Listening on http://127.0.0.1:39501 Loading required package: bfabricShiny Attaching package: 'bfabricShiny' The following object is masked from 'package:base': save Loading required package: protViz Loading required package: rawDiag Loading required package: parallel Loading required package: tidyr Loading required package: rmarkdown Loading required package: base64enc Loading required package: ggplot2 Loading required package: lattice Loading required package: PKI #rows are 0 saving 'login and webservicepassword' ... output$employee <- renderUI({ read bfabricposturl https://fgcz-c-072.uzh.ch:5000/. Warning in .read(login = login, webservicepassword = webservicepassword, : query failed. bfabricConnectionWorking FALSE output$employee <- renderUI({ Warning in .read(login = login, webservicepassword = webservicepassword, : query failed. bfabricConnectionWorking FALSE output$employee <- renderUI({ bfabricConnectionWorking TRUE 'empdegree' found. saving 'login and webservicepassword' ... saving 'login and webservicepassword' ... saving 'login and webservicepassword' ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p32734/Proteomics/EXPLORIS_2/analytic_20230830/20230830_C32734_009_S555826_Cdc48-noUV-1_Control_DDA.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p32734/Proteomics/EXPLORIS_2/analytic_20230830/20230830_C32734_007_S556257_Cdc48-UV-1_Group_1_DDA.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p32734/Proteomics/EXPLORIS_2/analytic_20230830/20230830_C32734_008_S556258_Cdc48-UV-2_Group_1_DDA.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p32734/Proteomics/EXPLORIS_2/analytic_20230830/20230830_C32734_004_S556256_Cdc48-noUV-3_Control_DDA.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p32734/Proteomics/EXPLORIS_2/analytic_20230830/20230830_C32734_002_S556259_Cdc48-UV-3_Group_1_DDA.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p32734/Proteomics/EXPLORIS_2/analytic_20230830/20230830_C32734_003_S556255_Cdc48-noUV-2_Control_DDA.raw qc ... missing column name(s): LMCorrection, ElapsedScanTimesec, transient, AGCMode, PrescanMode NA values replaced in MasterScanNumber renamed LMmZCorrectionppm to LMCorrection renamed AGCPSMode to PrescanMode missing column name(s): LMCorrection, ElapsedScanTimesec, transient, AGCMode, PrescanMode NA values replaced in MasterScanNumber renamed LMmZCorrectionppm to LMCorrection renamed AGCPSMode to PrescanMode missing column name(s): LMCorrection, ElapsedScanTimesec, transient, AGCMode, PrescanMode NA values replaced in MasterScanNumber renamed LMmZCorrectionppm to LMCorrection missing column name(s): LMCorrection, ElapsedScanTimesec, transient, AGCMode, PrescanMode NA values replaced in MasterScanNumber 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 #rows are 170660 output$tic.basepeak <- renderPlot({ #rows are 170660 output$download 2... saving 'login and webservicepassword' ... ggsave to file /tmp/RtmpBd9PCe/rawDiag-3457163543fbe1.pdf generated pdf /tmp/RtmpBd9PCe/rawDiag-3457163543fbe1.pdf bfabricShiny::uploadResource ... list(list(`_classname` = "workunit", `_id` = 293016, application = list(`_classname` = "application", `_id` = 225), container = list(`_classname` = "order", `_id` = 32734), created = "2023-08-31 12:50:07", createdby = "tobiasko", deletable = "true", description = "input files:\np32734/Proteomics/EXPLORIS_2/analytic_20230830/20230830_C32734_009_S555826_Cdc48-noUV-1_Control_DDA.raw\np32734/Proteomics/EXPLORIS_2/analytic_20230830/20230830_C32734_004_S556256_Cdc48-noUV-3_Control_DDA.raw\np32734/Proteomics/EXPLORIS_2/analytic_20230830/20230830_C32734_003_S556255_Cdc48-noUV-2_Control_DDA.raw\np32734/Proteomics/EXPLORIS_2/analytic_20230830/20230830_C32734_007_S556257_Cdc48-UV-1_Group_1_DDA.raw \np32734/Proteomics/EXPLORIS_2/analytic_20230830/20230830_C32734_002_S556259_Cdc48-UV-3_Group_1_DDA.raw \np32734/Proteomics/EXPLORIS_2/analytic_20230830/20230830_C32734_008_S556258_Cdc48-UV-2_Group_1_DDA.