Listening on http://127.0.0.1:44025 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 /scratch/cpanse/ #rows are 0 /scratch/cpanse/ Warning in value[[3L]](cond) : Error decrypting field. (#999, 'error:0407109F:rsa routines:RSA_padding_check_PKCS1_type_2:pkcs decoding error') Passing through unaltered. Warning in value[[3L]](cond) : Error decrypting field. (#999, 'error:04065072:rsa routines:rsa_ossl_private_decrypt:padding check failed') Passing through unaltered. Warning in value[[3L]](cond) : Error decrypting field. (#999, 'error:0407109F:rsa routines:RSA_padding_check_PKCS1_type_2:pkcs decoding error') Passing through unaltered. 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 #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//p32942/Proteomics/EXPLORIS_1/analytic_20230927/20230927_C32942_009_S566053_E-1_Control.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p32942/Proteomics/EXPLORIS_1/analytic_20230927/20230927_C32942_006_S566056_Eplus1_Sample.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p32942/Proteomics/EXPLORIS_1/analytic_20230927/20230927_C32942_003_S566054_E-2_Control.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p32942/Proteomics/EXPLORIS_1/analytic_20230927/20230927_C32942_002_S566058_Eplus3_Sample.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p32942/Proteomics/EXPLORIS_1/analytic_20230927/20230927_C32942_004_S566055_E-3_Control.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p32942/Proteomics/EXPLORIS_1/analytic_20230927/20230927_C32942_008_S566057_Eplus2_Sample.raw qc ... 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 AGCPSMode to PrescanMode renamed LMmZCorrectionppm to LMCorrection renamed AGCPSMode to PrescanMode missing column name(s): LMCorrection, ElapsedScanTimesec, transient, AGCMode, PrescanMode NA values replaced in MasterScanNumber 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 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 176255 output$tic.basepeak <- renderPlot({ #rows are 176255 output$download 2... saving 'login and webservicepassword' ... ggsave to file /tmp/Rtmpbh5DOt/rawDiag-ede2f75e337cc.pdf generated pdf /tmp/Rtmpbh5DOt/rawDiag-ede2f75e337cc.pdf bfabricShiny::uploadResource ... list(list(`_classname` = "workunit", `_id` = 294056, application = list(`_classname` = "application", `_id` = 225), container = list(`_classname` = "order", `_id` = 32942), created = "2023-09-28 12:11:06", createdby = "tobiasko", deletable = "true", description = "input files:\np32942/Proteomics/EXPLORIS_1/analytic_20230927/20230927_C32942_004_S566055_E-3_Control.raw \np32942/Proteomics/EXPLORIS_1/analytic_20230927/20230927_C32942_006_S566056_Eplus1_Sample.raw\np32942/Proteomics/EXPLORIS_1/analytic_20230927/20230927_C32942_009_S566053_E-1_Control.raw \np32942/Proteomics/EXPLORIS_1/analytic_20230927/20230927_C32942_003_S566054_E-2_Control.raw \np32942/Proteomics/EXPLORIS_1/analytic_20230927/20230927_C32942_002_S566058_Eplus3_Sample.raw\np32942/Proteomics/EXPLORIS_1/analytic_20230927/20230927_C32942_008_S566057_Eplus2_Sample.