Listening on http://127.0.0.1:37887 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$employee <- renderUI({ bfabricConnectionWorking TRUE 'empdegree' found. saving 'login and webservicepassword' ... #rows are 0 saving 'login and webservicepassword' ... output$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. #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$employee <- renderUI({ bfabricConnectionWorking TRUE 'empdegree' found. saving 'login and webservicepassword' ... Warning: The select input "bfabric8-workunit" contains a large number of options; consider using server-side selectize for massively improved performance. See the Details section of the ?selectizeInput help topic. saving 'login and webservicepassword' ... #rows are 0 saving 'login and webservicepassword' ... output$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({ Warning in .read(login = login, webservicepassword = webservicepassword, : query failed. bfabricConnectionWorking FALSE output$employee <- renderUI({ bfabricConnectionWorking TRUE 'empdegree' found. saving 'login and webservicepassword' ... saving 'login and webservicepassword' ... saving 'login and webservicepassword' ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p32312/Proteomics/QEXACTIVE_1/analytic_20230720/20230720_C32312_006_S534987_FAm98C_FLAG-IP.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p32312/Proteomics/QEXACTIVE_1/analytic_20230720/20230720_C32312_002_S534984_Control_FLAG-IP.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p32312/Proteomics/QEXACTIVE_1/analytic_20230720/20230720_C32312_005_S534986_FAM98B_FLAG-IP.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p32312/Proteomics/QEXACTIVE_1/analytic_20230720/20230720_C32312_003_S534985_FAM98A_FLAG-IP.raw qc ... missing column name(s): MasterScanNumber, LMCorrection, ElapsedScanTimesec, transient, AGCMode, PrescanMode MasterScanNumber calculated renamed LMmZCorrectionppm to LMCorrection renamed AGCPSMode to PrescanMode missing column name(s): MasterScanNumber, LMCorrection, ElapsedScanTimesec, transient, AGCMode, PrescanMode MasterScanNumber calculated missing column name(s): MasterScanNumber, LMCorrection, ElapsedScanTimesec, transient, AGCMode, PrescanMode MasterScanNumber calculated renamed LMmZCorrectionppm to LMCorrection renamed AGCPSMode to PrescanMode renamed LMmZCorrectionppm to LMCorrection renamed AGCPSMode to PrescanMode missing column name(s): MasterScanNumber, LMCorrection, ElapsedScanTimesec, transient, AGCMode, PrescanMode MasterScanNumber calculated renamed LMmZCorrectionppm to LMCorrection renamed AGCPSMode to PrescanMode #rows are 73195 output$tic.basepeak <- renderPlot({ #rows are 73195 output$download 2... #rows are 0 saving 'login and webservicepassword' ... output$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//p32312/Proteomics/QEXACTIVE_1/analytic_20230720/20230720_C32312_002_S534984_Control_FLAG-IP.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p32312/Proteomics/QEXACTIVE_1/analytic_20230720/20230720_C32312_003_S534985_FAM98A_FLAG-IP.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p32312/Proteomics/QEXACTIVE_1/analytic_20230720/20230720_C32312_005_S534986_FAM98B_FLAG-IP.