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` = 2351839), list(`_classname` = "resource", `_id` = 2351838), list(`_classname` = "resource", `_id` = 2351837), list(`_classname` = "resource", `_id` = 2351836), list(`_classname` = "resource", `_id` = 2351835), list(`_classname` = "resource", `_id` = 2351834)), modified = "2023-08-31 12:50:07", modifiedby = "tobiasko", name = "TIC and basepeak plot", status = "AVAILABLE", updatable = "true"))list(list(`_classname` = "resource", `_id` = 2352098, container = list(`_classname` = "order", `_id` = 32734), created = "2023-08-31 12:50:08", createdby = "tobiasko", deletable = "true", filechecksum = "994e9b2095eadb450ad6ac922c0d14c0", junk = "false", modified = "2023-08-31 12:50:08", modifiedby = "tobiasko", name = "WU293016-20230831-1250-rawDiag.pdf", relativepath = "container_32734/workunit_293016/WU293016-20230831-1250-rawDiag.pdf", size = "171596", status = "available", storage = list(`_classname` = "storage", `_id` = 10), updatable = "true", uri = list("https://fgcz-bfabric.uzh.ch/dmexternal/container_32734/workunit_293016/WU293016-20230831-1250-rawDiag.pdf", "scp://localhost/export/bfabric/data/b-fabric-external-repo/container_32734/workunit_293016/WU293016-20230831-1250-rawDiag.pdf"), workunit = list(`_classname` = "workunit", `_id` = 293016))) The current plot is available as workunit 293016 #rows are 170660 output$download 1... saving 'login and webservicepassword' ... output$scan.frequency <- renderPlot Warning: Removed 29 rows containing missing values (`geom_line()`). #rows are 170660 output$download 2... ggsave to file /tmp/RtmpBd9PCe/rawDiag-3457163c8f6e9e.pdf Warning: Removed 29 rows containing missing values (`geom_line()`). generated pdf /tmp/RtmpBd9PCe/rawDiag-3457163c8f6e9e.pdf bfabricShiny::uploadResource ... list(list(`_classname` = "workunit", `_id` = 293017, application = list(`_classname` = "application", `_id` = 225), container = list(`_classname` = "order", `_id` = 32734), created = "2023-08-31 12:50:23", createdby = "tobiasko", deletable = "true", description = "input files:\np32734/Proteomics/EXPLORIS_2/analytic_20230830/20230830_C32734_009_S555826_Cdc48-noUV-1_Control_DDA.raw\np32734/Proteomics/EXPLORIS_2/analytic_20230830/20230830_C32734_004_S556256_Cdc48-noUV-3_Control_DDA.raw\np32734/Proteomics/EXPLORIS_2/analytic_20230830/20230830_C32734_003_S556255_Cdc48-noUV-2_Control_DDA.raw\np32734/Proteomics/EXPLORIS_2/analytic_20230830/20230830_C32734_007_S556257_Cdc48-UV-1_Group_1_DDA.raw \np32734/Proteomics/EXPLORIS_2/analytic_20230830/20230830_C32734_002_S556259_Cdc48-UV-3_Group_1_DDA.raw \np32734/Proteomics/EXPLORIS_2/analytic_20230830/20230830_C32734_008_S556258_Cdc48-UV-2_Group_1_DDA.