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` = 2362162), list(`_classname` = "resource", `_id` = 2362161), list(`_classname` = "resource", `_id` = 2362160), list(`_classname` = "resource", `_id` = 2362159), list(`_classname` = "resource", `_id` = 2362158), list(`_classname` = "resource", `_id` = 2362157)), modified = "2023-09-28 12:11:06", modifiedby = "tobiasko", name = "TIC and basepeak plot", status = "AVAILABLE", updatable = "true"))list(list(`_classname` = "resource", `_id` = 2362174, container = list(`_classname` = "order", `_id` = 32942), created = "2023-09-28 12:11:07", createdby = "tobiasko", deletable = "true", filechecksum = "a356bb9a823290f3166e130e9b470a1f", junk = "false", modified = "2023-09-28 12:11:07", modifiedby = "tobiasko", name = "WU294056-20230928-1211-rawDiag.pdf", relativepath = "container_32942/workunit_294056/WU294056-20230928-1211-rawDiag.pdf", size = "180443", status = "available", storage = list(`_classname` = "storage", `_id` = 10), updatable = "true", uri = list("https://fgcz-bfabric.uzh.ch/dmexternal/container_32942/workunit_294056/WU294056-20230928-1211-rawDiag.pdf", "scp://localhost/export/bfabric/data/b-fabric-external-repo/container_32942/workunit_294056/WU294056-20230928-1211-rawDiag.pdf"), workunit = list(`_classname` = "workunit", `_id` = 294056))) The current plot is available as workunit 294056 #rows are 176255 output$download 1... saving 'login and webservicepassword' ... output$scan.frequency <- renderPlot Warning: Removed 29 rows containing missing values (`geom_line()`). #rows are 176255 output$download 2... ggsave to file /tmp/Rtmpbh5DOt/rawDiag-ede2f45e21541.pdf Warning: Removed 29 rows containing missing values (`geom_line()`). generated pdf /tmp/Rtmpbh5DOt/rawDiag-ede2f45e21541.pdf bfabricShiny::uploadResource ... list(list(`_classname` = "workunit", `_id` = 294057, application = list(`_classname` = "application", `_id` = 225), container = list(`_classname` = "order", `_id` = 32942), created = "2023-09-28 12:11:20", createdby = "tobiasko", deletable = "true", description = "input files:\np32942/Proteomics/EXPLORIS_1/analytic_20230927/20230927_C32942_004_S566055_E-3_Control.raw \np32942/Proteomics/EXPLORIS_1/analytic_20230927/20230927_C32942_006_S566056_Eplus1_Sample.raw\np32942/Proteomics/EXPLORIS_1/analytic_20230927/20230927_C32942_009_S566053_E-1_Control.raw \np32942/Proteomics/EXPLORIS_1/analytic_20230927/20230927_C32942_003_S566054_E-2_Control.raw \np32942/Proteomics/EXPLORIS_1/analytic_20230927/20230927_C32942_002_S566058_Eplus3_Sample.raw\np32942/Proteomics/EXPLORIS_1/analytic_20230927/20230927_C32942_008_S566057_Eplus2_Sample.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` = 2362162), list(`_classname` = "resource", `_id` = 2362161), list(`_classname` = "resource", `_id` = 2362160), list(`_classname` = "resource", `_id` = 2362159), list(`_classname` = "resource", `_id` = 2362158), list(`_classname` = "resource", `_id` = 2362157)), modified = "2023-09-28 12:11:20", modifiedby = "tobiasko", name = "scan frequency plot", status = "AVAILABLE", updatable = "true"))list(list(`_classname` = "resource", `_id` = 2362175, container = list(`_classname` = "order", `_id` = 32942), created = "2023-09-28 12:11:21", createdby = "tobiasko", deletable = "true", filechecksum = "9a92c148aa5e73d57f5c5f1f6b1d8bea", junk = "false", modified = "2023-09-28 12:11:21", modifiedby = "tobiasko", name = "WU294057-20230928-1211-rawDiag.pdf", relativepath = "container_32942/workunit_294057/WU294057-20230928-1211-rawDiag.pdf", size = "182977", status = "available", storage = list(`_classname` = "storage", `_id` = 10), updatable = "true", uri = list("https://fgcz-bfabric.uzh.ch/dmexternal/container_32942/workunit_294057/WU294057-20230928-1211-rawDiag.pdf", "scp://localhost/export/bfabric/data/b-fabric-external-repo/container_32942/workunit_294057/WU294057-20230928-1211-rawDiag.pdf"), workunit = list(`_classname` = "workunit", `_id` = 294057))) The current plot is available as workunit 294057 #rows are 176255 output$download 1... `geom_smooth()` using formula = 'y ~ x' #rows are 176255 output$download 2... ggsave to file /tmp/Rtmpbh5DOt/rawDiag-ede2fef96749.pdf `geom_smooth()` using formula = 'y ~ x' generated pdf /tmp/Rtmpbh5DOt/rawDiag-ede2fef96749.pdf bfabricShiny::uploadResource ... list(list(`_classname` = "workunit", `_id` = 294058, application = list(`_classname` = "application", `_id` = 225), container = list(`_classname` = "order", `_id` = 32942), created = "2023-09-28 12:11:40", createdby = "tobiasko", deletable = "true", description = "input files:\np32942/Proteomics/EXPLORIS_1/analytic_20230927/20230927_C32942_004_S566055_E-3_Control.raw \np32942/Proteomics/EXPLORIS_1/analytic_20230927/20230927_C32942_006_S566056_Eplus1_Sample.raw\np32942/Proteomics/EXPLORIS_1/analytic_20230927/20230927_C32942_009_S566053_E-1_Control.raw \np32942/Proteomics/EXPLORIS_1/analytic_20230927/20230927_C32942_003_S566054_E-2_Control.raw \np32942/Proteomics/EXPLORIS_1/analytic_20230927/20230927_C32942_002_S566058_Eplus3_Sample.raw\np32942/Proteomics/EXPLORIS_1/analytic_20230927/20230927_C32942_008_S566057_Eplus2_Sample.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` = 2362162), list(`_classname` = "resource", `_id` = 2362161), list(`_classname` = "resource", `_id` = 2362160), list(`_classname` = "resource", `_id` = 2362159), list(`_classname` = "resource", `_id` = 2362158), list(`_classname` = "resource", `_id` = 2362157)), modified = "2023-09-28 12:11:40", modifiedby = "tobiasko", name = "cycle load plot", status = "AVAILABLE", updatable = "true"))list(list(`_classname` = "resource", `_id` = 2362176, container = list(`_classname` = "order", `_id` = 32942), created = "2023-09-28 12:11:41", createdby = "tobiasko", deletable = "true", filechecksum = "352372cbe0a6dd192dd3b6168f325d44", junk = "false", modified = "2023-09-28 12:11:41", modifiedby = "tobiasko", name = "WU294058-20230928-1211-rawDiag.pdf", relativepath = "container_32942/workunit_294058/WU294058-20230928-1211-rawDiag.pdf", size = "275952", status = "available", storage = list(`_classname` = "storage", `_id` = 10), updatable = "true", uri = list("https://fgcz-bfabric.uzh.ch/dmexternal/container_32942/workunit_294058/WU294058-20230928-1211-rawDiag.pdf", "scp://localhost/export/bfabric/data/b-fabric-external-repo/container_32942/workunit_294058/WU294058-20230928-1211-rawDiag.pdf"), workunit = list(`_classname` = "workunit", `_id` = 294058))) The current plot is available as workunit 294058 #rows are 176255 output$download 1... Warning: Removed 2 rows containing non-finite values (`stat_smooth()`). #rows are 176255 output$download 2... ggsave to file /tmp/Rtmpbh5DOt/rawDiag-ede2f5bc9f87f.pdf Warning: Removed 2 rows containing non-finite values (`stat_smooth()`). generated pdf /tmp/Rtmpbh5DOt/rawDiag-ede2f5bc9f87f.pdf bfabricShiny::uploadResource ... list(list(`_classname` = "workunit", `_id` = 294059, application = list(`_classname` = "application", `_id` = 225), container = list(`_classname` = "order", `_id` = 32942), created = "2023-09-28 12:11:55", createdby = "tobiasko", deletable = "true", description = "input files:\np32942/Proteomics/EXPLORIS_1/analytic_20230927/20230927_C32942_004_S566055_E-3_Control.raw \np32942/Proteomics/EXPLORIS_1/analytic_20230927/20230927_C32942_006_S566056_Eplus1_Sample.raw\np32942/Proteomics/EXPLORIS_1/analytic_20230927/20230927_C32942_009_S566053_E-1_Control.raw \np32942/Proteomics/EXPLORIS_1/analytic_20230927/20230927_C32942_003_S566054_E-2_Control.raw \np32942/Proteomics/EXPLORIS_1/analytic_20230927/20230927_C32942_002_S566058_Eplus3_Sample.raw\np32942/Proteomics/EXPLORIS_1/analytic_20230927/20230927_C32942_008_S566057_Eplus2_Sample.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` = 2362162), list(`_classname` = "resource", `_id` = 2362161), list(`_classname` = "resource", `_id` = 2362160), list(`_classname` = "resource", `_id` = 2362159), list(`_classname` = "resource", `_id` = 2362158), list(`_classname` = "resource", `_id` = 2362157)), modified = "2023-09-28 12:11:55", modifiedby = "tobiasko", name = "lock mass correction plot", status = "AVAILABLE", updatable = "true"))list(list(`_classname` = "resource", `_id` = 2362177, container = list(`_classname` = "order", `_id` = 32942), created = "2023-09-28 12:11:56", createdby = "tobiasko", deletable = "true", filechecksum = "72687e9e9546b91875a71b68ebeb1bbf", junk = "false", modified = "2023-09-28 12:11:56", modifiedby = "tobiasko", name = "WU294059-20230928-1211-rawDiag.pdf", relativepath = "container_32942/workunit_294059/WU294059-20230928-1211-rawDiag.pdf", size = "104284", status = "available", storage = list(`_classname` = "storage", `_id` = 10), updatable = "true", uri = list("https://fgcz-bfabric.uzh.ch/dmexternal/container_32942/workunit_294059/WU294059-20230928-1211-rawDiag.pdf", "scp://localhost/export/bfabric/data/b-fabric-external-repo/container_32942/workunit_294059/WU294059-20230928-1211-rawDiag.pdf"), workunit = list(`_classname` = "workunit", `_id` = 294059))) The current plot is available as workunit 294059 #rows are 176255 output$download 1... #rows are 176255 output$download 2... ggsave to file /tmp/Rtmpbh5DOt/rawDiag-ede2f52c588d6.pdf generated pdf /tmp/Rtmpbh5DOt/rawDiag-ede2f52c588d6.pdf bfabricShiny::uploadResource ... list(list(`_classname` = "workunit", `_id` = 294060, application = list(`_classname` = "application", `_id` = 225), container = list(`_classname` = "order", `_id` = 32942), created = "2023-09-28 12:12:12", createdby = "tobiasko", deletable = "true", description = "input files:\np32942/Proteomics/EXPLORIS_1/analytic_20230927/20230927_C32942_004_S566055_E-3_Control.raw \np32942/Proteomics/EXPLORIS_1/analytic_20230927/20230927_C32942_006_S566056_Eplus1_Sample.raw\np32942/Proteomics/EXPLORIS_1/analytic_20230927/20230927_C32942_009_S566053_E-1_Control.raw \np32942/Proteomics/EXPLORIS_1/analytic_20230927/20230927_C32942_003_S566054_E-2_Control.raw \np32942/Proteomics/EXPLORIS_1/analytic_20230927/20230927_C32942_002_S566058_Eplus3_Sample.raw\np32942/Proteomics/EXPLORIS_1/analytic_20230927/20230927_C32942_008_S566057_Eplus2_Sample.