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p32312/Proteomics/QEXACTIVE_1/analytic_20230720/20230720_C32312_006_S534987_FAm98C_FLAG-IP.raw qc ... missing column name(s): MasterScanNumber, LMCorrection, ElapsedScanTimesec, transient, AGCMode, PrescanMode MasterScanNumber calculated renamed LMmZCorrectionppm to LMCorrection renamed AGCPSMode to PrescanMode missing column name(s): MasterScanNumber, LMCorrection, ElapsedScanTimesec, transient, AGCMode, PrescanMode MasterScanNumber calculated renamed LMmZCorrectionppm to LMCorrection renamed AGCPSMode to PrescanMode missing column name(s): MasterScanNumber, LMCorrection, ElapsedScanTimesec, transient, AGCMode, PrescanMode MasterScanNumber calculated renamed LMmZCorrectionppm to LMCorrection renamed AGCPSMode to PrescanMode missing column name(s): MasterScanNumber, LMCorrection, ElapsedScanTimesec, transient, AGCMode, PrescanMode MasterScanNumber calculated renamed LMmZCorrectionppm to LMCorrection renamed AGCPSMode to PrescanMode #rows are 73195 output$tic.basepeak <- renderPlot({ #rows are 73195 output$download 2... saving 'login and webservicepassword' ... ggsave to file /tmp/Rtmpw1PjEP/rawDiag-b71cc48496e0e.pdf generated pdf /tmp/Rtmpw1PjEP/rawDiag-b71cc48496e0e.pdf bfabricShiny::uploadResource ... list(list(`_classname` = "workunit", `_id` = 291528, application = list(`_classname` = "application", `_id` = 225), container = list(`_classname` = "order", `_id` = 32312), created = "2023-07-21 09:25:18", createdby = "tobiasko", deletable = "true", description = "input files:\np32312/Proteomics/QEXACTIVE_1/analytic_20230720/20230720_C32312_002_S534984_Control_FLAG-IP.raw\np32312/Proteomics/QEXACTIVE_1/analytic_20230720/20230720_C32312_003_S534985_FAM98A_FLAG-IP.raw \np32312/Proteomics/QEXACTIVE_1/analytic_20230720/20230720_C32312_005_S534986_FAM98B_FLAG-IP.raw \np32312/Proteomics/QEXACTIVE_1/analytic_20230720/20230720_C32312_006_S534987_FAm98C_FLAG-IP.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` = 2333476), list(`_classname` = "resource", `_id` = 2333475), list(`_classname` = "resource", `_id` = 2333474), list(`_classname` = "resource", `_id` = 2333473)), modified = "2023-07-21 09:25:18", modifiedby = "tobiasko", name = "TIC and basepeak plot", status = "AVAILABLE", updatable = "true"))list(list(`_classname` = "resource", `_id` = 2333578, container = list(`_classname` = "order", `_id` = 32312), created = "2023-07-21 09:25:20", createdby = "tobiasko", deletable = "true", filechecksum = "350099129dab5dc0888f6a798ee09aef", junk = "false", modified = "2023-07-21 09:25:20", modifiedby = "tobiasko", name = "WU291528-20230721-0925-rawDiag.pdf", relativepath = "container_32312/workunit_291528/WU291528-20230721-0925-rawDiag.pdf", size = "183049", status = "available", storage = list(`_classname` = "storage", `_id` = 10), updatable = "true", uri = list("https://fgcz-bfabric.uzh.ch/dmexternal/container_32312/workunit_291528/WU291528-20230721-0925-rawDiag.pdf", "scp://localhost/export/bfabric/data/b-fabric-external-repo/container_32312/workunit_291528/WU291528-20230721-0925-rawDiag.pdf"), workunit = list(`_classname` = "workunit", `_id` = 291528))) The current plot is available as workunit 291528 #rows are 73195 output$download 1... saving 'login and webservicepassword' ... output$scan.frequency <- renderPlot Warning: Removed 29 rows containing missing values (`geom_line()`). #rows are 73195 output$download 2... ggsave to file /tmp/Rtmpw1PjEP/rawDiag-b71cc1902a9c7.pdf Warning: Removed 29 rows containing missing values (`geom_line()`). generated pdf /tmp/Rtmpw1PjEP/rawDiag-b71cc1902a9c7.pdf bfabricShiny::uploadResource ... list(list(`_classname` = "workunit", `_id` = 291529, application = list(`_classname` = "application", `_id` = 225), container = list(`_classname` = "order", `_id` = 32312), created = "2023-07-21 09:25:45", createdby = "tobiasko", deletable = "true", description = "input files:\np32312/Proteomics/QEXACTIVE_1/analytic_20230720/20230720_C32312_002_S534984_Control_FLAG-IP.raw\np32312/Proteomics/QEXACTIVE_1/analytic_20230720/20230720_C32312_003_S534985_FAM98A_FLAG-IP.raw \np32312/Proteomics/QEXACTIVE_1/analytic_20230720/20230720_C32312_005_S534986_FAM98B_FLAG-IP.raw \np32312/Proteomics/QEXACTIVE_1/analytic_20230720/20230720_C32312_006_S534987_FAm98C_FLAG-IP.