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` = 2351839), list(`_classname` = "resource", `_id` = 2351838), list(`_classname` = "resource", `_id` = 2351837), list(`_classname` = "resource", `_id` = 2351836), list(`_classname` = "resource", `_id` = 2351835), list(`_classname` = "resource", `_id` = 2351834)), modified = "2023-08-31 12:50:23", modifiedby = "tobiasko", name = "scan frequency plot", status = "AVAILABLE", updatable = "true"))list(list(`_classname` = "resource", `_id` = 2352099, container = list(`_classname` = "order", `_id` = 32734), created = "2023-08-31 12:50:25", createdby = "tobiasko", deletable = "true", filechecksum = "2f29ae73b914358c0c482fb15b68965f", junk = "false", modified = "2023-08-31 12:50:25", modifiedby = "tobiasko", name = "WU293017-20230831-1250-rawDiag.pdf", relativepath = "container_32734/workunit_293017/WU293017-20230831-1250-rawDiag.pdf", size = "192494", status = "available", storage = list(`_classname` = "storage", `_id` = 10), updatable = "true", uri = list("https://fgcz-bfabric.uzh.ch/dmexternal/container_32734/workunit_293017/WU293017-20230831-1250-rawDiag.pdf", "scp://localhost/export/bfabric/data/b-fabric-external-repo/container_32734/workunit_293017/WU293017-20230831-1250-rawDiag.pdf"), workunit = list(`_classname` = "workunit", `_id` = 293017))) The current plot is available as workunit 293017 #rows are 170660 output$download 1... `geom_smooth()` using formula = 'y ~ x' #rows are 170660 output$download 2... ggsave to file /tmp/RtmpBd9PCe/rawDiag-34571658a89169.pdf `geom_smooth()` using formula = 'y ~ x' generated pdf /tmp/RtmpBd9PCe/rawDiag-34571658a89169.pdf bfabricShiny::uploadResource ... list(list(`_classname` = "workunit", `_id` = 293018, application = list(`_classname` = "application", `_id` = 225), container = list(`_classname` = "order", `_id` = 32734), created = "2023-08-31 12:50:47", createdby = "tobiasko", deletable = "true", description = "input files:\np32734/Proteomics/EXPLORIS_2/analytic_20230830/20230830_C32734_009_S555826_Cdc48-noUV-1_Control_DDA.raw\np32734/Proteomics/EXPLORIS_2/analytic_20230830/20230830_C32734_004_S556256_Cdc48-noUV-3_Control_DDA.raw\np32734/Proteomics/EXPLORIS_2/analytic_20230830/20230830_C32734_003_S556255_Cdc48-noUV-2_Control_DDA.raw\np32734/Proteomics/EXPLORIS_2/analytic_20230830/20230830_C32734_007_S556257_Cdc48-UV-1_Group_1_DDA.raw \np32734/Proteomics/EXPLORIS_2/analytic_20230830/20230830_C32734_002_S556259_Cdc48-UV-3_Group_1_DDA.raw \np32734/Proteomics/EXPLORIS_2/analytic_20230830/20230830_C32734_008_S556258_Cdc48-UV-2_Group_1_DDA.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` = 2351839), list(`_classname` = "resource", `_id` = 2351838), list(`_classname` = "resource", `_id` = 2351837), list(`_classname` = "resource", `_id` = 2351836), list(`_classname` = "resource", `_id` = 2351835), list(`_classname` = "resource", `_id` = 2351834)), modified = "2023-08-31 12:50:47", modifiedby = "tobiasko", name = "cycle load plot", status = "AVAILABLE", updatable = "true"))list(list(`_classname` = "resource", `_id` = 2352100, container = list(`_classname` = "order", `_id` = 32734), created = "2023-08-31 12:50:48", createdby = "tobiasko", deletable = "true", filechecksum = "9817631eb1a3f847ca1fb9190b692fbb", junk = "false", modified = "2023-08-31 12:50:48", modifiedby = "tobiasko", name = "WU293018-20230831-1250-rawDiag.pdf", relativepath = "container_32734/workunit_293018/WU293018-20230831-1250-rawDiag.pdf", size = "344259", status = "available", storage = list(`_classname` = "storage", `_id` = 10), updatable = "true", uri = list("https://fgcz-bfabric.uzh.ch/dmexternal/container_32734/workunit_293018/WU293018-20230831-1250-rawDiag.pdf", "scp://localhost/export/bfabric/data/b-fabric-external-repo/container_32734/workunit_293018/WU293018-20230831-1250-rawDiag.pdf"), workunit = list(`_classname` = "workunit", `_id` = 