.0-21-amd64, #1 SMP Debian 5.10.162-1 (2023-01-21), fgcz-c-072, x86_64, unknown, www-data, www-data\n\nTo help us funding further development, please cite:\n(bfabricSiny) PMID: 36073980 DOI: 10.1515/jib-2022-0031", exportable = "false", inputresource = list(list(`_classname` = "resource", `_id` = 2359825), list(`_classname` = "resource", `_id` = 2359824), list(`_classname` = "resource", `_id` = 2359823), list(`_classname` = "resource", `_id` = 2359822), list(`_classname` = "resource", `_id` = 2359821), list(`_classname` = "resource", `_id` = 2359820)), modified = "2023-09-22 10:12:32", modifiedby = "tobiasko", name = "injection time plot", status = "AVAILABLE", updatable = "true"))list(list(`_classname` = "resource", `_id` = 2359839, container = list(`_classname` = "order", `_id` = 32919), created = "2023-09-22 10:12:33", createdby = "tobiasko", deletable = "true", filechecksum = "40293b2a7254e0b6e1a9b71606e02872", junk = "false", modified = "2023-09-22 10:12:33", modifiedby = "tobiasko", name = "WU293852-20230922-1012-rawDiag.pdf", relativepath = "container_32919/workunit_293852/WU293852-20230922-1012-rawDiag.pdf", size = "786125", status = "available", storage = list(`_classname` = "storage", `_id` = 10), updatable = "true", uri = list("https://fgcz-bfabric.uzh.ch/dmexternal/container_32919/workunit_293852/WU293852-20230922-1012-rawDiag.pdf", "scp://localhost/export/bfabric/data/b-fabric-external-repo/container_32919/workunit_293852/WU293852-20230922-1012-rawDiag.pdf"), workunit = list(`_classname` = "workunit", `_id` = 293852))) The current plot is available as workunit 293852 #rows are 175780 output$download 1... #rows are 175780 output$download 2... ggsave to file /tmp/RtmpgtuKDG/rawDiag-d65641bde4281.pdf generated pdf /tmp/RtmpgtuKDG/rawDiag-d65641bde4281.pdf bfabricShiny::uploadResource ... list(list(`_classname` = "workunit", `_id` = 293853, application = list(`_classname` = "application", `_id` = 225), container = list(`_classname` = "order", `_id` = 32919), created = "2023-09-22 10:12:42", createdby = "tobiasko", deletable = "true", description = "input files:\np32919/Proteomics/EXPLORIS_2/analytic_20230921/20230921_C32919_004_S564831_Wplus2_Group_1.raw\np32919/Proteomics/EXPLORIS_2/analytic_20230921/20230921_C32919_003_S564828_W-2_Control.raw \np32919/Proteomics/EXPLORIS_2/analytic_20230921/20230921_C32919_008_S564832_Wplus3_Group_1.raw\np32919/Proteomics/EXPLORIS_2/analytic_20230921/20230921_C32919_007_S564830_Wplus1_Group_1.raw\np32919/Proteomics/EXPLORIS_2/analytic_20230921/20230921_C32919_002_S564829_W-3_Control.raw \np32919/Proteomics/EXPLORIS_2/analytic_20230921/20230921_C32919_009_S564827_W-1_Control.raw \n\nGenerated by Rpkg https://github.com/fgcz/bfabricShiny/ version 0.12.22.\nSystem information: Linux, 5.10.0-21-amd64, #1 SMP Debian 5.10.162-1 (2023-01-21), fgcz-c-072, x86_64, unknown, www-data, www-data\n\nTo help us funding further development, please cite:\n(bfabricSiny) PMID: 36073980 DOI: 10.1515/jib-2022-0031", exportable = "false", inputresource = list(list(`_classname` = "resource", `_id` = 2359825), list(`_classname` = "resource", `_id` = 2359824), list(`_classname` = "resource", `_id` = 2359823), list(`_classname` = "resource", `_id` = 2359822), list(`_classname` = "resource", `_id` = 2359821), list(`_classname` = "resource", `_id` = 2359820)), modified = "2023-09-22 10:12:42", modifiedby = "tobiasko", name = "charge state plot", status = "AVAILABLE", updatable = "true"))list(list(`_classname` = "resource", `_id` = 2359840, container = list(`_classname` = "order", `_id` = 32919), created = "2023-09-22 10:12:43", createdby = "tobiasko", deletable = "true", filechecksum = "25459ff0151e1f09972822051e7beb59", junk = "false", modified = "2023-09-22 10:12:43", modifiedby = "tobiasko", name = "WU293853-20230922-1012-rawDiag.pdf", relativepath = "container_32919/workunit_293853/WU293853-20230922-1012-rawDiag.pdf", size = "8708", status = "available", storage = list(`_classname` = "storage", `_id` = 10), updatable = "true", uri = list("https://fgcz-bfabric.uzh.ch/dmexternal/container_32919/workunit_293853/WU293853-20230922-1012-rawDiag.pdf", "scp://localhost/export/bfabric/data/b-fabric-external-repo/container_32919/workunit_293853/WU293853-20230922-1012-rawDiag.pdf"), workunit = list(`_classname` = "workunit", `_id` = 293853))) The current plot is available as workunit 293853 #rows are 175780 output$download 1... DEBUG queryMass Warning: 'readXICs' is deprecated. Use 'rawrr::readChromatogram' instead. See help("Deprecated") Warning: 'readXICs' is deprecated. Use 'rawrr::readChromatogram' instead. See help("Deprecated") Warning: 'readXICs' is deprecated. Use 'rawrr::readChromatogram' instead. See help("Deprecated") Warning: 'readXICs' is deprecated. Use 'rawrr::readChromatogram' instead. See help("Deprecated") Warning: 'readXICs' is deprecated. Use 'rawrr::readChromatogram' instead. See help("Deprecated") Warning: 'readXICs' is deprecated. Use 'rawrr::readChromatogram' instead. See help("Deprecated") Warning: `aes_string()` was deprecated in ggplot2 3.0.0. ℹ Please use tidy evaluation idioms with `aes()`. ℹ See also `vignette("ggplot2-in-packages")` for more information. Warning: Using `size` aesthetic for lines was deprecated in ggplot2 3.4.0. ℹ Please use `linewidth` instead. #rows are 175780 output$download 2... ggsave to file /tmp/RtmpgtuKDG/rawDiag-d65647313ff1.pdf generated pdf /tmp/RtmpgtuKDG/rawDiag-d65647313ff1.pdf bfabricShiny::uploadResource ... list(list(`_classname` = "workunit", `_id` = 293854, application = list(`_classname` = "application", `_id` = 225), container = list(`_classname` = "order", `_id` = 32919), created = "2023-09-22 10:12:55", createdby = "tobiasko", deletable = "true", description = "input files:\np32919/Proteomics/EXPLORIS_2/analytic_20230921/20230921_C32919_004_S564831_Wplus2_Group_1.raw\np32919/Proteomics/EXPLORIS_2/analytic_20230921/20230921_C32919_003_S564828_W-2_Control.raw \np32919/Proteomics/EXPLORIS_2/analytic_20230921/20230921_C32919_008_S564832_Wplus3_Group_1.raw\np32919/Proteomics/EXPLORIS_2/analytic_20230921/20230921_C32919_007_S564830_Wplus1_Group_1.raw\np32919/Proteomics/EXPLORIS_2/analytic_20230921/20230921_C32919_002_S564829_W-3_Control.raw \np32919/Proteomics/EXPLORIS_2/analytic_20230921/20230921_C32919_009_S564827_W-1_Control.raw \n\nGenerated by Rpkg https://github.com/fgcz/bfabricShiny/ version 0.12.22.\nSystem information: Linux, 5.10.0-21-amd64, #1 SMP Debian 5.10.162-1 (2023-01-21), fgcz-c-072, x86_64, unknown, www-data, www-data\n\nTo help us funding further development, please cite:\n(bfabricSiny) PMID: 36073980 DOI: 10.1515/jib-2022-0031", exportable = "false", inputresource = list(list(`_classname` = "resource", `_id` = 2359825), list(`_classname` = "resource", `_id` = 2359824), list(`_classname` = "resource", `_id` = 2359823), list(`_classname` = "resource", `_id` = 2359822), list(`_classname` = "resource", `_id` = 2359821), list(`_classname` = "resource", `_id` = 2359820)), modified = "2023-09-22 10:12:55", modifiedby = "tobiasko", name = "XIC plot", status = "AVAILABLE", updatable = "true"))list(list(`_classname` = "resource", `_id` = 2359841, container = list(`_classname` = "order", `_id` = 32919), created = "2023-09-22 10:12:57", createdby = "tobiasko", deletable = "true", filechecksum = "5a8ad4cc153a46436982b103e3d8269b", junk = "false", modified = "2023-09-22 10:12:57", modifiedby = "tobiasko", name = "WU293854-20230922-1012-rawDiag.pdf", relativepath = "container_32919/workunit_293854/WU293854-20230922-1012-rawDiag.pdf", size = "34064", status = "available", storage = list(`_classname` = "storage", `_id` = 10), updatable = "true", uri = list("https://fgcz-bfabric.uzh.ch/dmexternal/container_32919/workunit_293854/WU293854-20230922-1012-rawDiag.pdf", "scp://localhost/export/bfabric/data/b-fabric-external-repo/container_32919/workunit_293854/WU293854-20230922-1012-rawDiag.pdf"), workunit = list(`_classname` = "workunit", `_id` = 293854))) The current plot is available as workunit 293854 #rows are 175780 output$download 1... Warning: Error in if: argument is of length zero 168: renderPlot [/usr/local/lib/R/site-library/bfabricShiny/shiny/bfabric_rawDiag/server.R#841] 166: func 126: drawPlot 112: 96: drawReactive 83: renderFunc 82: output$xic 1: runApp #rows are 175780 output$download 2... Warning: Error in if: argument is of length zero 168: renderPlot [/usr/local/lib/R/site-library/bfabricShiny/shiny/bfabric_rawDiag/server.R#841] 166: func 126: drawPlot 112: 96: drawReactive 83: renderFunc 82: output$xic 1: runApp executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p32917/Proteomics/EXPLORIS_2/analytic_20230921/20230921_C32917_008_S564826_Qplus3_Group_1.