Listening on http://127.0.0.1:32921 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({ 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//p33344/Proteomics/EXPLORIS_2/analytic_20231111/20231111_C33344_004_S588846_SPEN_2_LZ_Group_2_rep.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p33344/Proteomics/EXPLORIS_2/analytic_20231111/20231111_C33344_002_S587697_SPEN_1_LZ_Group_1_rep.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 #rows are 51603 output$tic.basepeak <- renderPlot({ #rows are 51603 output$download 2... saving 'login and webservicepassword' ... ggsave to file /tmp/RtmpdSXFJz/rawDiag-dfdef39f7d0e.pdf generated pdf /tmp/RtmpdSXFJz/rawDiag-dfdef39f7d0e.pdf bfabricShiny::uploadResource ... list(list(`_classname` = "workunit", `_id` = 295939, application = list(`_classname` = "application", `_id` = 225), container = list(`_classname` = "order", `_id` = 33344), created = "2023-11-13 09:11:37", createdby = "tobiasko", description = "input files:\np33344/Proteomics/EXPLORIS_2/analytic_20231111/20231111_C33344_002_S587697_SPEN_1_LZ_Group_1_rep.raw\np33344/Proteomics/EXPLORIS_2/analytic_20231111/20231111_C33344_004_S588846_SPEN_2_LZ_Group_2_rep.raw\n\nGenerated by Rpkg https://github.com/fgcz/bfabricShiny/ version 0.12.23.\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` = 2390563), list(`_classname` = "resource", `_id` = 2390562)), modified = "2023-11-13 09:11:37", modifiedby = "tobiasko", name = "TIC and basepeak plot", status = "AVAILABLE"))list(list(`_classname` = "resource", `_id` = 2390564, container = list(`_classname` = "order", `_id` = 33344), created = "2023-11-13 09:11:38", createdby = "tobiasko", filechecksum = "0d53baf7f2319490c5deacd11b3a54c8", junk = "false", modified = "2023-11-13 09:11:38", modifiedby = "tobiasko", name = "WU295939-20231113-0911-rawDiag.pdf", relativepath = "container_33344/workunit_295939/WU295939-20231113-0911-rawDiag.pdf", size = "64431", status = "available", storage = list(`_classname` = "storage", `_id` = 10), uri = list("https://fgcz-bfabric.uzh.ch/dmexternal/container_33344/workunit_295939/WU295939-20231113-0911-rawDiag.pdf", "scp://localhost/export/bfabric/data/b-fabric-external-repo/container_33344/workunit_295939/WU295939-20231113-0911-rawDiag.pdf"), workunit = list(`_classname` = "workunit", `_id` = 295939))) The current plot is available as workunit 295939 #rows are 51603 output$download 1... saving 'login and webservicepassword' ... output$scan.frequency <- renderPlot Warning: Removed 29 rows containing missing values (`geom_line()`). #rows are 51603 output$download 2... ggsave to file /tmp/RtmpdSXFJz/rawDiag-dfdef6f648d9b.pdf Warning: Removed 29 rows containing missing values (`geom_line()`). generated pdf /tmp/RtmpdSXFJz/rawDiag-dfdef6f648d9b.pdf bfabricShiny::uploadResource ... list(list(`_classname` = "workunit", `_id` = 295940, application = list(`_classname` = "application", `_id` = 225), container = list(`_classname` = "order", `_id` = 33344), created = "2023-11-13 09:12:16", createdby = "tobiasko", description = "input files:\np33344/Proteomics/EXPLORIS_2/analytic_20231111/20231111_C33344_002_S587697_SPEN_1_LZ_Group_1_rep.raw\np33344/Proteomics/EXPLORIS_2/analytic_20231111/20231111_C33344_004_S588846_SPEN_2_LZ_Group_2_rep.raw\n\nGenerated by Rpkg https://github.com/fgcz/bfabricShiny/ version 0.12.23.\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` = 2390563), list(`_classname` = "resource", `_id` = 2390562)), modified = "2023-11-13 09:12:16", modifiedby = "tobiasko", name = "scan frequency plot", status = "AVAILABLE"))list(list(`_classname` = "resource", `_id` = 2390565, container = list(`_classname` = "order", `_id` = 33344), created = "2023-11-13 09:12:17", createdby = "tobiasko", filechecksum = "e0a010e5c845f3222553f125bceb839c", junk = "false", modified = "2023-11-13 09:12:17", modifiedby = "tobiasko", name = "WU295940-20231113-0912-rawDiag.pdf", relativepath = "container_33344/workunit_295940/WU295940-20231113-0912-rawDiag.pdf", size = "64256", status = "available", storage = list(`_classname` = "storage", `_id` = 10), uri = list("https://fgcz-bfabric.uzh.ch/dmexternal/container_33344/workunit_295940/WU295940-20231113-0912-rawDiag.pdf", "scp://localhost/export/bfabric/data/b-fabric-external-repo/container_33344/workunit_295940/WU295940-20231113-0912-rawDiag.pdf"), workunit = list(`_classname` = "workunit", `_id` = 295940))) The current plot is available as workunit 295940 #rows are 51603 output$download 1... #rows are 51603 output$download 2... ggsave to file /tmp/RtmpdSXFJz/rawDiag-dfdef5aa9b483.pdf generated pdf /tmp/RtmpdSXFJz/rawDiag-dfdef5aa9b483.pdf bfabricShiny::uploadResource ... list(list(`_classname` = "workunit", `_id` = 295941, application = list(`_classname` = "application", `_id` = 225), container = list(`_classname` = "order", `_id` = 33344), created = "2023-11-13 09:12:51", createdby = "tobiasko", description = "input files:\np33344/Proteomics/EXPLORIS_2/analytic_20231111/20231111_C33344_002_S587697_SPEN_1_LZ_Group_1_rep.raw\np33344/Proteomics/EXPLORIS_2/analytic_20231111/20231111_C33344_004_S588846_SPEN_2_LZ_Group_2_rep.raw\n\nGenerated by Rpkg https://github.com/fgcz/bfabricShiny/ version 0.12.23.\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` = 2390563), list(`_classname` = "resource", `_id` = 2390562)), modified = "2023-11-13 09:12:51", modifiedby = "tobiasko", name = "scan time plot", status = "AVAILABLE"))list(list(`_classname` = "resource", `_id` = 2390566, container = list(`_classname` = "order", `_id` = 33344), created = "2023-11-13 09:12:53", createdby = "tobiasko", filechecksum = "9c60869054a480dac7d725d37655a501", junk = "false", modified = "2023-11-13 09:12:53", modifiedby = "tobiasko", name = "WU295941-20231113-0912-rawDiag.pdf", relativepath = "container_33344/workunit_295941/WU295941-20231113-0912-rawDiag.pdf", size = "264627", status = "available", storage = list(`_classname` = "storage", `_id` = 10), uri = list("https://fgcz-bfabric.uzh.ch/dmexternal/container_33344/workunit_295941/WU295941-20231113-0912-rawDiag.pdf", "scp://localhost/export/bfabric/data/b-fabric-external-repo/container_33344/workunit_295941/WU295941-20231113-0912-rawDiag.pdf"), workunit = list(`_classname` = "workunit", `_id` = 295941))) The current plot is available as workunit 295941 #rows are 51603 output$download 1... `geom_smooth()` using formula = 'y ~ x' #rows are 51603 output$download 2... ggsave to file /tmp/RtmpdSXFJz/rawDiag-dfdef79119a4d.pdf `geom_smooth()` using formula = 'y ~ x' generated pdf /tmp/RtmpdSXFJz/rawDiag-dfdef79119a4d.pdf bfabricShiny::uploadResource ... list(list(`_classname` = "workunit", `_id` = 295942, application = list(`_classname` = "application", `_id` = 225), container = list(`_classname` = "order", `_id` = 33344), created = "2023-11-13 09:13:03", createdby = "tobiasko", description = "input files:\np33344/Proteomics/EXPLORIS_2/analytic_20231111/20231111_C33344_002_S587697_SPEN_1_LZ_Group_1_rep.raw\np33344/Proteomics/EXPLORIS_2/analytic_20231111/20231111_C33344_004_S588846_SPEN_2_LZ_Group_2_rep.raw\n\nGenerated by Rpkg https://github.com/fgcz/bfabricShiny/ version 0.12.23.