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` = 2333476), list(`_classname` = "resource", `_id` = 2333475), list(`_classname` = "resource", `_id` = 2333474), list(`_classname` = "resource", `_id` = 2333473)), modified = "2023-07-21 09:25:45", modifiedby = "tobiasko", name = "scan frequency plot", status = "AVAILABLE", updatable = "true"))list(list(`_classname` = "resource", `_id` = 2333579, container = list(`_classname` = "order", `_id` = 32312), created = "2023-07-21 09:25:47", createdby = "tobiasko", deletable = "true", filechecksum = "a8e1a7df6df2ea1d27a48e31b2df56ea", junk = "false", modified = "2023-07-21 09:25:47", modifiedby = "tobiasko", name = "WU291529-20230721-0925-rawDiag.pdf", relativepath = "container_32312/workunit_291529/WU291529-20230721-0925-rawDiag.pdf", size = "107871", status = "available", storage = list(`_classname` = "storage", `_id` = 10), updatable = "true", uri = list("https://fgcz-bfabric.uzh.ch/dmexternal/container_32312/workunit_291529/WU291529-20230721-0925-rawDiag.pdf", "scp://localhost/export/bfabric/data/b-fabric-external-repo/container_32312/workunit_291529/WU291529-20230721-0925-rawDiag.pdf"), workunit = list(`_classname` = "workunit", `_id` = 291529))) The current plot is available as workunit 291529 #rows are 73195 output$download 1... #rows are 73195 output$download 2... ggsave to file /tmp/Rtmpw1PjEP/rawDiag-b71cc4244f8.pdf generated pdf /tmp/Rtmpw1PjEP/rawDiag-b71cc4244f8.pdf bfabricShiny::uploadResource ... list(list(`_classname` = "workunit", `_id` = 291530, application = list(`_classname` = "application", `_id` = 225), container = list(`_classname` = "order", `_id` = 32312), created = "2023-07-21 09:26:08", createdby = "tobiasko", deletable = "true", description = "input files:\np32312/Proteomics/QEXACTIVE_1/analytic_20230720/20230720_C32312_002_S534984_Control_FLAG-IP.raw\np32312/Proteomics/QEXACTIVE_1/analytic_20230720/20230720_C32312_003_S534985_FAM98A_FLAG-IP.raw \np32312/Proteomics/QEXACTIVE_1/analytic_20230720/20230720_C32312_005_S534986_FAM98B_FLAG-IP.raw \np32312/Proteomics/QEXACTIVE_1/analytic_20230720/20230720_C32312_006_S534987_FAm98C_FLAG-IP.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` = 2333476), list(`_classname` = "resource", `_id` = 2333475), list(`_classname` = "resource", `_id` = 2333474), list(`_classname` = "resource", `_id` = 2333473)), modified = "2023-07-21 09:26:08", modifiedby = "tobiasko", name = "lock mass correction plot", status = "AVAILABLE", updatable = "true"))list(list(`_classname` = "resource", `_id` = 2333580, container = list(`_classname` = "order", `_id` = 32312), created = "2023-07-21 09:26:09", createdby = "tobiasko", deletable = "true", filechecksum = "77e3e4bd869d3b587ce73ec45aee5f56", junk = "false", modified = "2023-07-21 09:26:09", modifiedby = "tobiasko", name = "WU291530-20230721-0926-rawDiag.pdf", relativepath = "container_32312/workunit_291530/WU291530-20230721-0926-rawDiag.pdf", size = "114882", status = "available", storage = list(`_classname` = "storage", `_id` = 10), updatable = "true", uri = list("https://fgcz-bfabric.uzh.ch/dmexternal/container_32312/workunit_291530/WU291530-20230721-0926-rawDiag.pdf", "scp://localhost/export/bfabric/data/b-fabric-external-repo/container_32312/workunit_291530/WU291530-20230721-0926-rawDiag.pdf"), workunit = list(`_classname` = "workunit", `_id` = 291530))) The current plot is available as workunit 291530 #rows are 73195 output$download 1... #rows are 73195 output$download 2... ggsave to file /tmp/Rtmpw1PjEP/rawDiag-b71cc5f90deb7.pdf