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p32917/Proteomics/EXPLORIS_2/analytic_20230921/20230921_C32917_009_S564825_Qplus2_Group_1.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p32917/Proteomics/EXPLORIS_2/analytic_20230921/20230921_C32917_002_S564824_Qplus1_Group_1.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p32917/Proteomics/EXPLORIS_2/analytic_20230921/20230921_C32917_003_S564821_Q-1_Control.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p32917/Proteomics/EXPLORIS_2/analytic_20230921/20230921_C32917_007_S564822_Q-2_Control.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p32917/Proteomics/EXPLORIS_2/analytic_20230921/20230921_C32917_004_S564823_Q-3_Control.raw qc ... missing column name(s): LMCorrection, ElapsedScanTimesec, transient, AGCMode, PrescanMode NA values replaced in MasterScanNumber renamed LMmZCorrectionppm to LMCorrection renamed AGCPSMode to PrescanMode missing column name(s): LMCorrection, ElapsedScanTimesec, transient, AGCMode, PrescanMode NA values replaced in MasterScanNumber renamed LMmZCorrectionppm to LMCorrection renamed AGCPSMode to PrescanMode missing column name(s): LMCorrection, ElapsedScanTimesec, transient, AGCMode, PrescanMode NA values replaced in MasterScanNumber renamed LMmZCorrectionppm to LMCorrection renamed AGCPSMode to PrescanMode missing column name(s): LMCorrection, ElapsedScanTimesec, transient, AGCMode, PrescanMode NA values replaced in MasterScanNumber renamed LMmZCorrectionppm to LMCorrection renamed AGCPSMode to PrescanMode missing column name(s): LMCorrection, ElapsedScanTimesec, transient, AGCMode, PrescanMode NA values replaced in MasterScanNumber renamed LMmZCorrectionppm to LMCorrection renamed AGCPSMode to PrescanMode missing column name(s): LMCorrection, ElapsedScanTimesec, transient, AGCMode, PrescanMode NA values replaced in MasterScanNumber renamed LMmZCorrectionppm to LMCorrection renamed AGCPSMode to PrescanMode #rows are 170945 output$download 2... output$tic.basepeak <- renderPlot({ #rows are 170945 output$download 2... ggsave to file /tmp/RtmpgtuKDG/rawDiag-d65646c880ff1.pdf generated pdf /tmp/RtmpgtuKDG/rawDiag-d65646c880ff1.pdf bfabricShiny::uploadResource ... list(list(`_classname` = "workunit", `_id` = 293856, application = list(`_classname` = "application", `_id` = 225), container = list(`_classname` = "order", `_id` = 32917), created = "2023-09-22 10:18:27", createdby = "tobiasko", deletable = "true", description = "input files:\np32917/Proteomics/EXPLORIS_2/analytic_20230921/20230921_C32917_009_S564825_Qplus2_Group_1.raw\np32917/Proteomics/EXPLORIS_2/analytic_20230921/20230921_C32917_008_S564826_Qplus3_Group_1.raw\np32917/Proteomics/EXPLORIS_2/analytic_20230921/20230921_C32917_002_S564824_Qplus1_Group_1.raw\np32917/Proteomics/EXPLORIS_2/analytic_20230921/20230921_C32917_003_S564821_Q-1_Control.raw \np32917/Proteomics/EXPLORIS_2/analytic_20230921/20230921_C32917_007_S564822_Q-2_Control.raw \np32917/Proteomics/EXPLORIS_2/analytic_20230921/20230921_C32917_004_S564823_Q-3_Control.raw \n\nGenerated by Rpkg https://github.com/fgcz/bfabricShiny/ version 0.12.22.\nSystem information: Linux, 5.10.0-21-amd64, #1 SMP Debian 5.10.162-1 (2023-01-21), fgcz-c-072, x86_64, unknown, www-data, www-data\n\nTo help us funding further development, please cite:\n(bfabricSiny) PMID: 36073980 DOI: 10.1515/jib-2022-0031", exportable = "false", inputresource = list(list(`_classname` = "resource", `_id` = 2359831), list(`_classname` = "resource", `_id` = 2359830), list(`_classname` = "resource", `_id` = 2359829), list(`_classname` = "resource", `_id` = 2359828), list(`_classname` = "resource", `_id` = 2359827), list(`_classname` = "resource", `_id` = 2359826)), modified = "2023-09-22 10:18:27", modifiedby = "tobiasko", name = "TIC and basepeak plot", status = "AVAILABLE", updatable = "true"))list(list(`_classname` = "resource", `_id` = 2359845, container = list(`_classname` = "order", `_id` = 32917), created = "2023-09-22 10:18:28", createdby = "tobiasko", deletable = "true", filechecksum = "d0e6e68a0b201d9b1bccd9894c87fdc6", junk = "false", modified = "2023-09-22 10:18:28", modifiedby = "tobiasko", name = "WU293856-20230922-1018-rawDiag.pdf", relativepath = "container_32917/workunit_293856/WU293856-20230922-1018-rawDiag.pdf", size = "165737", status = "available", storage = list(`_classname` = "storage", `_id` = 10), updatable = "true", uri = list("https://fgcz-bfabric.uzh.ch/dmexternal/container_32917/workunit_293856/WU293856-20230922-1018-rawDiag.pdf", "scp://localhost/export/bfabric/data/b-fabric-external-repo/container_32917/workunit_293856/WU293856-20230922-1018-rawDiag.pdf"), workunit = list(`_classname` = "workunit", `_id` = 293856))) The current plot is available as workunit 293856 #rows are 170945 output$download 1... output$tic.basepeak <- renderPlot({ #rows are 170945 output$download 2... ggsave to file /tmp/RtmpgtuKDG/rawDiag-d656456e94220.pdf generated pdf /tmp/RtmpgtuKDG/rawDiag-d656456e94220.pdf bfabricShiny::uploadResource ... list(list(`_classname` = "workunit", `_id` = 293857, application = list(`_classname` = "application", `_id` = 225), container = list(`_classname` = "order", `_id` = 32917), created = "2023-09-22 10:18:33", createdby = "tobiasko", deletable = "true", description = "input files:\np32917/Proteomics/EXPLORIS_2/analytic_20230921/20230921_C32917_009_S564825_Qplus2_Group_1.raw\np32917/Proteomics/EXPLORIS_2/analytic_20230921/20230921_C32917_008_S564826_Qplus3_Group_1.raw\np32917/Proteomics/EXPLORIS_2/analytic_20230921/20230921_C32917_002_S564824_Qplus1_Group_1.raw\np32917/Proteomics/EXPLORIS_2/analytic_20230921/20230921_C32917_003_S564821_Q-1_Control.raw \np32917/Proteomics/EXPLORIS_2/analytic_20230921/20230921_C32917_007_S564822_Q-2_Control.raw \np32917/Proteomics/EXPLORIS_2/analytic_20230921/20230921_C32917_004_S564823_Q-3_Control.raw \n\nGenerated by Rpkg https://github.com/fgcz/bfabricShiny/ version 0.12.22.\nSystem information: Linux, 5.10.0-21-amd64, #1 SMP Debian 5.10.162-1 (2023-01-21), fgcz-c-072, x86_64, unknown, www-data, www-data\n\nTo help us funding further development, please cite:\n(bfabricSiny) PMID: 36073980 DOI: 10.1515/jib-2022-0031", exportable = "false", inputresource = list(list(`_classname` = "resource", `_id` = 2359831), list(`_classname` = "resource", `_id` = 2359830), list(`_classname` = "resource", `_id` = 2359829), list(`_classname` = "resource", `_id` = 2359828), list(`_classname` = "resource", `_id` = 2359827), list(`_classname` = "resource", `_id` = 2359826)), modified = "2023-09-22 10:18:33", modifiedby = "tobiasko", name = "TIC and basepeak plot", status = "AVAILABLE", updatable = "true"))list(list(`_classname` = "resource", `_id` = 2359846, container = list(`_classname` = "order", `_id` = 32917), created = "2023-09-22 10:18:34", createdby = "tobiasko", deletable = "true", filechecksum = "221e4a2df1f20b6275758fd1de1ccf52", junk = "false", modified = "2023-09-22 10:18:34", modifiedby = "tobiasko", name = "WU293857-20230922-1018-rawDiag.pdf", relativepath = "container_32917/workunit_293857/WU293857-20230922-1018-rawDiag.pdf", size = "178198", status = "available", storage = list(`_classname` = "storage", `_id` = 10), updatable = "true", uri = list("https://fgcz-bfabric.uzh.ch/dmexternal/container_32917/workunit_293857/WU293857-20230922-1018-rawDiag.pdf", "scp://localhost/export/bfabric/data/b-fabric-external-repo/container_32917/workunit_293857/WU293857-20230922-1018-rawDiag.pdf"), workunit = list(`_classname` = "workunit", `_id` = 293857))) The current plot is available as workunit 293857 #rows are 170945 output$download 1... output$tic.basepeak <- renderPlot({ #rows are 170945 output$download 2... output$scan.frequency <- renderPlot Warning: Removed 29 rows containing missing values (`geom_line()`). #rows are 170945 output$download 2... ggsave to file /tmp/RtmpgtuKDG/rawDiag-d656437064ff1.pdf Warning: Removed 29 rows containing missing values (`geom_line()`). generated pdf /tmp/RtmpgtuKDG/rawDiag-d656437064ff1.pdf bfabricShiny::uploadResource ... list(list(`_classname` = "workunit", `_id` = 293858, application = list(`_classname` = "application", `_id` = 225), container = list(`_classname` = "order", `_id` = 32917), created = "2023-09-22 10:19:08", createdby = "tobiasko", deletable = "true", description = "input