\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` = 2390563), list(`_classname` = "resource", `_id` = 2390562)), modified = "2023-11-13 09:13:03", modifiedby = "tobiasko", name = "cycle load plot", status = "AVAILABLE"))list(list(`_classname` = "resource", `_id` = 2390567, container = list(`_classname` = "order", `_id` = 33344), created = "2023-11-13 09:13:04", createdby = "tobiasko", filechecksum = "ab84fa97b7961b75d061e56896db1efa", junk = "false", modified = "2023-11-13 09:13:04", modifiedby = "tobiasko", name = "WU295942-20231113-0913-rawDiag.pdf", relativepath = "container_33344/workunit_295942/WU295942-20231113-0913-rawDiag.pdf", size = "30828", status = "available", storage = list(`_classname` = "storage", `_id` = 10), uri = list("https://fgcz-bfabric.uzh.ch/dmexternal/container_33344/workunit_295942/WU295942-20231113-0913-rawDiag.pdf", "scp://localhost/export/bfabric/data/b-fabric-external-repo/container_33344/workunit_295942/WU295942-20231113-0913-rawDiag.pdf"), workunit = list(`_classname` = "workunit", `_id` = 295942))) The current plot is available as workunit 295942 #rows are 51603 output$download 1... #rows are 51603 output$download 2... Warning: Removed 9 rows containing non-finite values (`stat_smooth()`). #rows are 51603 output$download 2... ggsave to file /tmp/RtmpdSXFJz/rawDiag-dfdef51455743.pdf Warning: Removed 9 rows containing non-finite values (`stat_smooth()`). generated pdf /tmp/RtmpdSXFJz/rawDiag-dfdef51455743.pdf bfabricShiny::uploadResource ... list(list(`_classname` = "workunit", `_id` = 295943, application = list(`_classname` = "application", `_id` = 225), container = list(`_classname` = "order", `_id` = 33344), created = "2023-11-13 09:13:16", createdby = "tobiasko", description = "input files:\np33344/Proteomics/EXPLORIS_2/analytic_20231111/20231111_C33344_002_S587697_SPEN_1_LZ_Group_1_rep.raw\np33344/Proteomics/EXPLORIS_2/analytic_20231111/20231111_C33344_004_S588846_SPEN_2_LZ_Group_2_rep.raw\n\nGenerated by Rpkg https://github.com/fgcz/bfabricShiny/ version 0.12.23.\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` = 2390563), list(`_classname` = "resource", `_id` = 2390562)), modified = "2023-11-13 09:13:16", modifiedby = "tobiasko", name = "lock mass correction plot", status = "AVAILABLE"))list(list(`_classname` = "resource", `_id` = 2390568, container = list(`_classname` = "order", `_id` = 33344), created = "2023-11-13 09:13:17", createdby = "tobiasko", filechecksum = "6c0debd277d001a2cf3ff36e17a93705", junk = "false", modified = "2023-11-13 09:13:17", modifiedby = "tobiasko", name = "WU295943-20231113-0913-rawDiag.pdf", relativepath = "container_33344/workunit_295943/WU295943-20231113-0913-rawDiag.pdf", size = "39602", status = "available", storage = list(`_classname` = "storage", `_id` = 10), uri = list("https://fgcz-bfabric.uzh.ch/dmexternal/container_33344/workunit_295943/WU295943-20231113-0913-rawDiag.pdf", "scp://localhost/export/bfabric/data/b-fabric-external-repo/container_33344/workunit_295943/WU295943-20231113-0913-rawDiag.pdf"), workunit = list(`_classname` = "workunit", `_id` = 295943))) The current plot is available as workunit 295943 #rows are 51603 output$download 1... #rows are 51603 output$download 2... ggsave to file /tmp/RtmpdSXFJz/rawDiag-dfdefee09e74.pdf generated pdf /tmp/RtmpdSXFJz/rawDiag-dfdefee09e74.pdf bfabricShiny::uploadResource ... list(list(`_classname` = "workunit", `_id` = 295944, application = list(`_classname` = "application", `_id` = 225), container = list(`_classname` = "order", `_id` = 33344), created = "2023-11-13 09:13:40", createdby = "tobiasko", description = "input files:\np33344/Proteomics/EXPLORIS_2/analytic_20231111/20231111_C33344_002_S587697_SPEN_1_LZ_Group_1_rep.raw\np33344/Proteomics/EXPLORIS_2/analytic_20231111/20231111_C33344_004_S588846_SPEN_2_LZ_Group_2_rep.raw\n\nGenerated by Rpkg https://github.com/fgcz/bfabricShiny/ version 0.12.23.\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` = 2390563), list(`_classname` = "resource", `_id` = 2390562)), modified = "2023-11-13 09:13:40", modifiedby = "tobiasko", name = "injection time plot", status = "AVAILABLE"))list(list(`_classname` = "resource", `_id` = 2390569, container = list(`_classname` = "order", `_id` = 33344), created = "2023-11-13 09:13:41", createdby = "tobiasko", filechecksum = "477b75bd335e91590c5c2236a620edc1", junk = "false", modified = "2023-11-13 09:13:41", modifiedby = "tobiasko", name = "WU295944-20231113-0913-rawDiag.pdf", relativepath = "container_33344/workunit_295944/WU295944-20231113-0913-rawDiag.pdf", size = "182752", status = "available", storage = list(`_classname` = "storage", `_id` = 10), uri = list("https://fgcz-bfabric.uzh.ch/dmexternal/container_33344/workunit_295944/WU295944-20231113-0913-rawDiag.pdf", "scp://localhost/export/bfabric/data/b-fabric-external-repo/container_33344/workunit_295944/WU295944-20231113-0913-rawDiag.pdf"), workunit = list(`_classname` = "workunit", `_id` = 295944))) The current plot is available as workunit 295944 #rows are 51603 output$download 1... #rows are 51603 output$download 2... ggsave to file /tmp/RtmpdSXFJz/rawDiag-dfdef3820e83e.pdf generated pdf /tmp/RtmpdSXFJz/rawDiag-dfdef3820e83e.pdf bfabricShiny::uploadResource ... list(list(`_classname` = "workunit", `_id` = 295946, application = list(`_classname` = "application", `_id` = 225), container = list(`_classname` = "order", `_id` = 33344), created = "2023-11-13 09:14:00", createdby = "tobiasko", description = "input files:\np33344/Proteomics/EXPLORIS_2/analytic_20231111/20231111_C33344_002_S587697_SPEN_1_LZ_Group_1_rep.raw\np33344/Proteomics/EXPLORIS_2/analytic_20231111/20231111_C33344_004_S588846_SPEN_2_LZ_Group_2_rep.raw\n\nGenerated by Rpkg https://github.com/fgcz/bfabricShiny/ version 0.12.23.\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` = 2390563), list(`_classname` = "resource", `_id` = 2390562)), modified = "2023-11-13 09:14:00", modifiedby = "tobiasko", name = "charge state plot", status = "AVAILABLE"))list(list(`_classname` = "resource", `_id` = 2390572, container = list(`_classname` = "order", `_id` = 33344), created = "2023-11-13 09:14:02", createdby = "tobiasko", filechecksum = "8b71655884ed810da783dab00f5fecdd", junk = "false", modified = "2023-11-13 09:14:02", modifiedby = "tobiasko", name = "WU295946-20231113-0914-rawDiag.pdf", relativepath = "container_33344/workunit_295946/WU295946-20231113-0914-rawDiag.pdf", size = "5826", status = "available", storage = list(`_classname` = "storage", `_id` = 10), uri = list("https://fgcz-bfabric.uzh.ch/dmexternal/container_33344/workunit_295946/WU295946-20231113-0914-rawDiag.pdf", "scp://localhost/export/bfabric/data/b-fabric-external-repo/container_33344/workunit_295946/WU295946-20231113-0914-rawDiag.pdf"), workunit = list(`_classname` = "workunit", `_id` = 295946))) The current plot is available as workunit 295946 #rows are 51603 output$download 1... DEBUG queryMass Warning: 'readXICs' is deprecated. Use 'rawrr::readChromatogram' instead. See help("Deprecated") Warning: 'readXICs' is deprecated. Use 'rawrr::readChromatogram' instead. See help("Deprecated") Warning: `aes_string()` was deprecated in ggplot2 3.0.0. ℹ Please use tidy evaluation idioms with `aes()`. ℹ See also `vignette("ggplot2-in-packages")` for more information. Warning: Using `size` aesthetic for lines was deprecated in ggplot2 3.4.0. ℹ Please use `linewidth` instead. #rows are 51603 output$download 2... DEBUG renderPlot plotQCs #rows are 51603 output$download 2... DEBUG renderPlot plotQCs #rows are 51603 output$download 2... #rows are 51603 output$download 2... DEBUG renderPlot plotQCs #rows are 51603 output$download 2... #rows are 51603 output$download 2... DEBUG queryMass Warning: 'readXICs' is deprecated. Use 'rawrr::readChromatogram' instead. See help("Deprecated") Warning: 'readXICs' is deprecated. Use 'rawrr::readChromatogram' instead. See help("Deprecated") #rows are 51603 output$download 2... DEBUG queryMass Warning: 'readXICs' is deprecated. Use 'rawrr::readChromatogram' instead. See help("Deprecated") Warning: 'readXICs' is deprecated. Use 'rawrr::readChromatogram' instead. See help("Deprecated") #rows are 51603 output$download 2... #rows are 0 /scratch/cpanse/ saving 'login and webservicepassword' ... output$employee <- renderUI({ read bfabricposturl https://fgcz-c-072.uzh.ch:5000/. Warning in .read(login = login, webservicepassword = webservicepassword, : query failed. bfabricConnectionWorking FALSE output$employee <- renderUI({ bfabricConnectionWorking TRUE 'empdegree' found. Warning in shinyStore::updateStore(session, "login", isolate(input$login), : Encryption requested, but the user is not authenticated. The encryption will be MUCH weaker without binding to a logged-in user. Warning in shinyStore::updateStore(session, "webservicepassword", isolate(input$webservicepassword), : Encryption requested, but the user is not authenticated. The encryption will be MUCH weaker without binding to a logged-in user. Warning in shinyStore::updateStore(session, "project", isolate(input$project), : Encryption requested, but the user is not authenticated. The encryption will be MUCH weaker without binding to a logged-in user. Warning in shinyStore::updateStore(session, "login", isolate(input$login), : Encryption requested, but the user is not authenticated. The encryption will be MUCH weaker without binding to a logged-in user. Warning in shinyStore::updateStore(session, "webservicepassword", isolate(input$webservicepassword), : Encryption requested, but the user is not authenticated. The encryption will be MUCH weaker without binding to a logged-in user. Warning in shinyStore::updateStore(session, "project", isolate(input$project), : Encryption requested, but the user is not authenticated. The encryption will be MUCH weaker without binding to a logged-in user. Warning in shinyStore::updateStore(session, "login", isolate(input$login), : Encryption requested, but the user is not authenticated. The encryption will be MUCH weaker without binding to a logged-in user. Warning in shinyStore::updateStore(session, "webservicepassword", isolate(input$webservicepassword), : Encryption requested, but the user is not authenticated. The encryption will be MUCH weaker without binding to a logged-in user. Warning in shinyStore::updateStore(session, "project", isolate(input$project), : Encryption requested, but the user is not authenticated. The encryption will be MUCH weaker without binding to a logged-in user. Warning in shinyStore::updateStore(session, "login", isolate(input$login), : Encryption requested, but the user is not authenticated. The encryption will be MUCH weaker without binding to a logged-in user. Warning in shinyStore::updateStore(session, "webservicepassword", isolate(input$webservicepassword), : Encryption requested, but the user is not authenticated. The encryption will be MUCH weaker without binding to a logged-in user. Warning in shinyStore::updateStore(session, "project", isolate(input$project), : Encryption requested, but the user is not authenticated. The encryption will be MUCH weaker without binding to a logged-in user. executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p33367/Proteomics/LUMOS_2/analytic_20231110/20231110_C33367_003_S588362_Control_3.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p33367/Proteomics/LUMOS_2/analytic_20231110/20231110_C33367_007_S588361_Control_2.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p33367/Proteomics/LUMOS_2/analytic_20231110/20231110_C33367_015_S588367_Treated_2_4.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p33367/Proteomics/LUMOS_2/analytic_20231110/20231110_C33367_002_S588370_Treated_5_3.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p33367/Proteomics/LUMOS_2/analytic_20231110/20231110_C33367_009_S588363_Control_4.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p33367/Proteomics/LUMOS_2/analytic_20231110/20231110_C33367_005_S588366_Treated_2_3.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p33367/Proteomics/LUMOS_2/analytic_20231110/20231110_C33367_014_S588371_Treated_5_4.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p33367/Proteomics/LUMOS_2/analytic_20231110/20231110_C33367_008_S588368_Treated_5_1.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p33367/Proteomics/LUMOS_2/analytic_20231110/20231110_C33367_016_S588360_Control_1.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p33367/Proteomics/LUMOS_2/analytic_20231110/20231110_C33367_010_S588365_Treated_2_2.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p33367/Proteomics/LUMOS_2/analytic_20231110/20231110_C33367_013_S588364_Treated_2_1.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p33367/Proteomics/LUMOS_2/analytic_20231110/20231110_C33367_004_S588369_Treated_5_2.raw qc ... missing column name(s): FTResolution, LMCorrection, transient, AGCMode, PrescanMode NA values replaced in MasterScanNumber renamed LMCorrectionppm to LMCorrection copied AGC to AGCMode calculated PrescanMode values missing column name(s): FTResolution, LMCorrection, transient, AGCMode, PrescanMode NA values replaced in MasterScanNumber renamed LMCorrectionppm to LMCorrection copied AGC to AGCMode calculated PrescanMode values missing column name(s): FTResolution, LMCorrection, transient, AGCMode, PrescanMode NA values replaced in MasterScanNumber renamed LMCorrectionppm to LMCorrection copied AGC to AGCMode calculated PrescanMode values missing column name(s): FTResolution, LMCorrection, transient, AGCMode, PrescanMode NA values replaced in MasterScanNumber renamed LMCorrectionppm to LMCorrection copied AGC to AGCMode calculated PrescanMode values missing column name(s): FTResolution, LMCorrection, transient, AGCMode, PrescanMode NA values replaced in MasterScanNumber renamed LMCorrectionppm to LMCorrection copied AGC to AGCMode calculated PrescanMode values missing column name(s): FTResolution, LMCorrection, transient, AGCMode, PrescanMode NA values replaced in MasterScanNumber renamed LMCorrectionppm to LMCorrection copied AGC to AGCMode calculated PrescanMode values missing column name(s): FTResolution, LMCorrection, transient, AGCMode, PrescanMode NA values replaced in MasterScanNumber renamed LMCorrectionppm to LMCorrection copied AGC to AGCMode calculated PrescanMode values missing column name(s): FTResolution, LMCorrection, transient, AGCMode, PrescanMode NA values replaced in MasterScanNumber renamed LMCorrectionppm to LMCorrection copied AGC to AGCMode calculated PrescanMode values missing column name(s): FTResolution, LMCorrection, transient, AGCMode, PrescanMode NA values replaced in MasterScanNumber renamed LMCorrectionppm to LMCorrection copied AGC to AGCMode calculated PrescanMode values missing column name(s): FTResolution, LMCorrection, transient, AGCMode, PrescanMode NA values replaced in MasterScanNumber renamed LMCorrectionppm to LMCorrection copied AGC to AGCMode calculated PrescanMode values missing column name(s): FTResolution, LMCorrection, transient, AGCMode, PrescanMode NA values replaced in MasterScanNumber renamed LMCorrectionppm to LMCorrection copied AGC to AGCMode calculated PrescanMode values missing column name(s): FTResolution, LMCorrection, transient, AGCMode, PrescanMode NA values replaced in MasterScanNumber renamed LMCorrectionppm to LMCorrection copied AGC to AGCMode calculated PrescanMode values #rows are 1598116 output$tic.basepeak <- renderPlot({ #rows are 51603 output$download 2... output$tic.basepeak <- renderPlot({ #rows are 51603 output$download 2... #rows are 0 /scratch/cpanse/ saving 'login and webservicepassword' ... output$employee <- renderUI({ read bfabricposturl https://fgcz-c-072.uzh.ch:5000/. Warning in .read(login = login, webservicepassword = webservicepassword, : query failed. bfabricConnectionWorking FALSE output$employee <- renderUI({ bfabricConnectionWorking TRUE 'empdegree' found. Warning in shinyStore::updateStore(session, "login", isolate(input$login), : Encryption requested, but the user is not authenticated. The encryption will be MUCH weaker without binding to a logged-in user. Warning in shinyStore::updateStore(session, "webservicepassword", isolate(input$webservicepassword), : Encryption requested, but the user is not authenticated. The encryption will be MUCH weaker without binding to a logged-in