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` = 2362162), list(`_classname` = "resource", `_id` = 2362161), list(`_classname` = "resource", `_id` = 2362160), list(`_classname` = "resource", `_id` = 2362159), list(`_classname` = "resource", `_id` = 2362158), list(`_classname` = "resource", `_id` = 2362157)), modified = "2023-09-28 12:12:12", modifiedby = "tobiasko", name = "injection time plot", status = "AVAILABLE", updatable = "true"))list(list(`_classname` = "resource", `_id` = 2362178, container = list(`_classname` = "order", `_id` = 32942), created = "2023-09-28 12:12:14", createdby = "tobiasko", deletable = "true", filechecksum = "eafde209f609f68176c97519ba80a3bb", junk = "false", modified = "2023-09-28 12:12:14", modifiedby = "tobiasko", name = "WU294060-20230928-1212-rawDiag.pdf", relativepath = "container_32942/workunit_294060/WU294060-20230928-1212-rawDiag.pdf", size = "824612", status = "available", storage = list(`_classname` = "storage", `_id` = 10), updatable = "true", uri = list("https://fgcz-bfabric.uzh.ch/dmexternal/container_32942/workunit_294060/WU294060-20230928-1212-rawDiag.pdf", "scp://localhost/export/bfabric/data/b-fabric-external-repo/container_32942/workunit_294060/WU294060-20230928-1212-rawDiag.pdf"), workunit = list(`_classname` = "workunit", `_id` = 294060))) The current plot is available as workunit 294060 #rows are 176255 output$download 1... #rows are 176255 output$download 2... ggsave to file /tmp/Rtmpbh5DOt/rawDiag-ede2f58715198.pdf generated pdf /tmp/Rtmpbh5DOt/rawDiag-ede2f58715198.pdf bfabricShiny::uploadResource ... list(list(`_classname` = "workunit", `_id` = 294061, application = list(`_classname` = "application", `_id` = 225), container = list(`_classname` = "order", `_id` = 32942), created = "2023-09-28 12:12:22", createdby = "tobiasko", deletable = "true", description = "input files:\np32942/Proteomics/EXPLORIS_1/analytic_20230927/20230927_C32942_004_S566055_E-3_Control.raw \np32942/Proteomics/EXPLORIS_1/analytic_20230927/20230927_C32942_006_S566056_Eplus1_Sample.raw\np32942/Proteomics/EXPLORIS_1/analytic_20230927/20230927_C32942_009_S566053_E-1_Control.raw \np32942/Proteomics/EXPLORIS_1/analytic_20230927/20230927_C32942_003_S566054_E-2_Control.raw \np32942/Proteomics/EXPLORIS_1/analytic_20230927/20230927_C32942_002_S566058_Eplus3_Sample.raw\np32942/Proteomics/EXPLORIS_1/analytic_20230927/20230927_C32942_008_S566057_Eplus2_Sample.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` = 2362162), list(`_classname` = "resource", `_id` = 2362161), list(`_classname` = "resource", `_id` = 2362160), list(`_classname` = "resource", `_id` = 2362159), list(`_classname` = "resource", `_id` = 2362158), list(`_classname` = "resource", `_id` = 2362157)), modified = "2023-09-28 12:12:22", modifiedby = "tobiasko", name = "charge state plot", status = "AVAILABLE", updatable = "true"))list(list(`_classname` = "resource", `_id` = 2362179, container = list(`_classname` = "order", `_id` = 32942), created = "2023-09-28 12:12:23", createdby = "tobiasko", deletable = "true", filechecksum = "0d6dd1934a192b91bc1231657e40df45", junk = "false", modified = "2023-09-28 12:12:23", modifiedby = "tobiasko", name = "WU294061-20230928-1212-rawDiag.pdf", relativepath = "container_32942/workunit_294061/WU294061-20230928-1212-rawDiag.pdf", size = "8697", status = "available", storage = list(`_classname` = "storage", `_id` = 10), updatable = "true", uri = list("https://fgcz-bfabric.uzh.ch/dmexternal/container_32942/workunit_294061/WU294061-20230928-1212-rawDiag.pdf", "scp://localhost/export/bfabric/data/b-fabric-external-repo/container_32942/workunit_294061/WU294061-20230928-1212-rawDiag.pdf"), workunit = list(`_classname` = "workunit", `_id` = 294061))) The current plot is available as workunit 