generated pdf /tmp/Rtmpw1PjEP/rawDiag-b71cc5f90deb7.pdf bfabricShiny::uploadResource ... list(list(`_classname` = "workunit", `_id` = 291531, application = list(`_classname` = "application", `_id` = 225), container = list(`_classname` = "order", `_id` = 32312), created = "2023-07-21 09:26:24", createdby = "tobiasko", deletable = "true", description = "input files:\np32312/Proteomics/QEXACTIVE_1/analytic_20230720/20230720_C32312_002_S534984_Control_FLAG-IP.raw\np32312/Proteomics/QEXACTIVE_1/analytic_20230720/20230720_C32312_003_S534985_FAM98A_FLAG-IP.raw \np32312/Proteomics/QEXACTIVE_1/analytic_20230720/20230720_C32312_005_S534986_FAM98B_FLAG-IP.raw \np32312/Proteomics/QEXACTIVE_1/analytic_20230720/20230720_C32312_006_S534987_FAm98C_FLAG-IP.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` = 2333476), list(`_classname` = "resource", `_id` = 2333475), list(`_classname` = "resource", `_id` = 2333474), list(`_classname` = "resource", `_id` = 2333473)), modified = "2023-07-21 09:26:24", modifiedby = "tobiasko", name = "injection time plot", status = "AVAILABLE", updatable = "true"))list(list(`_classname` = "resource", `_id` = 2333581, container = list(`_classname` = "order", `_id` = 32312), created = "2023-07-21 09:26:26", createdby = "tobiasko", deletable = "true", filechecksum = "87ef5fe17f216473306cbba2d15b9908", junk = "false", modified = "2023-07-21 09:26:26", modifiedby = "tobiasko", name = "WU291531-20230721-0926-rawDiag.pdf", relativepath = "container_32312/workunit_291531/WU291531-20230721-0926-rawDiag.pdf", size = "338506", status = "available", storage = list(`_classname` = "storage", `_id` = 10), updatable = "true", uri = list("https://fgcz-bfabric.uzh.ch/dmexternal/container_32312/workunit_291531/WU291531-20230721-0926-rawDiag.pdf", "scp://localhost/export/bfabric/data/b-fabric-external-repo/container_32312/workunit_291531/WU291531-20230721-0926-rawDiag.pdf"), workunit = list(`_classname` = "workunit", `_id` = 291531))) The current plot is available as workunit 291531 #rows are 73195 output$download 1... #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' ... Warning: The select input "bfabric8-workunit" contains a large number of options; consider using server-side selectize for massively improved performance. See the Details section of the ?selectizeInput help topic. saving 'login and webservicepassword' ... saving 'login and webservicepassword' ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p32312/Proteomics/QEXACTIVE_1/analytic_20230720/20230720_C32312_002_S534984_Control_FLAG-IP.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p32312/Proteomics/QEXACTIVE_1/analytic_20230720/20230720_C32312_005_S534986_FAM98B_FLAG-IP.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p32312/Proteomics/QEXACTIVE_1/analytic_20230720/20230720_C32312_006_S534987_FAm98C_FLAG-IP.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p32312/Proteomics/QEXACTIVE_1/analytic_20230720/20230720_C32312_003_S534985_FAM98A_FLAG-IP.raw qc ... missing column name(s): MasterScanNumber, LMCorrection, ElapsedScanTimesec, transient, AGCMode, PrescanMode MasterScanNumber calculated renamed LMmZCorrectionppm to LMCorrection renamed AGCPSMode to PrescanMode missing column name(s): MasterScanNumber, LMCorrection, ElapsedScanTimesec, transient, AGCMode, PrescanMode MasterScanNumber calculated renamed LMmZCorrectionppm to LMCorrection renamed AGCPSMode to PrescanMode missing column name(s): MasterScanNumber, LMCorrection, ElapsedScanTimesec, transient, AGCMode, PrescanMode MasterScanNumber calculated renamed LMmZCorrectionppm to LMCorrection renamed AGCPSMode to PrescanMode missing column name(s): MasterScanNumber, LMCorrection, ElapsedScanTimesec, transient, AGCMode, PrescanMode MasterScanNumber calculated renamed LMmZCorrectionppm to LMCorrection renamed AGCPSMode to PrescanMode #rows are 73195 executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p32312/Proteomics/QEXACTIVE_1/analytic_20230720/20230720_C32312_002_S534984_Control_FLAG-IP.