293018))) The current plot is available as workunit 293018 #rows are 170660 output$download 1... Warning: Removed 8 rows containing non-finite values (`stat_smooth()`). #rows are 170660 output$download 2... ggsave to file /tmp/RtmpBd9PCe/rawDiag-3457165ced00dc.pdf Warning: Removed 8 rows containing non-finite values (`stat_smooth()`). generated pdf /tmp/RtmpBd9PCe/rawDiag-3457165ced00dc.pdf bfabricShiny::uploadResource ... list(list(`_classname` = "workunit", `_id` = 293019, application = list(`_classname` = "application", `_id` = 225), container = list(`_classname` = "order", `_id` = 32734), created = "2023-08-31 12:50:56", createdby = "tobiasko", deletable = "true", description = "input files:\np32734/Proteomics/EXPLORIS_2/analytic_20230830/20230830_C32734_009_S555826_Cdc48-noUV-1_Control_DDA.raw\np32734/Proteomics/EXPLORIS_2/analytic_20230830/20230830_C32734_004_S556256_Cdc48-noUV-3_Control_DDA.raw\np32734/Proteomics/EXPLORIS_2/analytic_20230830/20230830_C32734_003_S556255_Cdc48-noUV-2_Control_DDA.raw\np32734/Proteomics/EXPLORIS_2/analytic_20230830/20230830_C32734_007_S556257_Cdc48-UV-1_Group_1_DDA.raw \np32734/Proteomics/EXPLORIS_2/analytic_20230830/20230830_C32734_002_S556259_Cdc48-UV-3_Group_1_DDA.raw \np32734/Proteomics/EXPLORIS_2/analytic_20230830/20230830_C32734_008_S556258_Cdc48-UV-2_Group_1_DDA.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` = 2351839), list(`_classname` = "resource", `_id` = 2351838), list(`_classname` = "resource", `_id` = 2351837), list(`_classname` = "resource", `_id` = 2351836), list(`_classname` = "resource", `_id` = 2351835), list(`_classname` = "resource", `_id` = 2351834)), modified = "2023-08-31 12:50:56", modifiedby = "tobiasko", name = "lock mass correction plot", status = "AVAILABLE", updatable = "true"))list(list(`_classname` = "resource", `_id` = 2352101, container = list(`_classname` = "order", `_id` = 32734), created = "2023-08-31 12:50:57", createdby = "tobiasko", deletable = "true", filechecksum = "0f0f0825a24751afc0097961521212ee", junk = "false", modified = "2023-08-31 12:50:57", modifiedby = "tobiasko", name = "WU293019-20230831-1250-rawDiag.pdf", relativepath = "container_32734/workunit_293019/WU293019-20230831-1250-rawDiag.pdf", size = "105207", status = "available", storage = list(`_classname` = "storage", `_id` = 10), updatable = "true", uri = list("https://fgcz-bfabric.uzh.ch/dmexternal/container_32734/workunit_293019/WU293019-20230831-1250-rawDiag.pdf", "scp://localhost/export/bfabric/data/b-fabric-external-repo/container_32734/workunit_293019/WU293019-20230831-1250-rawDiag.pdf"), workunit = list(`_classname` = "workunit", `_id` = 293019))) The current plot is available as workunit 293019 #rows are 170660 output$download 1... #rows are 170660 output$download 2... ggsave to file /tmp/RtmpBd9PCe/rawDiag-345716507ca4c.pdf generated pdf /tmp/RtmpBd9PCe/rawDiag-345716507ca4c.pdf bfabricShiny::uploadResource ... list(list(`_classname` = "workunit", `_id` = 293020, application = list(`_classname` = "application", `_id` = 225), container = list(`_classname` = "order", `_id` = 32734), created = "2023-08-31 12:51:26", createdby = "tobiasko", deletable = "true", description = "input files:\np32734/Proteomics/EXPLORIS_2/analytic_20230830/20230830_C32734_009_S555826_Cdc48-noUV-1_Control_DDA.raw\np32734/Proteomics/EXPLORIS_2/analytic_20230830/20230830_C32734_004_S556256_Cdc48-noUV-3_Control_DDA.raw\np32734/Proteomics/EXPLORIS_2/analytic_20230830/20230830_C32734_003_S556255_Cdc48-noUV-2_Control_DDA.raw\np32734/Proteomics/EXPLORIS_2/analytic_20230830/20230830_C32734_007_S556257_Cdc48-UV-1_Group_1_DDA.raw \np32734/Proteomics/EXPLORIS_2/analytic_20230830/20230830_C32734_002_S556259_Cdc48-UV-3_Group_1_DDA.raw \np32734/Proteomics/EXPLORIS_2/analytic_20230830/20230830_C32734_008_S556258_Cdc48-UV-2_Group_1_DDA.