user. Warning in shinyStore::updateStore(session, "project", isolate(input$project), : Encryption requested, but the user is not authenticated. The encryption will be MUCH weaker without binding to a logged-in user. Warning in shinyStore::updateStore(session, "login", isolate(input$login), : Encryption requested, but the user is not authenticated. The encryption will be MUCH weaker without binding to a logged-in user. Warning in shinyStore::updateStore(session, "webservicepassword", isolate(input$webservicepassword), : Encryption requested, but the user is not authenticated. The encryption will be MUCH weaker without binding to a logged-in user. Warning in shinyStore::updateStore(session, "project", isolate(input$project), : Encryption requested, but the user is not authenticated. The encryption will be MUCH weaker without binding to a logged-in user. Warning in shinyStore::updateStore(session, "login", isolate(input$login), : Encryption requested, but the user is not authenticated. The encryption will be MUCH weaker without binding to a logged-in user. Warning in shinyStore::updateStore(session, "webservicepassword", isolate(input$webservicepassword), : Encryption requested, but the user is not authenticated. The encryption will be MUCH weaker without binding to a logged-in user. Warning in shinyStore::updateStore(session, "project", isolate(input$project), : Encryption requested, but the user is not authenticated. The encryption will be MUCH weaker without binding to a logged-in user. Warning in shinyStore::updateStore(session, "login", isolate(input$login), : Encryption requested, but the user is not authenticated. The encryption will be MUCH weaker without binding to a logged-in user. Warning in shinyStore::updateStore(session, "webservicepassword", isolate(input$webservicepassword), : Encryption requested, but the user is not authenticated. The encryption will be MUCH weaker without binding to a logged-in user. Warning in shinyStore::updateStore(session, "project", isolate(input$project), : Encryption requested, but the user is not authenticated. The encryption will be MUCH weaker without binding to a logged-in user. executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p33367/Proteomics/LUMOS_2/analytic_20231110/20231110_C33367_007_S588361_Control_2.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p33367/Proteomics/LUMOS_2/analytic_20231110/20231110_C33367_003_S588362_Control_3.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p33367/Proteomics/LUMOS_2/analytic_20231110/20231110_C33367_015_S588367_Treated_2_4.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p33367/Proteomics/LUMOS_2/analytic_20231110/20231110_C33367_002_S588370_Treated_5_3.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p33367/Proteomics/LUMOS_2/analytic_20231110/20231110_C33367_009_S588363_Control_4.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p33367/Proteomics/LUMOS_2/analytic_20231110/20231110_C33367_005_S588366_Treated_2_3.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p33367/Proteomics/LUMOS_2/analytic_20231110/20231110_C33367_014_S588371_Treated_5_4.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p33367/Proteomics/LUMOS_2/analytic_20231110/20231110_C33367_008_S588368_Treated_5_1.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p33367/Proteomics/LUMOS_2/analytic_20231110/20231110_C33367_016_S588360_Control_1.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p33367/Proteomics/LUMOS_2/analytic_20231110/20231110_C33367_010_S588365_Treated_2_2.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p33367/Proteomics/LUMOS_2/analytic_20231110/20231110_C33367_013_S588364_Treated_2_1.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p33367/Proteomics/LUMOS_2/analytic_20231110/20231110_C33367_004_S588369_Treated_5_2.raw qc ... missing column name(s): FTResolution, LMCorrection, transient, AGCMode, PrescanMode NA values replaced in MasterScanNumber renamed LMCorrectionppm to LMCorrection copied AGC to AGCMode calculated PrescanMode values missing column name(s): FTResolution, LMCorrection, transient, AGCMode, PrescanMode NA values replaced in MasterScanNumber renamed LMCorrectionppm to LMCorrection copied AGC to AGCMode calculated PrescanMode values missing column name(s): FTResolution, LMCorrection, transient, AGCMode, PrescanMode NA values replaced in MasterScanNumber renamed LMCorrectionppm to LMCorrection copied AGC to AGCMode calculated PrescanMode values missing column name(s): FTResolution, LMCorrection, transient, AGCMode, PrescanMode NA values replaced in MasterScanNumber renamed LMCorrectionppm to LMCorrection copied AGC to AGCMode calculated PrescanMode values missing column name(s): FTResolution, LMCorrection, transient, AGCMode, PrescanMode NA values replaced in MasterScanNumber renamed LMCorrectionppm to LMCorrection copied AGC to AGCMode calculated PrescanMode values missing column name(s): FTResolution, LMCorrection, transient, AGCMode, PrescanMode NA values replaced in MasterScanNumber renamed LMCorrectionppm to LMCorrection copied AGC to AGCMode calculated PrescanMode values missing column name(s): FTResolution, LMCorrection, transient, AGCMode, PrescanMode NA values replaced in MasterScanNumber renamed LMCorrectionppm to LMCorrection copied AGC to AGCMode calculated PrescanMode values missing column name(s): FTResolution, LMCorrection, transient, AGCMode, PrescanMode NA values replaced in MasterScanNumber renamed LMCorrectionppm to LMCorrection copied AGC to AGCMode calculated PrescanMode values missing column name(s): FTResolution, LMCorrection, transient, AGCMode, PrescanMode NA values replaced in MasterScanNumber renamed LMCorrectionppm to LMCorrection copied AGC to AGCMode calculated PrescanMode values missing column name(s): FTResolution, LMCorrection, transient, AGCMode, PrescanMode NA values replaced in MasterScanNumber renamed LMCorrectionppm to LMCorrection copied AGC to AGCMode calculated PrescanMode values missing column name(s): FTResolution, LMCorrection, transient, AGCMode, PrescanMode NA values replaced in MasterScanNumber renamed LMCorrectionppm to LMCorrection copied AGC to AGCMode calculated PrescanMode values missing column name(s): FTResolution, LMCorrection, transient, AGCMode, PrescanMode NA values replaced in MasterScanNumber renamed LMCorrectionppm to LMCorrection copied AGC to AGCMode calculated PrescanMode values #rows are 1598116 executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p33367/Proteomics/LUMOS_2/analytic_20231110/20231110_C33367_003_S588362_Control_3.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p33367/Proteomics/LUMOS_2/analytic_20231110/20231110_C33367_007_S588361_Control_2.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p33367/Proteomics/LUMOS_2/analytic_20231110/20231110_C33367_015_S588367_Treated_2_4.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p33367/Proteomics/LUMOS_2/analytic_20231110/20231110_C33367_002_S588370_Treated_5_3.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p33367/Proteomics/LUMOS_2/analytic_20231110/20231110_C33367_009_S588363_Control_4.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p33367/Proteomics/LUMOS_2/analytic_20231110/20231110_C33367_005_S588366_Treated_2_3.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p33367/Proteomics/LUMOS_2/analytic_20231110/20231110_C33367_014_S588371_Treated_5_4.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p33367/Proteomics/LUMOS_2/analytic_20231110/20231110_C33367_008_S588368_Treated_5_1.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p33367/Proteomics/LUMOS_2/analytic_20231110/20231110_C33367_016_S588360_Control_1.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p33367/Proteomics/LUMOS_2/analytic_20231110/20231110_C33367_010_S588365_Treated_2_2.