files:\np32917/Proteomics/EXPLORIS_2/analytic_20230921/20230921_C32917_009_S564825_Qplus2_Group_1.raw\np32917/Proteomics/EXPLORIS_2/analytic_20230921/20230921_C32917_008_S564826_Qplus3_Group_1.raw\np32917/Proteomics/EXPLORIS_2/analytic_20230921/20230921_C32917_002_S564824_Qplus1_Group_1.raw\np32917/Proteomics/EXPLORIS_2/analytic_20230921/20230921_C32917_003_S564821_Q-1_Control.raw \np32917/Proteomics/EXPLORIS_2/analytic_20230921/20230921_C32917_007_S564822_Q-2_Control.raw \np32917/Proteomics/EXPLORIS_2/analytic_20230921/20230921_C32917_004_S564823_Q-3_Control.raw \n\nGenerated by Rpkg https://github.com/fgcz/bfabricShiny/ version 0.12.22.\nSystem information: Linux, 5.10.0-21-amd64, #1 SMP Debian 5.10.162-1 (2023-01-21), fgcz-c-072, x86_64, unknown, www-data, www-data\n\nTo help us funding further development, please cite:\n(bfabricSiny) PMID: 36073980 DOI: 10.1515/jib-2022-0031", exportable = "false", inputresource = list(list(`_classname` = "resource", `_id` = 2359831), list(`_classname` = "resource", `_id` = 2359830), list(`_classname` = "resource", `_id` = 2359829), list(`_classname` = "resource", `_id` = 2359828), list(`_classname` = "resource", `_id` = 2359827), list(`_classname` = "resource", `_id` = 2359826)), modified = "2023-09-22 10:19:08", modifiedby = "tobiasko", name = "scan frequency plot", status = "AVAILABLE", updatable = "true"))list(list(`_classname` = "resource", `_id` = 2359847, container = list(`_classname` = "order", `_id` = 32917), created = "2023-09-22 10:19:09", createdby = "tobiasko", deletable = "true", filechecksum = "13044e2b52b11296c6d269f0b8dcae1f", junk = "false", modified = "2023-09-22 10:19:09", modifiedby = "tobiasko", name = "WU293858-20230922-1019-rawDiag.pdf", relativepath = "container_32917/workunit_293858/WU293858-20230922-1019-rawDiag.pdf", size = "180796", status = "available", storage = list(`_classname` = "storage", `_id` = 10), updatable = "true", uri = list("https://fgcz-bfabric.uzh.ch/dmexternal/container_32917/workunit_293858/WU293858-20230922-1019-rawDiag.pdf", "scp://localhost/export/bfabric/data/b-fabric-external-repo/container_32917/workunit_293858/WU293858-20230922-1019-rawDiag.pdf"), workunit = list(`_classname` = "workunit", `_id` = 293858))) The current plot is available as workunit 293858 #rows are 170945 output$download 1... `geom_smooth()` using formula = 'y ~ x' #rows are 170945 output$download 2... ggsave to file /tmp/RtmpgtuKDG/rawDiag-d65646cb095d2.pdf `geom_smooth()` using formula = 'y ~ x' generated pdf /tmp/RtmpgtuKDG/rawDiag-d65646cb095d2.pdf bfabricShiny::uploadResource ... list(list(`_classname` = "workunit", `_id` = 293859, application = list(`_classname` = "application", `_id` = 225), container = list(`_classname` = "order", `_id` = 32917), created = "2023-09-22 10:19:25", createdby = "tobiasko", deletable = "true", description = "input files:\np32917/Proteomics/EXPLORIS_2/analytic_20230921/20230921_C32917_009_S564825_Qplus2_Group_1.raw\np32917/Proteomics/EXPLORIS_2/analytic_20230921/20230921_C32917_008_S564826_Qplus3_Group_1.raw\np32917/Proteomics/EXPLORIS_2/analytic_20230921/20230921_C32917_002_S564824_Qplus1_Group_1.raw\np32917/Proteomics/EXPLORIS_2/analytic_20230921/20230921_C32917_003_S564821_Q-1_Control.raw \np32917/Proteomics/EXPLORIS_2/analytic_20230921/20230921_C32917_007_S564822_Q-2_Control.raw \np32917/Proteomics/EXPLORIS_2/analytic_20230921/20230921_C32917_004_S564823_Q-3_Control.raw \n\nGenerated by Rpkg https://github.com/fgcz/bfabricShiny/ version 0.12.22.\nSystem information: Linux, 5.10.0-21-amd64, #1 SMP Debian 5.10.162-1 (2023-01-21), fgcz-c-072, x86_64, unknown, www-data, www-data\n\nTo help us funding further development, please cite:\n(bfabricSiny) PMID: 36073980 DOI: 10.1515/jib-2022-0031", exportable = "false", inputresource = list(list(`_classname` = "resource", `_id` = 2359831), list(`_classname` = "resource", `_id` = 2359830), list(`_classname` = "resource", `_id` = 2359829), list(`_classname` = "resource", `_id` = 2359828), list(`_classname` = "resource", `_id` = 2359827), list(`_classname` = "resource", `_id` = 2359826)), modified = "2023-09-22 10:19:25", modifiedby = "tobiasko", name = "cycle load plot", status = "AVAILABLE", updatable = "true"))list(list(`_classname` = "resource", `_id` = 