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` = 2351839), list(`_classname` = "resource", `_id` = 2351838), list(`_classname` = "resource", `_id` = 2351837), list(`_classname` = "resource", `_id` = 2351836), list(`_classname` = "resource", `_id` = 2351835), list(`_classname` = "resource", `_id` = 2351834)), modified = "2023-08-31 12:51:26", modifiedby = "tobiasko", name = "injection time plot", status = "AVAILABLE", updatable = "true"))list(list(`_classname` = "resource", `_id` = 2352102, container = list(`_classname` = "order", `_id` = 32734), created = "2023-08-31 12:51:28", createdby = "tobiasko", deletable = "true", filechecksum = "d8c29e866ddac1d5f8b4941980439902", junk = "false", modified = "2023-08-31 12:51:28", modifiedby = "tobiasko", name = "WU293020-20230831-1251-rawDiag.pdf", relativepath = "container_32734/workunit_293020/WU293020-20230831-1251-rawDiag.pdf", size = "753984", status = "available", storage = list(`_classname` = "storage", `_id` = 10), updatable = "true", uri = list("https://fgcz-bfabric.uzh.ch/dmexternal/container_32734/workunit_293020/WU293020-20230831-1251-rawDiag.pdf", "scp://localhost/export/bfabric/data/b-fabric-external-repo/container_32734/workunit_293020/WU293020-20230831-1251-rawDiag.pdf"), workunit = list(`_classname` = "workunit", `_id` = 293020))) The current plot is available as workunit 293020 #rows are 170660 output$download 1... #rows are 170660 output$download 2... #rows are 170660 output$download 2... ggsave to file /tmp/RtmpBd9PCe/rawDiag-345716496946b0.pdf generated pdf /tmp/RtmpBd9PCe/rawDiag-345716496946b0.pdf bfabricShiny::uploadResource ... list(list(`_classname` = "workunit", `_id` = 293021, application = list(`_classname` = "application", `_id` = 225), container = list(`_classname` = "order", `_id` = 32734), created = "2023-08-31 12:51:50", createdby = "tobiasko", deletable = "true", description = "input files:\np32734/Proteomics/EXPLORIS_2/analytic_20230830/20230830_C32734_009_S555826_Cdc48-noUV-1_Control_DDA.raw\np32734/Proteomics/EXPLORIS_2/analytic_20230830/20230830_C32734_004_S556256_Cdc48-noUV-3_Control_DDA.raw\np32734/Proteomics/EXPLORIS_2/analytic_20230830/20230830_C32734_003_S556255_Cdc48-noUV-2_Control_DDA.raw\np32734/Proteomics/EXPLORIS_2/analytic_20230830/20230830_C32734_007_S556257_Cdc48-UV-1_Group_1_DDA.raw \np32734/Proteomics/EXPLORIS_2/analytic_20230830/20230830_C32734_002_S556259_Cdc48-UV-3_Group_1_DDA.raw \np32734/Proteomics/EXPLORIS_2/analytic_20230830/20230830_C32734_008_S556258_Cdc48-UV-2_Group_1_DDA.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` = 2351839), list(`_classname` = "resource", `_id` = 2351838), list(`_classname` = "resource", `_id` = 2351837), list(`_classname` = "resource", `_id` = 2351836), list(`_classname` = "resource", `_id` = 2351835), list(`_classname` = "resource", `_id` = 2351834)), modified = "2023-08-31 12:51:50", modifiedby = "tobiasko", name = "charge state plot", status = "AVAILABLE", updatable = "true"))list(list(`_classname` = "resource", `_id` = 2352103, container = list(`_classname` = "order", `_id` = 32734), created = "2023-08-31 12:51:52", createdby = "tobiasko", deletable = "true", filechecksum = "e25b98432ef13c0609f171757a5c8434", junk = "false", modified = "2023-08-31 12:51:52", modifiedby = "tobiasko", name = "WU293021-20230831-1251-rawDiag.pdf", relativepath = "container_32734/workunit_293021/WU293021-20230831-1251-rawDiag.pdf", size = "8723", status = "available", storage = list(`_classname` = "storage", `_id` = 10), updatable = "true", uri = list("https://fgcz-bfabric.uzh.ch/dmexternal/container_32734/workunit_293021/WU293021-20230831-1251-rawDiag.pdf", "scp://localhost/export/bfabric/data/b-fabric-external-repo/container_32734/workunit_293021/WU293021-20230831-1251-rawDiag.pdf"), workunit = list(`_classname` = "workunit", `_id` = 293021))) The current plot is available as workunit 293021 #rows are 170660 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 170660 output$download 2... ggsave to file /tmp/RtmpBd9PCe/rawDiag-345716157c01f0.pdf generated pdf /tmp/RtmpBd9PCe/rawDiag-345716157c01f0.pdf bfabricShiny::uploadResource ... list(list(`_classname` = "workunit", `_id` = 293022, application = list(`_classname` = "application", `_id` = 225), container = list(`_classname` = "order", `_id` = 32734), created = "2023-08-31 12:52:09", createdby = "tobiasko", deletable = "true", description = "input files:\np32734/Proteomics/EXPLORIS_2/analytic_20230830/20230830_C32734_009_S555826_Cdc48-noUV-1_Control_DDA.raw\np32734/Proteomics/EXPLORIS_2/analytic_20230830/20230830_C32734_004_S556256_Cdc48-noUV-3_Control_DDA.raw\np32734/Proteomics/EXPLORIS_2/analytic_20230830/20230830_C32734_003_S556255_Cdc48-noUV-2_Control_DDA.raw\np32734/Proteomics/EXPLORIS_2/analytic_20230830/20230830_C32734_007_S556257_Cdc48-UV-1_Group_1_DDA.raw \np32734/Proteomics/EXPLORIS_2/analytic_20230830/20230830_C32734_002_S556259_Cdc48-UV-3_Group_1_DDA.raw \np32734/Proteomics/EXPLORIS_2/analytic_20230830/20230830_C32734_008_S556258_Cdc48-UV-2_Group_1_DDA.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` = 2351839), list(`_classname` = "resource", `_id` = 2351838), list(`_classname` = "resource", `_id` = 2351837), list(`_classname` = "resource", `_id` = 2351836), list(`_classname` = "resource", `_id` = 2351835), list(`_classname` = "resource", `_id` = 2351834)), modified = "2023-08-31 12:52:09", modifiedby = "tobiasko", name = "XIC plot", status = "AVAILABLE", updatable = "true"))list(list(`_classname` = "resource", `_id` = 2352104, container = list(`_classname` = "order", `_id` = 32734), created = "2023-08-31 12:52:11", createdby = "tobiasko", deletable = "true", filechecksum = "4547cc6fc94370312eaa00aa628cfd20", junk = "false", modified = "2023-08-31 12:52:11", modifiedby = "tobiasko", name = "WU293022-20230831-1252-rawDiag.pdf", relativepath = "container_32734/workunit_293022/WU293022-20230831-1252-rawDiag.pdf", size = "57381", status = "available", storage = list(`_classname` = "storage", `_id` = 10), updatable = "true", uri = list("https://fgcz-bfabric.uzh.ch/dmexternal/container_32734/workunit_293022/WU293022-20230831-1252-rawDiag.pdf", "scp://localhost/export/bfabric/data/b-fabric-external-repo/container_32734/workunit_293022/WU293022-20230831-1252-rawDiag.pdf"), workunit = list(`_classname` = "workunit", `_id` = 293022))) The current plot is available as workunit 293022 #rows are 170660 output$download 1... DEBUG renderPlot plotQCs #rows are 170660 output$download 1... saving 'login and webservicepassword' ... output$tic.basepeak <- renderPlot({ #rows are 170660 output$download 2... output$tic.basepeak <- renderPlot({ #rows are 170660 output$download 2... Execution halted