294061 #rows are 176255 output$download 1... DEBUG queryMass Warning: 'readXICs' is deprecated. Use 'rawrr::readChromatogram' instead. See help("Deprecated") Warning: 'readXICs' is deprecated. Use 'rawrr::readChromatogram' instead. See help("Deprecated") Warning: 'readXICs' is deprecated. Use 'rawrr::readChromatogram' instead. See help("Deprecated") Warning: 'readXICs' is deprecated. Use 'rawrr::readChromatogram' instead. See help("Deprecated") Warning: 'readXICs' is deprecated. Use 'rawrr::readChromatogram' instead. See help("Deprecated") Warning: 'readXICs' is deprecated. Use 'rawrr::readChromatogram' instead. See help("Deprecated") Warning: `aes_string()` was deprecated in ggplot2 3.0.0. ℹ Please use tidy evaluation idioms with `aes()`. ℹ See also `vignette("ggplot2-in-packages")` for more information. Warning: Using `size` aesthetic for lines was deprecated in ggplot2 3.4.0. ℹ Please use `linewidth` instead. #rows are 176255 output$download 2... ggsave to file /tmp/Rtmpbh5DOt/rawDiag-ede2f2e71b899.pdf generated pdf /tmp/Rtmpbh5DOt/rawDiag-ede2f2e71b899.pdf bfabricShiny::uploadResource ... list(list(`_classname` = "workunit", `_id` = 294062, application = list(`_classname` = "application", `_id` = 225), container = list(`_classname` = "order", `_id` = 32942), created = "2023-09-28 12:12:31", createdby = "tobiasko", deletable = "true", description = "input files:\np32942/Proteomics/EXPLORIS_1/analytic_20230927/20230927_C32942_004_S566055_E-3_Control.raw \np32942/Proteomics/EXPLORIS_1/analytic_20230927/20230927_C32942_006_S566056_Eplus1_Sample.raw\np32942/Proteomics/EXPLORIS_1/analytic_20230927/20230927_C32942_009_S566053_E-1_Control.raw \np32942/Proteomics/EXPLORIS_1/analytic_20230927/20230927_C32942_003_S566054_E-2_Control.raw \np32942/Proteomics/EXPLORIS_1/analytic_20230927/20230927_C32942_002_S566058_Eplus3_Sample.raw\np32942/Proteomics/EXPLORIS_1/analytic_20230927/20230927_C32942_008_S566057_Eplus2_Sample.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` = 2362162), list(`_classname` = "resource", `_id` = 2362161), list(`_classname` = "resource", `_id` = 2362160), list(`_classname` = "resource", `_id` = 2362159), list(`_classname` = "resource", `_id` = 2362158), list(`_classname` = "resource", `_id` = 2362157)), modified = "2023-09-28 12:12:31", modifiedby = "tobiasko", name = "XIC plot", status = "AVAILABLE", updatable = "true"))list(list(`_classname` = "resource", `_id` = 2362180, container = list(`_classname` = "order", `_id` = 32942), created = "2023-09-28 12:12:33", createdby = "tobiasko", deletable = "true", filechecksum = "0f6b981a02dabfd460c6f83fb49deb2a", junk = "false", modified = "2023-09-28 12:12:33", modifiedby = "tobiasko", name = "WU294062-20230928-1212-rawDiag.pdf", relativepath = "container_32942/workunit_294062/WU294062-20230928-1212-rawDiag.pdf", size = "30496", status = "available", storage = list(`_classname` = "storage", `_id` = 10), updatable = "true", uri = list("https://fgcz-bfabric.uzh.ch/dmexternal/container_32942/workunit_294062/WU294062-20230928-1212-rawDiag.pdf", "scp://localhost/export/bfabric/data/b-fabric-external-repo/container_32942/workunit_294062/WU294062-20230928-1212-rawDiag.pdf"), workunit = list(`_classname` = "workunit", `_id` = 294062))) The current plot is available as workunit 294062 #rows are 176255 output$download 1... #rows are 176255 output$download 2... Execution halted