2359848, container = list(`_classname` = "order", `_id` = 32917), created = "2023-09-22 10:19:26", createdby = "tobiasko", deletable = "true", filechecksum = "927f94ff68e7f263a303fe0a94b0d098", junk = "false", modified = "2023-09-22 10:19:26", modifiedby = "tobiasko", name = "WU293859-20230922-1019-rawDiag.pdf", relativepath = "container_32917/workunit_293859/WU293859-20230922-1019-rawDiag.pdf", size = "304370", status = "available", storage = list(`_classname` = "storage", `_id` = 10), updatable = "true", uri = list("https://fgcz-bfabric.uzh.ch/dmexternal/container_32917/workunit_293859/WU293859-20230922-1019-rawDiag.pdf", "scp://localhost/export/bfabric/data/b-fabric-external-repo/container_32917/workunit_293859/WU293859-20230922-1019-rawDiag.pdf"), workunit = list(`_classname` = "workunit", `_id` = 293859))) The current plot is available as workunit 293859 #rows are 170945 output$download 1... Warning: Removed 1 rows containing non-finite values (`stat_smooth()`). #rows are 170945 output$download 2... ggsave to file /tmp/RtmpgtuKDG/rawDiag-d65641ff0b4e1.pdf Warning: Removed 1 rows containing non-finite values (`stat_smooth()`). generated pdf /tmp/RtmpgtuKDG/rawDiag-d65641ff0b4e1.pdf bfabricShiny::uploadResource ... list(list(`_classname` = "workunit", `_id` = 293860, application = list(`_classname` = "application", `_id` = 225), container = list(`_classname` = "order", `_id` = 32917), created = "2023-09-22 10:19:34", createdby = "tobiasko", deletable = "true", description = "input files:\np32917/Proteomics/EXPLORIS_2/analytic_20230921/20230921_C32917_009_S564825_Qplus2_Group_1.raw\np32917/Proteomics/EXPLORIS_2/analytic_20230921/20230921_C32917_008_S564826_Qplus3_Group_1.raw\np32917/Proteomics/EXPLORIS_2/analytic_20230921/20230921_C32917_002_S564824_Qplus1_Group_1.raw\np32917/Proteomics/EXPLORIS_2/analytic_20230921/20230921_C32917_003_S564821_Q-1_Control.raw \np32917/Proteomics/EXPLORIS_2/analytic_20230921/20230921_C32917_007_S564822_Q-2_Control.raw \np32917/Proteomics/EXPLORIS_2/analytic_20230921/20230921_C32917_004_S564823_Q-3_Control.raw \n\nGenerated by Rpkg https://github.com/fgcz/bfabricShiny/ version 0.12.22.\nSystem information: Linux, 5.10.0-21-amd64, #1 SMP Debian 5.10.162-1 (2023-01-21), fgcz-c-072, x86_64, unknown, www-data, www-data\n\nTo help us funding further development, please cite:\n(bfabricSiny) PMID: 36073980 DOI: 10.1515/jib-2022-0031", exportable = "false", inputresource = list(list(`_classname` = "resource", `_id` = 2359831), list(`_classname` = "resource", `_id` = 2359830), list(`_classname` = "resource", `_id` = 2359829), list(`_classname` = "resource", `_id` = 2359828), list(`_classname` = "resource", `_id` = 2359827), list(`_classname` = "resource", `_id` = 2359826)), modified = "2023-09-22 10:19:34", modifiedby = "tobiasko", name = "lock mass correction plot", status = "AVAILABLE", updatable = "true"))list(list(`_classname` = "resource", `_id` = 2359849, container = list(`_classname` = "order", `_id` = 32917), created = "2023-09-22 10:19:36", createdby = "tobiasko", deletable = "true", filechecksum = "162b9cd5c2ac3ce4f00cda804526869e", junk = "false", modified = "2023-09-22 10:19:36", modifiedby = "tobiasko", name = "WU293860-20230922-1019-rawDiag.pdf", relativepath = "container_32917/workunit_293860/WU293860-20230922-1019-rawDiag.pdf", size = "95238", status = "available", storage = list(`_classname` = "storage", `_id` = 10), updatable = "true", uri = list("https://fgcz-bfabric.uzh.ch/dmexternal/container_32917/workunit_293860/WU293860-20230922-1019-rawDiag.pdf", "scp://localhost/export/bfabric/data/b-fabric-external-repo/container_32917/workunit_293860/WU293860-20230922-1019-rawDiag.pdf"), workunit = list(`_classname` = "workunit", `_id` = 293860))) The current plot is available as workunit 293860 #rows are 170945 output$download 1... #rows are 170945 output$download 2... ggsave to file /tmp/RtmpgtuKDG/rawDiag-d65643c41c13e.pdf generated pdf /tmp/RtmpgtuKDG/rawDiag-d65643c41c13e.pdf bfabricShiny::uploadResource ... list(list(`_classname` = "workunit", `_id` = 293861, application = list(`_classname` = "application", `_id` = 225), container = list(`_classname` = "order", `_id` = 32917), created = "2023-09-22 10:19:51", createdby = "tobiasko", deletable = "true", description = "input files:\np32917/Proteomics/EXPLORIS_2/analytic_20230921/20230921_C32917_009_S564825_Qplus2_Group_1.raw\np32917/Proteomics/EXPLORIS_2/analytic_20230921/20230921_C32917_008_S564826_Qplus3_Group_1.raw\np32917/Proteomics/EXPLORIS_2/analytic_20230921/20230921_C32917_002_S564824_Qplus1_Group_1.raw\np32917/Proteomics/EXPLORIS_2/analytic_20230921/20230921_C32917_003_S564821_Q-1_Control.raw \np32917/Proteomics/EXPLORIS_2/analytic_20230921/20230921_C32917_007_S564822_Q-2_Control.raw \np32917/Proteomics/EXPLORIS_2/analytic_20230921/20230921_C32917_004_S564823_Q-3_Control.raw \n\nGenerated by Rpkg https://github.com/fgcz/bfabricShiny/ version 0.12.22.\nSystem information: Linux, 5.10.0-21-amd64, #1 SMP Debian 5.10.162-1 (2023-01-21), fgcz-c-072, x86_64, unknown, www-data, www-data\n\nTo help us funding further development, please cite:\n(bfabricSiny) PMID: 36073980 DOI: 10.1515/jib-2022-0031", exportable = "false", inputresource = list(list(`_classname` = "resource", `_id` = 2359831), list(`_classname` = "resource", `_id` = 2359830), list(`_classname` = "resource", `_id` = 2359829), list(`_classname` = "resource", `_id` = 2359828), list(`_classname` = "resource", `_id` = 2359827), list(`_classname` = "resource", `_id` = 2359826)), modified = "2023-09-22 10:19:51", modifiedby = "tobiasko", name = "injection time plot", status = "AVAILABLE", updatable = "true"))list(list(`_classname` = "resource", `_id` = 2359850, container = list(`_classname` = "order", `_id` = 32917), created = "2023-09-22 10:19:53", createdby = "tobiasko", deletable = "true", filechecksum = "cb2b93a21f8558992d1c4a477860032c", junk = "false", modified = "2023-09-22 10:19:53", modifiedby = "tobiasko", name = "WU293861-20230922-1019-rawDiag.pdf", relativepath = "container_32917/workunit_293861/WU293861-20230922-1019-rawDiag.pdf", size = "743346", status = "available", storage = list(`_classname` = "storage", `_id` = 10), updatable = "true", uri = list("https://fgcz-bfabric.uzh.ch/dmexternal/container_32917/workunit_293861/WU293861-20230922-1019-rawDiag.pdf", "scp://localhost/export/bfabric/data/b-fabric-external-repo/container_32917/workunit_293861/WU293861-20230922-1019-rawDiag.pdf"), workunit = list(`_classname` = "workunit", `_id` = 293861))) The current plot is available as workunit 293861 #rows are 170945 output$download 1... #rows are 170945 output$download 2... ggsave to file /tmp/RtmpgtuKDG/rawDiag-d65644fff1fd7.pdf generated pdf /tmp/RtmpgtuKDG/rawDiag-d65644fff1fd7.pdf bfabricShiny::uploadResource ... list(list(`_classname` = "workunit", `_id` = 293862, application = list(`_classname` = "application", `_id` = 225), container = list(`_classname` = "order", `_id` = 32917), created = "2023-09-22 10:20:03", createdby = "tobiasko", deletable = "true", description = "input files:\np32917/Proteomics/EXPLORIS_2/analytic_20230921/20230921_C32917_009_S564825_Qplus2_Group_1.raw\np32917/Proteomics/EXPLORIS_2/analytic_20230921/20230921_C32917_008_S564826_Qplus3_Group_1.raw\np32917/Proteomics/EXPLORIS_2/analytic_20230921/20230921_C32917_002_S564824_Qplus1_Group_1.raw\np32917/Proteomics/EXPLORIS_2/analytic_20230921/20230921_C32917_003_S564821_Q-1_Control.raw \np32917/Proteomics/EXPLORIS_2/analytic_20230921/20230921_C32917_007_S564822_Q-2_Control.raw \np32917/Proteomics/EXPLORIS_2/analytic_20230921/20230921_C32917_004_S564823_Q-3_Control.raw \n\nGenerated by Rpkg https://github.com/fgcz/bfabricShiny/ version 0.12.22.\nSystem information: Linux, 5.10.0-21-amd64, #1 SMP Debian 5.10.162-1 (2023-01-21), fgcz-c-072, x86_64, unknown, www-data, www-data\n\nTo help us funding further development, please cite:\n(bfabricSiny) PMID: 36073980 DOI: 10.1515/jib-2022-0031", exportable = "false", inputresource = list(list(`_classname` = "resource", `_id` = 2359831), list(`_classname` = "resource", `_id` = 2359830), list(`_classname` = "resource", `_id` = 2359829), list(`_classname` = "resource", `_id` = 2359828), list(`_classname` = "resource", `_id` = 2359827), list(`_classname` = "resource", `_id` = 2359826)), modified = "2023-09-22 10:20:03", modifiedby = "tobiasko", name = "charge state plot", status = "AVAILABLE", updatable = "true"))list(list(`_classname` = "resource", `_id` = 2359851, container = list(`_classname` = "order", `_id` = 32917), created = "2023-09-22 10:20:05", createdby = "tobiasko", deletable = "true", filechecksum = "f1cda220a47fa5e96fe90b231b9b7830", junk = "false", modified = "2023-09-22 10:20:05", modifiedby = "tobiasko", name = "WU293862-20230922-1020-rawDiag.pdf", relativepath = "container_32917/workunit_293862/WU293862-20230922-1020-rawDiag.pdf", size = "8649", status = "available", storage = list(`_classname` = "storage", `_id` = 10), updatable = "true", uri = list("https://fgcz-bfabric.uzh.ch/dmexternal/container_32917/workunit_293862/WU293862-20230922-1020-rawDiag.pdf", "scp://localhost/export/bfabric/data/b-fabric-external-repo/container_32917/workunit_293862/WU293862-20230922-1020-rawDiag.pdf"), workunit = list(`_classname` = "workunit", `_id` = 293862))) The current plot is available as workunit 293862 #rows are 170945 output$download 1... Warning: 'readXICs' is deprecated. Use 'rawrr::readChromatogram' instead. See help("Deprecated") Warning: 'readXICs' is deprecated. Use 'rawrr::readChromatogram' instead. See help("Deprecated") Warning: 'readXICs' is deprecated. Use 'rawrr::readChromatogram' instead. See help("Deprecated") Warning: 'readXICs' is deprecated. Use 'rawrr::readChromatogram' instead. See help("Deprecated") Warning: 'readXICs' is deprecated. Use 'rawrr::readChromatogram' instead. See help("Deprecated") Warning: 'readXICs' is deprecated. Use 'rawrr::readChromatogram' instead. See help("Deprecated") #rows are 170945 output$download 2... ggsave to file /tmp/RtmpgtuKDG/rawDiag-d65643bbf4fdf.pdf generated pdf /tmp/RtmpgtuKDG/rawDiag-d65643bbf4fdf.pdf bfabricShiny::uploadResource ... list(list(`_classname` = "workunit", `_id` = 293863, application = list(`_classname` = "application", `_id` = 225), container = list(`_classname` = "order", `_id` = 32917), created = "2023-09-22 10:20:16", createdby = "tobiasko", deletable = "true", description = "input files:\np32917/Proteomics/EXPLORIS_2/analytic_20230921/20230921_C32917_009_S564825_Qplus2_Group_1.raw\np32917/Proteomics/EXPLORIS_2/analytic_20230921/20230921_C32917_008_S564826_Qplus3_Group_1.raw\np32917/Proteomics/EXPLORIS_2/analytic_20230921/20230921_C32917_002_S564824_Qplus1_Group_1.raw\np32917/Proteomics/EXPLORIS_2/analytic_20230921/20230921_C32917_003_S564821_Q-1_Control.raw \np32917/Proteomics/EXPLORIS_2/analytic_20230921/20230921_C32917_007_S564822_Q-2_Control.raw \np32917/Proteomics/EXPLORIS_2/analytic_20230921/20230921_C32917_004_S564823_Q-3_Control.raw \n\nGenerated by Rpkg https://github.com/fgcz/bfabricShiny/ version 0.12.22.\nSystem information: Linux, 5.10.0-21-amd64, #1 SMP Debian 5.10.162-1 (2023-01-21), fgcz-c-072, x86_64, unknown, www-data, www-data\n\nTo help us funding further development, please cite:\n(bfabricSiny) PMID: 36073980 DOI: 10.1515/jib-2022-0031", exportable = "false", inputresource = list(list(`_classname` = "resource", `_id` = 2359831), list(`_classname` = "resource", `_id` = 2359830), list(`_classname` = "resource", `_id` = 2359829), list(`_classname` = "resource", `_id` = 2359828), list(`_classname` = "resource", `_id` = 2359827), list(`_classname` = "resource", `_id` = 2359826)), modified = "2023-09-22 10:20:16", modifiedby = "tobiasko", name = "XIC plot", status = "AVAILABLE", updatable = "true"))list(list(`_classname` = "resource", `_id` = 2359852, container = list(`_classname` = "order", `_id` = 32917), created = "2023-09-22 10:20:17", createdby = "tobiasko", deletable = "true", filechecksum = "d329aeda091df6818163f94b8819c16d", junk = "false", modified = "2023-09-22 10:20:17", modifiedby = "tobiasko", name = "WU293863-20230922-1020-rawDiag.pdf", relativepath = "container_32917/workunit_293863/WU293863-20230922-1020-rawDiag.pdf", size = "32561", status = "available", storage = list(`_classname` = "storage", `_id` = 10), updatable = "true", uri = list("https://fgcz-bfabric.uzh.ch/dmexternal/container_32917/workunit_293863/WU293863-20230922-1020-rawDiag.pdf", "scp://localhost/export/bfabric/data/b-fabric-external-repo/container_32917/workunit_293863/WU293863-20230922-1020-rawDiag.pdf"), workunit = list(`_classname` = "workunit", `_id` = 293863))) The current plot is available as workunit 293863 #rows are 170945 output$download 1... Execution halted