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p33367/Proteomics/LUMOS_2/analytic_20231110/20231110_C33367_013_S588364_Treated_2_1.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p33367/Proteomics/LUMOS_2/analytic_20231110/20231110_C33367_004_S588369_Treated_5_2.raw qc ... missing column name(s): FTResolution, LMCorrection, transient, AGCMode, PrescanMode NA values replaced in MasterScanNumber renamed LMCorrectionppm to LMCorrection copied AGC to AGCMode calculated PrescanMode values missing column name(s): FTResolution, LMCorrection, transient, AGCMode, PrescanMode NA values replaced in MasterScanNumber renamed LMCorrectionppm to LMCorrection copied AGC to AGCMode calculated PrescanMode values missing column name(s): FTResolution, LMCorrection, transient, AGCMode, PrescanMode NA values replaced in MasterScanNumber renamed LMCorrectionppm to LMCorrection copied AGC to AGCMode calculated PrescanMode values missing column name(s): FTResolution, LMCorrection, transient, AGCMode, PrescanMode NA values replaced in MasterScanNumber renamed LMCorrectionppm to LMCorrection copied AGC to AGCMode calculated PrescanMode values missing column name(s): FTResolution, LMCorrection, transient, AGCMode, PrescanMode NA values replaced in MasterScanNumber renamed LMCorrectionppm to LMCorrection copied AGC to AGCMode calculated PrescanMode values missing column name(s): FTResolution, LMCorrection, transient, AGCMode, PrescanMode NA values replaced in MasterScanNumber renamed LMCorrectionppm to LMCorrection copied AGC to AGCMode calculated PrescanMode values missing column name(s): FTResolution, LMCorrection, transient, AGCMode, PrescanMode NA values replaced in MasterScanNumber renamed LMCorrectionppm to LMCorrection copied AGC to AGCMode calculated PrescanMode values missing column name(s): FTResolution, LMCorrection, transient, AGCMode, PrescanMode NA values replaced in MasterScanNumber renamed LMCorrectionppm to LMCorrection copied AGC to AGCMode calculated PrescanMode values missing column name(s): FTResolution, LMCorrection, transient, AGCMode, PrescanMode NA values replaced in MasterScanNumber renamed LMCorrectionppm to LMCorrection copied AGC to AGCMode calculated PrescanMode values missing column name(s): FTResolution, LMCorrection, transient, AGCMode, PrescanMode NA values replaced in MasterScanNumber renamed LMCorrectionppm to LMCorrection copied AGC to AGCMode calculated PrescanMode values missing column name(s): FTResolution, LMCorrection, transient, AGCMode, PrescanMode NA values replaced in MasterScanNumber renamed LMCorrectionppm to LMCorrection copied AGC to AGCMode calculated PrescanMode values missing column name(s): FTResolution, LMCorrection, transient, AGCMode, PrescanMode NA values replaced in MasterScanNumber renamed LMCorrectionppm to LMCorrection copied AGC to AGCMode calculated PrescanMode values output$tic.basepeak <- renderPlot({ #rows are 1598116 output$download 2... Warning in shinyStore::updateStore(session, "login", isolate(input$login), : Encryption requested, but the user is not authenticated. The encryption will be MUCH weaker without binding to a logged-in user. Warning in shinyStore::updateStore(session, "webservicepassword", isolate(input$webservicepassword), : Encryption requested, but the user is not authenticated. The encryption will be MUCH weaker without binding to a logged-in user. Warning in shinyStore::updateStore(session, "project", isolate(input$project), : Encryption requested, but the user is not authenticated. The encryption will be MUCH weaker without binding to a logged-in user. 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: '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 1598116 output$download 2... output$tic.basepeak <- renderPlot({ #rows are 1598116 output$download 2... ggsave to file /tmp/RtmpdSXFJz/rawDiag-dfdef4af90c99.pdf generated pdf /tmp/RtmpdSXFJz/rawDiag-dfdef4af90c99.pdf bfabricShiny::uploadResource ... list(list(`_classname` = "workunit", `_id` = 295955, application = list(`_classname` = "application", `_id` = 225), container = list(`_classname` = "order", `_id` = 33367), created = "2023-11-13 10:04:49", createdby = "heinzmann", description = "input files:\np33367/Proteomics/LUMOS_2/analytic_20231110/20231110_C33367_003_S588362_Control_3.raw \np33367/Proteomics/LUMOS_2/analytic_20231110/20231110_C33367_007_S588361_Control_2.raw \np33367/Proteomics/LUMOS_2/analytic_20231110/20231110_C33367_015_S588367_Treated_2_4.raw\np33367/Proteomics/LUMOS_2/analytic_20231110/20231110_C33367_002_S588370_Treated_5_3.raw\np33367/Proteomics/LUMOS_2/analytic_20231110/20231110_C33367_009_S588363_Control_4.raw \np33367/Proteomics/LUMOS_2/analytic_20231110/20231110_C33367_005_S588366_Treated_2_3.raw\np33367/Proteomics/LUMOS_2/analytic_20231110/20231110_C33367_014_S588371_Treated_5_4.raw\np33367/Proteomics/LUMOS_2/analytic_20231110/20231110_C33367_008_S588368_Treated_5_1.raw\np33367/Proteomics/LUMOS_2/analytic_20231110/20231110_C33367_016_S588360_Control_1.raw \np33367/Proteomics/LUMOS_2/analytic_20231110/20231110_C33367_010_S588365_Treated_2_2.raw\np33367/Proteomics/LUMOS_2/analytic_20231110/20231110_C33367_013_S588364_Treated_2_1.raw\np33367/Proteomics/LUMOS_2/analytic_20231110/20231110_C33367_004_S588369_Treated_5_2.raw\n\nGenerated by Rpkg https://github.com/fgcz/bfabricShiny/ version 0.12.23.\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` = 2390588), list(`_classname` = "resource", `_id` = 2390587), list(`_classname` = "resource", `_id` = 2390586), list(`_classname` = "resource", `_id` = 2390585), list(`_classname` = "resource", `_id` = 2390584), list(`_classname` = "resource", `_id` = 2390583), list(`_classname` = "resource", `_id` = 2390582), list(`_classname` = "resource", `_id` = 2390581), list(`_classname` = "resource", `_id` = 2390580), list( `_classname` = "resource", `_id` = 2390579), list(`_classname` = "resource", `_id` = 2390578), list(`_classname` = "resource", `_id` = 2390577)), modified = "2023-11-13 10:04:49", modifiedby = "heinzmann", name = "TIC and basepeak plot", status = "AVAILABLE"))list(list(`_classname` = "resource", `_id` = 2390690, container = list(`_classname` = "order", `_id` = 33367), created = "2023-11-13 10:04:51", createdby = "heinzmann", filechecksum = "ee71740590328bea1ec0de8ccef23b98", junk = "false", modified = "2023-11-13 10:04:51", modifiedby = "heinzmann", name = "WU295955-20231113-1004-rawDiag.pdf", relativepath = "container_33367/workunit_295955/WU295955-20231113-1004-rawDiag.pdf", size = "604355", status = "available", storage = list(`_classname` = "storage", `_id` = 10), uri = list("https://fgcz-bfabric.uzh.ch/dmexternal/container_33367/workunit_295955/WU295955-20231113-1004-rawDiag.pdf", "scp://localhost/export/bfabric/data/b-fabric-external-repo/container_33367/workunit_295955/WU295955-20231113-1004-rawDiag.pdf"), workunit = list(`_classname` = "workunit", `_id` = 295955))) The current plot is available as workunit 295955 #rows are 1598116 output$download 1... Warning in shinyStore::updateStore(session, "login", isolate(input$login), : Encryption requested, but the user is not authenticated. The encryption will be MUCH weaker without binding to a logged-in user. Warning in shinyStore::updateStore(session, "webservicepassword", isolate(input$webservicepassword), : Encryption requested, but the user is not authenticated. The encryption will be MUCH weaker without binding to a logged-in user. Warning in shinyStore::updateStore(session, "project", isolate(input$project), : Encryption requested, but the user is not authenticated. The encryption will be MUCH weaker without binding to a logged-in user. output$tic.basepeak <- renderPlot({ executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p33356/Proteomics/EXPLORIS_2/analytic_20231110/20231110_C33356_010_S587813_NI_nobiotin_buffer_Control_noninfected.