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p32312/Proteomics/QEXACTIVE_1/analytic_20230720/20230720_C32312_003_S534985_FAM98A_FLAG-IP.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p32312/Proteomics/QEXACTIVE_1/analytic_20230720/20230720_C32312_005_S534986_FAM98B_FLAG-IP.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p32312/Proteomics/QEXACTIVE_1/analytic_20230720/20230720_C32312_006_S534987_FAm98C_FLAG-IP.raw qc ... missing column name(s): MasterScanNumber, LMCorrection, ElapsedScanTimesec, transient, AGCMode, PrescanMode MasterScanNumber calculated missing column name(s): MasterScanNumber, LMCorrection, ElapsedScanTimesec, transient, AGCMode, PrescanMode MasterScanNumber calculated renamed LMmZCorrectionppm to LMCorrection renamed AGCPSMode to PrescanMode renamed LMmZCorrectionppm to LMCorrection missing column name(s): MasterScanNumber, LMCorrection, ElapsedScanTimesec, transient, AGCMode, PrescanMode MasterScanNumber calculated renamed AGCPSMode to PrescanMode renamed LMmZCorrectionppm to LMCorrection renamed AGCPSMode to PrescanMode missing column name(s): MasterScanNumber, LMCorrection, ElapsedScanTimesec, transient, AGCMode, PrescanMode MasterScanNumber calculated renamed LMmZCorrectionppm to LMCorrection renamed AGCPSMode to PrescanMode #rows are 73195 output$download 2... saving 'login and webservicepassword' ... ggsave to file /tmp/Rtmpw1PjEP/rawDiag-b71cc5b3967fb.pdf generated pdf /tmp/Rtmpw1PjEP/rawDiag-b71cc5b3967fb.pdf bfabricShiny::uploadResource ... list(list(`_classname` = "workunit", `_id` = 291532, application = list(`_classname` = "application", `_id` = 225), container = list(`_classname` = "order", `_id` = 32312), created = "2023-07-21 09:34:06", createdby = "tobiasko", deletable = "true", description = "input files:\np32312/Proteomics/QEXACTIVE_1/analytic_20230720/20230720_C32312_002_S534984_Control_FLAG-IP.raw\np32312/Proteomics/QEXACTIVE_1/analytic_20230720/20230720_C32312_003_S534985_FAM98A_FLAG-IP.raw \np32312/Proteomics/QEXACTIVE_1/analytic_20230720/20230720_C32312_005_S534986_FAM98B_FLAG-IP.raw \np32312/Proteomics/QEXACTIVE_1/analytic_20230720/20230720_C32312_006_S534987_FAm98C_FLAG-IP.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` = 2333476), list(`_classname` = "resource", `_id` = 2333475), list(`_classname` = "resource", `_id` = 2333474), list(`_classname` = "resource", `_id` = 2333473)), modified = "2023-07-21 09:34:06", modifiedby = "tobiasko", name = "lock mass correction plot", status = "AVAILABLE", updatable = "true"))list(list(`_classname` = "resource", `_id` = 2333582, container = list(`_classname` = "order", `_id` = 32312), created = "2023-07-21 09:34:08", createdby = "tobiasko", deletable = "true", filechecksum = "4f21f4b44a1ac6d6885a2ca33efd497d", junk = "false", modified = "2023-07-21 09:34:08", modifiedby = "tobiasko", name = "WU291532-20230721-0934-rawDiag.pdf", relativepath = "container_32312/workunit_291532/WU291532-20230721-0934-rawDiag.pdf", size = "114882", status = "available", storage = list(`_classname` = "storage", `_id` = 10), updatable = "true", uri = list("https://fgcz-bfabric.uzh.ch/dmexternal/container_32312/workunit_291532/WU291532-20230721-0934-rawDiag.pdf", "scp://localhost/export/bfabric/data/b-fabric-external-repo/container_32312/workunit_291532/WU291532-20230721-0934-rawDiag.pdf"), workunit = list(`_classname` = "workunit", `_id` = 291532))) The current plot is available as workunit 291532 #rows are 73195 output$download 1... saving 'login and webservicepassword' ... #rows are 73195 output$download 2... ggsave to file /tmp/Rtmpw1PjEP/rawDiag-b71cc7cd0286a.pdf generated pdf /tmp/Rtmpw1PjEP/rawDiag-b71cc7cd0286a.pdf bfabricShiny::uploadResource ... list(list(`_classname` = "workunit", `_id` = 291533, application = list(`_classname` = "application", `_id` = 225), container = list(`_classname` = "order", `_id` = 32312), created = "2023-07-21 09:34:27", createdby = "tobiasko", deletable = "true", description = "input files:\np32312/Proteomics/QEXACTIVE_1/analytic_20230720/20230720_C32312_002_S534984_Control_FLAG-IP.raw\np32312/Proteomics/QEXACTIVE_1/analytic_20230720/20230720_C32312_003_S534985_FAM98A_FLAG-IP.raw \np32312/Proteomics/QEXACTIVE_1/analytic_20230720/20230720_C32312_005_S534986_FAM98B_FLAG-IP.raw \np32312/Proteomics/QEXACTIVE_1/analytic_20230720/20230720_C32312_006_S534987_FAm98C_FLAG-IP.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` = 2333476), list(`_classname` = "resource", `_id` = 2333475), list(`_classname` = "resource", `_id` = 2333474), list(`_classname` = "resource", `_id` = 2333473)), modified = "2023-07-21 09:34:27", modifiedby = "tobiasko", name = "injection time plot", status = "AVAILABLE", updatable = "true"))list(list(`_classname` = "resource", `_id` = 2333583, container = list(`_classname` = "order", `_id` = 32312), created = "2023-07-21 09:34:29", createdby = "tobiasko", deletable = "true", filechecksum = "c14b8df173407a2cf33c3c4b7656c1c2", junk = "false", modified = "2023-07-21 09:34:29", modifiedby = "tobiasko", name = "WU291533-20230721-0934-rawDiag.pdf", relativepath = "container_32312/workunit_291533/WU291533-20230721-0934-rawDiag.pdf", size = "338506", status = "available", storage = list(`_classname` = "storage", `_id` = 10), updatable = "true", uri = list("https://fgcz-bfabric.uzh.ch/dmexternal/container_32312/workunit_291533/WU291533-20230721-0934-rawDiag.pdf", "scp://localhost/export/bfabric/data/b-fabric-external-repo/container_32312/workunit_291533/WU291533-20230721-0934-rawDiag.pdf"), workunit = list(`_classname` = "workunit", `_id` = 291533))) The current plot is available as workunit 291533 #rows are 73195 output$download 1... #rows are 73195 output$download 2... ggsave to file /tmp/Rtmpw1PjEP/rawDiag-b71cc47cd7246.pdf generated pdf /tmp/Rtmpw1PjEP/rawDiag-b71cc47cd7246.pdf bfabricShiny::uploadResource ... list(list(`_classname` = "workunit", `_id` = 291534, application = list(`_classname` = "application", `_id` = 225), container = list(`_classname` = "order", `_id` = 32312), created = "2023-07-21 09:34:36", createdby = "tobiasko", deletable = "true", description = "input files:\np32312/Proteomics/QEXACTIVE_1/analytic_20230720/20230720_C32312_002_S534984_Control_FLAG-IP.raw\np32312/Proteomics/QEXACTIVE_1/analytic_20230720/20230720_C32312_003_S534985_FAM98A_FLAG-IP.raw \np32312/Proteomics/QEXACTIVE_1/analytic_20230720/20230720_C32312_005_S534986_FAM98B_FLAG-IP.raw \np32312/Proteomics/QEXACTIVE_1/analytic_20230720/20230720_C32312_006_S534987_FAm98C_FLAG-IP.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` = 2333476), list(`_classname` = "resource", `_id` = 2333475), list(`_classname` = "resource", `_id` = 2333474), list(`_classname` = "resource", `_id` = 2333473)), modified = "2023-07-21 09:34:36", modifiedby = "tobiasko", name = "charge state plot", status = "AVAILABLE", updatable = "true"))list(list(`_classname` = "resource", `_id` = 2333584, container = list(`_classname` = "order", `_id` = 32312), created = "2023-07-21 09:34:37", createdby = "tobiasko", deletable = "true", filechecksum = "f45558a7efbff3f47f8fda193d66dce1", junk = "false", modified = "2023-07-21 09:34:37", modifiedby = "tobiasko", name = "WU291534-20230721-0934-rawDiag.pdf", relativepath = "container_32312/workunit_291534/WU291534-20230721-0934-rawDiag.pdf", size = "9483", status = "available", storage = list(`_classname` = "storage", `_id` = 10), updatable = "true", uri = list("https://fgcz-bfabric.uzh.ch/dmexternal/container_32312/workunit_291534/WU291534-20230721-0934-rawDiag.pdf", "scp://localhost/export/bfabric/data/b-fabric-external-repo/container_32312/workunit_291534/WU291534-20230721-0934-rawDiag.pdf"), workunit = list(`_classname` = "workunit", `_id` = 291534))) The current plot is available as workunit 291534 #rows are 73195 output$download 1... DEBUG queryMass Warning: 'readXICs' is deprecated. Use 'rawrr::readChromatogram' instead. See help("Deprecated") Warning: 'readXICs' is deprecated. Use 'rawrr::readChromatogram' instead. See help("Deprecated") Warning: 'readXICs' is deprecated. Use 'rawrr::readChromatogram' instead. See help("Deprecated") Warning: 'readXICs' is deprecated. Use 'rawrr::readChromatogram' instead. See help("Deprecated") Warning: `aes_string()` was deprecated in ggplot2 3.0.0. ℹ Please use tidy evaluation idioms with `aes()`. ℹ See also `vignette("ggplot2-in-packages")` for more information. Warning: Using `size` aesthetic for lines was deprecated in ggplot2 3.4.0. ℹ Please use `linewidth` instead. #rows are 73195 output$download 2... ggsave to file /tmp/Rtmpw1PjEP/rawDiag-b71cc7e474340.pdf generated pdf /tmp/Rtmpw1PjEP/rawDiag-b71cc7e474340.pdf bfabricShiny::uploadResource ... list(list(`_classname` = "workunit", `_id` = 291535, application = list(`_classname` = "application", `_id` = 225), container = list(`_classname` = "order", `_id` = 32312), created = "2023-07-21 09:34:58", createdby = "tobiasko", deletable = "true", description = "input files:\np32312/Proteomics/QEXACTIVE_1/analytic_20230720/20230720_C32312_002_S534984_Control_FLAG-IP.raw\np32312/Proteomics/QEXACTIVE_1/analytic_20230720/20230720_C32312_003_S534985_FAM98A_FLAG-IP.raw \np32312/Proteomics/QEXACTIVE_1/analytic_20230720/20230720_C32312_005_S534986_FAM98B_FLAG-IP.raw \np32312/Proteomics/QEXACTIVE_1/analytic_20230720/20230720_C32312_006_S534987_FAm98C_FLAG-IP.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` = 2333476), list(`_classname` = "resource", `_id` = 2333475), list(`_classname` = "resource", `_id` = 2333474), list(`_classname` = "resource", `_id` = 2333473)), modified = "2023-07-21 09:34:58", modifiedby = "tobiasko", name = "XIC plot", status = "AVAILABLE", updatable = "true"))list(list(`_classname` = "resource", `_id` = 2333585, container = list(`_classname` = "order", `_id` = 32312), created = "2023-07-21 09:35:00", createdby = "tobiasko", deletable = "true", filechecksum = "f87785399ac0c2b3913e53404b83ffdc", junk = "false", modified = "2023-07-21 09:35:00", modifiedby = "tobiasko", name = "WU291535-20230721-0934-rawDiag.pdf", relativepath = "container_32312/workunit_291535/WU291535-20230721-0934-rawDiag.pdf", size = "25309", status = "available", storage = list(`_classname` = "storage", `_id` = 10), updatable = "true", uri = list("https://fgcz-bfabric.uzh.ch/dmexternal/container_32312/workunit_291535/WU291535-20230721-0934-rawDiag.pdf", "scp://localhost/export/bfabric/data/b-fabric-external-repo/container_32312/workunit_291535/WU291535-20230721-0934-rawDiag.pdf"), workunit = list(`_classname` = "workunit", `_id` = 291535))) The current plot is available as workunit 291535 #rows are 73195 output$download 1... DEBUG renderPlot plotQCs #rows are 73195 output$download 1... Execution halted