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p33356/Proteomics/EXPLORIS_2/analytic_20231110/20231110_C33356_002_S587806_Ad5_biotin_beads_infected___biotin-azide.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p33356/Proteomics/EXPLORIS_2/analytic_20231110/20231110_C33356_005_S587809_NI_nobiotin_beads_Control_noninfected.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p33356/Proteomics/EXPLORIS_2/analytic_20231110/20231110_C33356_009_S587812_NI_biotin_buffer_noninfected__biotin-azide.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p33356/Proteomics/EXPLORIS_2/analytic_20231110/20231110_C33356_008_S587811_Ad5_nobiotin_buffer_Control_infected.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p33356/Proteomics/EXPLORIS_2/analytic_20231110/20231110_C33356_007_S587810_Ad5_biotin_buffer_infected___biotin-azide.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p33356/Proteomics/EXPLORIS_2/analytic_20231110/20231110_C33356_003_S587807_Ad5_nobiotin_beads_Control_infected.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p33356/Proteomics/EXPLORIS_2/analytic_20231110/20231110_C33356_004_S587808_NI_biotin_beads_noninfected__biotin-azide.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 missing column name(s): LMCorrection, ElapsedScanTimesec, transient, AGCMode, PrescanMode NA values replaced in MasterScanNumber renamed LMmZCorrectionppm to LMCorrection renamed LMmZCorrectionppm to LMCorrection renamed AGCPSMode to PrescanMode 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 188588 output$download 2... output$tic.basepeak <- renderPlot({ #rows are 188588 output$download 2... ggsave to file /tmp/RtmpdSXFJz/rawDiag-dfdef55738230.pdf generated pdf /tmp/RtmpdSXFJz/rawDiag-dfdef55738230.pdf bfabricShiny::uploadResource ... list(list(`_classname` = "workunit", `_id` = 295959, application = list(`_classname` = "application", `_id` = 225), container = list(`_classname` = "order", `_id` = 33356), created = "2023-11-13 10:43:27", createdby = "tobiasko", description = "input files:\np33356/Proteomics/EXPLORIS_2/analytic_20231110/20231110_C33356_010_S587813_NI_nobiotin_buffer_Control_noninfected.raw \np33356/Proteomics/EXPLORIS_2/analytic_20231110/20231110_C33356_002_S587806_Ad5_biotin_beads_infected___biotin-azide.raw \np33356/Proteomics/EXPLORIS_2/analytic_20231110/20231110_C33356_005_S587809_NI_nobiotin_beads_Control_noninfected.raw \np33356/Proteomics/EXPLORIS_2/analytic_20231110/20231110_C33356_009_S587812_NI_biotin_buffer_noninfected__biotin-azide.raw\np33356/Proteomics/EXPLORIS_2/analytic_20231110/20231110_C33356_008_S587811_Ad5_nobiotin_buffer_Control_infected.raw \np33356/Proteomics/EXPLORIS_2/analytic_20231110/20231110_C33356_007_S587810_Ad5_biotin_buffer_infected___biotin-azide.raw \np33356/Proteomics/EXPLORIS_2/analytic_20231110/20231110_C33356_003_S587807_Ad5_nobiotin_beads_Control_infected.raw \np33356/Proteomics/EXPLORIS_2/analytic_20231110/20231110_C33356_004_S587808_NI_biotin_beads_noninfected__biotin-azide.raw \n\nGenerated by Rpkg https://github.com/fgcz/bfabricShiny/ version 0.12.23.\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` = 2390703), list(`_classname` = "resource", `_id` = 2390702), list(`_classname` = "resource", `_id` = 2390701), list(`_classname` = "resource", `_id` = 2390700), list(`_classname` = "resource", `_id` = 2390699), list(`_classname` = "resource", `_id` = 2390698), list(`_classname` = "resource", `_id` = 2390697), list(`_classname` = "resource", `_id` = 2390696)), modified = "2023-11-13 10:43:27", modifiedby = "tobiasko", name = "TIC and basepeak plot", status = "AVAILABLE"))list(list(`_classname` = "resource", `_id` = 2390707, container = list(`_classname` = "order", `_id` = 33356), created = "2023-11-13 10:43:28", createdby = "tobiasko", filechecksum = "9666c3d0db59df46472c17a310e7102e", junk = "false", modified = "2023-11-13 10:43:28", modifiedby = "tobiasko", name = "WU295959-20231113-1043-rawDiag.pdf", relativepath = "container_33356/workunit_295959/WU295959-20231113-1043-rawDiag.pdf", size = "295921", status = "available", storage = list(`_classname` = "storage", `_id` = 10), uri = list("https://fgcz-bfabric.uzh.ch/dmexternal/container_33356/workunit_295959/WU295959-20231113-1043-rawDiag.pdf", "scp://localhost/export/bfabric/data/b-fabric-external-repo/container_33356/workunit_295959/WU295959-20231113-1043-rawDiag.pdf"), workunit = list(`_classname` = "workunit", `_id` = 295959))) The current plot is available as workunit 295959 #rows are 188588 output$download 1... output$scan.frequency <- renderPlot Warning: Removed 29 rows containing missing values (`geom_line()`). #rows are 188588 output$download 2... ggsave to file /tmp/RtmpdSXFJz/rawDiag-dfdef4c2f55de.pdf Warning: Removed 29 rows containing missing values (`geom_line()`). generated pdf /tmp/RtmpdSXFJz/rawDiag-dfdef4c2f55de.pdf bfabricShiny::uploadResource ... list(list(`_classname` = "workunit", `_id` = 295960, application = list(`_classname` = "application", `_id` = 225), container = list(`_classname` = "order", `_id` = 33356), created = "2023-11-13 10:46:37", createdby = "tobiasko", description = "input files:\np33356/Proteomics/EXPLORIS_2/analytic_20231110/20231110_C33356_010_S587813_NI_nobiotin_buffer_Control_noninfected.raw \np33356/Proteomics/EXPLORIS_2/analytic_20231110/20231110_C33356_002_S587806_Ad5_biotin_beads_infected___biotin-azide.raw \np33356/Proteomics/EXPLORIS_2/analytic_20231110/20231110_C33356_005_S587809_NI_nobiotin_beads_Control_noninfected.raw \np33356/Proteomics/EXPLORIS_2/analytic_20231110/20231110_C33356_009_S587812_NI_biotin_buffer_noninfected__biotin-azide.raw\np33356/Proteomics/EXPLORIS_2/analytic_20231110/20231110_C33356_008_S587811_Ad5_nobiotin_buffer_Control_infected.raw \np33356/Proteomics/EXPLORIS_2/analytic_20231110/20231110_C33356_007_S587810_Ad5_biotin_buffer_infected___biotin-azide.raw \np33356/Proteomics/EXPLORIS_2/analytic_20231110/20231110_C33356_003_S587807_Ad5_nobiotin_beads_Control_infected.raw \np33356/Proteomics/EXPLORIS_2/analytic_20231110/20231110_C33356_004_S587808_NI_biotin_beads_noninfected__biotin-azide.raw \n\nGenerated by Rpkg https://github.com/fgcz/bfabricShiny/ version 0.12.23.\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` = 2390703), list(`_classname` = "resource", `_id` = 2390702), list(`_classname` = "resource", `_id` = 2390701), list(`_classname` = "resource", `_id` = 2390700), list(`_classname` = "resource", `_id` = 2390699), list(`_classname` = "resource", `_id` = 2390698), list(`_classname` = "resource", `_id` = 2390697), list(`_classname` = "resource", `_id` = 2390696)), modified = "2023-11-13 10:46:37", modifiedby = "tobiasko", name = "scan frequency plot", status = "AVAILABLE"))list(list(`_classname` = "resource", `_id` = 2390708, container = list(`_classname` = "order", `_id` = 33356), created = "2023-11-13 10:46:38", createdby = "tobiasko", filechecksum = "19fe8c0e5396d3aed1d846156558d9ca", junk = "false", modified = "2023-11-13 10:46:38", modifiedby = "tobiasko", name = "WU295960-20231113-1046-rawDiag.pdf", relativepath = "container_33356/workunit_295960/WU295960-20231113-1046-rawDiag.pdf", size = "244501", status = "available", storage = list(`_classname` = "storage", `_id` = 10), uri = list("https://fgcz-bfabric.uzh.ch/dmexternal/container_33356/workunit_295960/WU295960-20231113-1046-rawDiag.pdf", "scp://localhost/export/bfabric/data/b-fabric-external-repo/container_33356/workunit_295960/WU295960-20231113-1046-rawDiag.pdf"), workunit = list(`_classname` = "workunit", `_id` = 295960))) The current plot is available as workunit 295960 #rows are 188588 output$download 1... `geom_smooth()` using formula = 'y ~ x' #rows are 188588 output$download 2... ggsave to file /tmp/RtmpdSXFJz/rawDiag-dfdef11cf8b04.pdf `geom_smooth()` using formula = 'y ~ x' generated pdf /tmp/RtmpdSXFJz/rawDiag-dfdef11cf8b04.pdf bfabricShiny::uploadResource ... list(list(`_classname` = "workunit", `_id` = 295961, application = list(`_classname` = "application", `_id` = 225), container = list(`_classname` = "order", `_id` = 33356), created = "2023-11-13 10:47:01", createdby = "tobiasko", description = "input files:\np33356/Proteomics/EXPLORIS_2/analytic_20231110/20231110_C33356_010_S587813_NI_nobiotin_buffer_Control_noninfected.raw \np33356/Proteomics/EXPLORIS_2/analytic_20231110/20231110_C33356_002_S587806_Ad5_biotin_beads_infected___biotin-azide.raw \np33356/Proteomics/EXPLORIS_2/analytic_20231110/20231110_C33356_005_S587809_NI_nobiotin_beads_Control_noninfected.raw \np33356/Proteomics/EXPLORIS_2/analytic_20231110/20231110_C33356_009_S587812_NI_biotin_buffer_noninfected__biotin-azide.raw\np33356/Proteomics/EXPLORIS_2/analytic_20231110/20231110_C33356_008_S587811_Ad5_nobiotin_buffer_Control_infected.raw \np33356/Proteomics/EXPLORIS_2/analytic_20231110/20231110_C33356_007_S587810_Ad5_biotin_buffer_infected___biotin-azide.raw \np33356/Proteomics/EXPLORIS_2/analytic_20231110/20231110_C33356_003_S587807_Ad5_nobiotin_beads_Control_infected.raw \np33356/Proteomics/EXPLORIS_2/analytic_20231110/20231110_C33356_004_S587808_NI_biotin_beads_noninfected__biotin-azide.raw \n\nGenerated by Rpkg https://github.com/fgcz/bfabricShiny/ version 0.12.23.\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` = 2390703), list(`_classname` = "resource", `_id` = 2390702), list(`_classname` = "resource", `_id` = 2390701), list(`_classname` = "resource", `_id` = 2390700), list(`_classname` = "resource", `_id` = 2390699), list(`_classname` = "resource", `_id` = 2390698), list(`_classname` = "resource", `_id` = 2390697), list(`_classname` = "resource", `_id` = 2390696)), modified = "2023-11-13 10:47:01", modifiedby = "tobiasko", name = "cycle load plot", status = "AVAILABLE"))list(list(`_classname` = "resource", `_id` = 2390709, container = list(`_classname` = "order", `_id` = 33356), created = "2023-11-13 10:47:02", createdby = "tobiasko", filechecksum = "091ea699e1eb24a72e79ae3a5686a73a", junk = "false", modified = "2023-11-13 10:47:02", modifiedby = "tobiasko", name = "WU295961-20231113-1047-rawDiag.pdf", relativepath = "container_33356/workunit_295961/WU295961-20231113-1047-rawDiag.pdf", size = "418349", status = "available", storage = list(`_classname` = "storage", `_id` = 10), uri = list("https://fgcz-bfabric.uzh.ch/dmexternal/container_33356/workunit_295961/WU295961-20231113-1047-rawDiag.pdf", "scp://localhost/export/bfabric/data/b-fabric-external-repo/container_33356/workunit_295961/WU295961-20231113-1047-rawDiag.pdf"), workunit = list(`_classname` = "workunit", `_id` = 295961))) The current plot is available as workunit 295961 #rows are 188588 output$download 1... Warning: Removed 1509 rows containing non-finite values (`stat_smooth()`). #rows are 188588 output$download 2... ggsave to file /tmp/RtmpdSXFJz/rawDiag-dfdef4785a0ec.pdf Warning: Removed 1509 rows containing non-finite values (`stat_smooth()`). generated pdf /tmp/RtmpdSXFJz/rawDiag-dfdef4785a0ec.pdf bfabricShiny::uploadResource ... list(list(`_classname` = "workunit", `_id` = 295962, application = list(`_classname` = "application", `_id` = 225), container = list(`_classname` = "order", `_id` = 33356), created = "2023-11-13 10:47:39", createdby = "tobiasko", description = "input files:\np33356/Proteomics/EXPLORIS_2/analytic_20231110/20231110_C33356_010_S587813_NI_nobiotin_buffer_Control_noninfected.raw \np33356/Proteomics/EXPLORIS_2/analytic_20231110/20231110_C33356_002_S587806_Ad5_biotin_beads_infected___biotin-azide.raw \np33356/Proteomics/EXPLORIS_2/analytic_20231110/20231110_C33356_005_S587809_NI_nobiotin_beads_Control_noninfected.raw \np33356/Proteomics/EXPLORIS_2/analytic_20231110/20231110_C33356_009_S587812_NI_biotin_buffer_noninfected__biotin-azide.raw\np33356/Proteomics/EXPLORIS_2/analytic_20231110/20231110_C33356_008_S587811_Ad5_nobiotin_buffer_Control_infected.raw \np33356/Proteomics/EXPLORIS_2/analytic_20231110/20231110_C33356_007_S587810_Ad5_biotin_buffer_infected___biotin-azide.raw \np33356/Proteomics/EXPLORIS_2/analytic_20231110/20231110_C33356_003_S587807_Ad5_nobiotin_beads_Control_infected.raw \np33356/Proteomics/EXPLORIS_2/analytic_20231110/20231110_C33356_004_S587808_NI_biotin_beads_noninfected__biotin-azide.raw \n\nGenerated by Rpkg https://github.com/fgcz/bfabricShiny/ version 0.12.23.\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` = 2390703), list(`_classname` = "resource", `_id` = 2390702), list(`_classname` = "resource", `_id` = 2390701), list(`_classname` = "resource", `_id` = 2390700), list(`_classname` = "resource", `_id` = 2390699), list(`_classname` = "resource", `_id` = 2390698), list(`_classname` = "resource", `_id` = 2390697), list(`_classname` = "resource", `_id` = 2390696)), modified = "2023-11-13 10:47:39", modifiedby = "tobiasko", name = "lock mass correction plot", status = "AVAILABLE"))list(list(`_classname` = "resource", `_id` = 2390710, container = list(`_classname` = "order", `_id` = 33356), created = "2023-11-13 10:47:41", createdby = "tobiasko", filechecksum = "e7d7b52e07b5ab98a4e7bb073b7065d0", junk = "false", modified = "2023-11-13 10:47:41", modifiedby = "tobiasko", name = "WU295962-20231113-1047-rawDiag.pdf", relativepath = "container_33356/workunit_295962/WU295962-20231113-1047-rawDiag.pdf", size = "178720", status = "available", storage = list(`_classname` = "storage", `_id` = 10), uri = list("https://fgcz-bfabric.uzh.ch/dmexternal/container_33356/workunit_295962/WU295962-20231113-1047-rawDiag.pdf", "scp://localhost/export/bfabric/data/b-fabric-external-repo/container_33356/workunit_295962/WU295962-20231113-1047-rawDiag.pdf"), workunit = list(`_classname` = "workunit", `_id` = 295962))) The current plot is available as workunit 295962 #rows are 188588 output$download 1... #rows are 188588 output$download 2... ggsave to file /tmp/RtmpdSXFJz/rawDiag-dfdefa776247.pdf generated pdf /tmp/RtmpdSXFJz/rawDiag-dfdefa776247.pdf bfabricShiny::uploadResource ... list(list(`_classname` = "workunit", `_id` = 295963, application = list(`_classname` = "application", `_id` = 225), container = list(`_classname` = "order", `_id` = 33356), created = "2023-11-13 10:48:35", createdby = "tobiasko", description = "input files:\np33356/Proteomics/EXPLORIS_2/analytic_20231110/20231110_C33356_010_S587813_NI_nobiotin_buffer_Control_noninfected.raw \np33356/Proteomics/EXPLORIS_2/analytic_20231110/20231110_C33356_002_S587806_Ad5_biotin_beads_infected___biotin-azide.raw \np33356/Proteomics/EXPLORIS_2/analytic_20231110/20231110_C33356_005_S587809_NI_nobiotin_beads_Control_noninfected.raw \np33356/Proteomics/EXPLORIS_2/analytic_20231110/20231110_C33356_009_S587812_NI_biotin_buffer_noninfected__biotin-azide.raw\np33356/Proteomics/EXPLORIS_2/analytic_20231110/20231110_C33356_008_S587811_Ad5_nobiotin_buffer_Control_infected.raw \np33356/Proteomics/EXPLORIS_2/analytic_20231110/20231110_C33356_007_S587810_Ad5_biotin_buffer_infected___biotin-azide.raw \np33356/Proteomics/EXPLORIS_2/analytic_20231110/20231110_C33356_003_S587807_Ad5_nobiotin_beads_Control_infected.raw \np33356/Proteomics/EXPLORIS_2/analytic_20231110/20231110_C33356_004_S587808_NI_biotin_beads_noninfected__biotin-azide.raw \n\nGenerated by Rpkg https://github.com/fgcz/bfabricShiny/ version 0.12.23.\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` = 2390703), list(`_classname` = "resource", `_id` = 2390702), list(`_classname` = "resource", `_id` = 2390701), list(`_classname` = "resource", `_id` = 2390700), list(`_classname` = "resource", `_id` = 2390699), list(`_classname` = "resource", `_id` = 2390698), list(`_classname` = "resource", `_id` = 2390697), list(`_classname` = "resource", `_id` = 2390696)), modified = "2023-11-13 10:48:35", modifiedby = "tobiasko", name = "injection time plot", status = "AVAILABLE"))list(list(`_classname` = "resource", `_id` = 2390711, container = list(`_classname` = "order", `_id` = 33356), created = "2023-11-13 10:48:36", createdby = "tobiasko", filechecksum = "bf091080b827ae1ac69dba0cdac5b86a", junk = "false", modified = "2023-11-13 10:48:36", modifiedby = "tobiasko", name = "WU295963-20231113-1048-rawDiag.pdf", relativepath = "container_33356/workunit_295963/WU295963-20231113-1048-rawDiag.pdf", size = "659501", status = "available", storage = list(`_classname` = "storage", `_id` = 10), uri = list("https://fgcz-bfabric.uzh.ch/dmexternal/container_33356/workunit_295963/WU295963-20231113-1048-rawDiag.pdf", "scp://localhost/export/bfabric/data/b-fabric-external-repo/container_33356/workunit_295963/WU295963-20231113-1048-rawDiag.pdf"), workunit = list(`_classname` = "workunit", `_id` = 295963))) The current plot is available as workunit 295963 #rows are 188588 output$download 1... #rows are 188588 output$download 2... ggsave to file /tmp/RtmpdSXFJz/rawDiag-dfdeff1e23aa.pdf generated pdf /tmp/RtmpdSXFJz/rawDiag-dfdeff1e23aa.pdf bfabricShiny::uploadResource ... list(list(`_classname` = "workunit", `_id` = 295964, application = list(`_classname` = "application", `_id` = 225), container = list(`_classname` = "order", `_id` = 33356), created = "2023-11-13 10:49:06", createdby = "tobiasko", description = "input files:\np33356/Proteomics/EXPLORIS_2/analytic_20231110/20231110_C33356_010_S587813_NI_nobiotin_buffer_Control_noninfected.raw \np33356/Proteomics/EXPLORIS_2/analytic_20231110/20231110_C33356_002_S587806_Ad5_biotin_beads_infected___biotin-azide.raw \np33356/Proteomics/EXPLORIS_2/analytic_20231110/20231110_C33356_005_S587809_NI_nobiotin_beads_Control_noninfected.raw \np33356/Proteomics/EXPLORIS_2/analytic_20231110/20231110_C33356_009_S587812_NI_biotin_buffer_noninfected__biotin-azide.raw\np33356/Proteomics/EXPLORIS_2/analytic_20231110/20231110_C33356_008_S587811_Ad5_nobiotin_buffer_Control_infected.raw \np33356/Proteomics/EXPLORIS_2/analytic_20231110/20231110_C33356_007_S587810_Ad5_biotin_buffer_infected___biotin-azide.raw \np33356/Proteomics/EXPLORIS_2/analytic_20231110/20231110_C33356_003_S587807_Ad5_nobiotin_beads_Control_infected.raw \np33356/Proteomics/EXPLORIS_2/analytic_20231110/20231110_C33356_004_S587808_NI_biotin_beads_noninfected__biotin-azide.raw \n\nGenerated by Rpkg https://github.com/fgcz/bfabricShiny/ version 0.12.23.\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` = 2390703), list(`_classname` = "resource", `_id` = 2390702), list(`_classname` = "resource", `_id` = 2390701), list(`_classname` = "resource", `_id` = 2390700), list(`_classname` = "resource", `_id` = 2390699), list(`_classname` = "resource", `_id` = 2390698), list(`_classname` = "resource", `_id` = 2390697), list(`_classname` = "resource", `_id` = 2390696)), modified = "2023-11-13 10:49:06", modifiedby = "tobiasko", name = "charge state plot", status = "AVAILABLE"))list(list(`_classname` = "resource", `_id` = 2390712, container = list(`_classname` = "order", `_id` = 33356), created = "2023-11-13 10:49:07", createdby = "tobiasko", filechecksum = "abe168f1e0805b3b586a4e1863d2c915", junk = "false", modified = "2023-11-13 10:49:07", modifiedby = "tobiasko", name = "WU295964-20231113-1049-rawDiag.pdf", relativepath = "container_33356/workunit_295964/WU295964-20231113-1049-rawDiag.pdf", size = "9673", status = "available", storage = list(`_classname` = "storage", `_id` = 10), uri = list("https://fgcz-bfabric.uzh.ch/dmexternal/container_33356/workunit_295964/WU295964-20231113-1049-rawDiag.pdf", "scp://localhost/export/bfabric/data/b-fabric-external-repo/container_33356/workunit_295964/WU295964-20231113-1049-rawDiag.pdf"), workunit = list(`_classname` = "workunit", `_id` = 295964))) The current plot is available as workunit 295964 #rows are 188588 output$download 1... Warning: 'readXICs' is deprecated. Use 'rawrr::readChromatogram' instead. See help("Deprecated") Warning: 'readXICs' is deprecated. Use 'rawrr::readChromatogram' instead. See help("Deprecated") Warning: 'readXICs' is deprecated. Use 'rawrr::readChromatogram' instead. See help("Deprecated") Warning: 'readXICs' is deprecated. Use 'rawrr::readChromatogram' instead. See help("Deprecated") Warning: 'readXICs' is deprecated. Use 'rawrr::readChromatogram' instead. See help("Deprecated") Warning: 'readXICs' is deprecated. Use 'rawrr::readChromatogram' instead. See help("Deprecated") Warning: 'readXICs' is deprecated. Use 'rawrr::readChromatogram' instead. See help("Deprecated") Warning: 'readXICs' is deprecated. Use 'rawrr::readChromatogram' instead. See help("Deprecated") #rows are 188588 output$download 2... ggsave to file /tmp/RtmpdSXFJz/rawDiag-dfdef136fe045.pdf generated pdf /tmp/RtmpdSXFJz/rawDiag-dfdef136fe045.pdf bfabricShiny::uploadResource ... list(list(`_classname` = "workunit", `_id` = 295965, application = list(`_classname` = "application", `_id` = 225), container = list(`_classname` = "order", `_id` = 33356), created = "2023-11-13 10:49:34", createdby = "tobiasko", description = "input files:\np33356/Proteomics/EXPLORIS_2/analytic_20231110/20231110_C33356_010_S587813_NI_nobiotin_buffer_Control_noninfected.raw \np33356/Proteomics/EXPLORIS_2/analytic_20231110/20231110_C33356_002_S587806_Ad5_biotin_beads_infected___biotin-azide.raw \np33356/Proteomics/EXPLORIS_2/analytic_20231110/20231110_C33356_005_S587809_NI_nobiotin_beads_Control_noninfected.raw \np33356/Proteomics/EXPLORIS_2/analytic_20231110/20231110_C33356_009_S587812_NI_biotin_buffer_noninfected__biotin-azide.raw\np33356/Proteomics/EXPLORIS_2/analytic_20231110/20231110_C33356_008_S587811_Ad5_nobiotin_buffer_Control_infected.raw \np33356/Proteomics/EXPLORIS_2/analytic_20231110/20231110_C33356_007_S587810_Ad5_biotin_buffer_infected___biotin-azide.raw \np33356/Proteomics/EXPLORIS_2/analytic_20231110/20231110_C33356_003_S587807_Ad5_nobiotin_beads_Control_infected.raw \np33356/Proteomics/EXPLORIS_2/analytic_20231110/20231110_C33356_004_S587808_NI_biotin_beads_noninfected__biotin-azide.raw \n\nGenerated by Rpkg https://github.com/fgcz/bfabricShiny/ version 0.12.23.\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` = 2390703), list(`_classname` = "resource", `_id` = 2390702), list(`_classname` = "resource", `_id` = 2390701), list(`_classname` = "resource", `_id` = 2390700), list(`_classname` = "resource", `_id` = 2390699), list(`_classname` = "resource", `_id` = 2390698), list(`_classname` = "resource", `_id` = 2390697), list(`_classname` = "resource", `_id` = 2390696)), modified = "2023-11-13 10:49:34", modifiedby = "tobiasko", name = "XIC plot", status = "AVAILABLE"))list(list(`_classname` = "resource", `_id` = 2390713, container = list(`_classname` = "order", `_id` = 33356), created = "2023-11-13 10:49:35", createdby = "tobiasko", filechecksum = "3da1a0d2d84c25317922f8e1b1ea328d", junk = "false", modified = "2023-11-13 10:49:35", modifiedby = "tobiasko", name = "WU295965-20231113-1049-rawDiag.pdf", relativepath = "container_33356/workunit_295965/WU295965-20231113-1049-rawDiag.pdf", size = "26304", status = "available", storage = list(`_classname` = "storage", `_id` = 10), uri = list("https://fgcz-bfabric.uzh.ch/dmexternal/container_33356/workunit_295965/WU295965-20231113-1049-rawDiag.pdf", "scp://localhost/export/bfabric/data/b-fabric-external-repo/container_33356/workunit_295965/WU295965-20231113-1049-rawDiag.pdf"), workunit = list(`_classname` = "workunit", `_id` = 295965))) The current plot is available as workunit 295965 #rows are 188588 output$download 1... DEBUG renderPlot plotQCs #rows are 188588 output$download 1... output$tic.basepeak <- renderPlot({ #rows are 188588 output$download 2... output$tic.basepeak <- renderPlot({ #rows are 188588 output$download 2... Execution halted