Listening on http://127.0.0.1:41873 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//p33256/Proteomics/EXPLORIS_2/analytic_20231101/20231101_C33256_012_S582938_WT_inf_3.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p33256/Proteomics/EXPLORIS_2/analytic_20231101/20231101_C33256_006_S582936_WT_inf_1.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p33256/Proteomics/EXPLORIS_2/analytic_20231101/20231101_C33256_003_S582943_SWN-GPF_inf_2.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p33256/Proteomics/EXPLORIS_2/analytic_20231101/20231101_C33256_011_S582937_WT_inf_2.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p33256/Proteomics/EXPLORIS_2/analytic_20231101/20231101_C33256_002_S582940_CLF-GPF_inf_2.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p33256/Proteomics/EXPLORIS_2/analytic_20231101/20231101_C33256_004_S582939_CLF-GPF_inf_1.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p33256/Proteomics/EXPLORIS_2/analytic_20231101/20231101_C33256_008_S582944_SWN-GPF_inf_3.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p33256/Proteomics/EXPLORIS_2/analytic_20231101/20231101_C33256_010_S582942_SWN-GPF_inf_1.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p33256/Proteomics/EXPLORIS_2/analytic_20231101/20231101_C33256_007_S582941_CLF-GPF_inf_3.raw qc ... 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 AGCPSMode to PrescanMode renamed LMmZCorrectionppm to LMCorrection missing column name(s): LMCorrection, ElapsedScanTimesec, transient, AGCMode, PrescanMode NA values replaced in MasterScanNumber renamed AGCPSMode to PrescanMode renamed LMmZCorrectionppm to LMCorrection renamed AGCPSMode to PrescanMode missing column name(s): LMCorrection, ElapsedScanTimesec, transient, AGCMode, PrescanMode NA values replaced in MasterScanNumber renamed LMmZCorrectionppm to LMCorrection renamed AGCPSMode to PrescanMode missing column name(s): LMCorrection, ElapsedScanTimesec, transient, AGCMode, PrescanMode NA values replaced in MasterScanNumber renamed LMmZCorrectionppm to LMCorrection renamed AGCPSMode to PrescanMode 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 224479 output$tic.basepeak <- renderPlot({ #rows are 224479 output$download 2... saving 'login and webservicepassword' ... ggsave to file /tmp/RtmpywnG0y/rawDiag-920451b5b36ad.pdf generated pdf /tmp/RtmpywnG0y/rawDiag-920451b5b36ad.pdf bfabricShiny::uploadResource ... list(list(`_classname` = "workunit", `_id` = 295594, application = list(`_classname` = "application", `_id` = 225), container = list(`_classname` = "order", `_id` = 33256), created = "2023-11-02 14:05:43", createdby = "tobiasko", description = "input files:\np33256/Proteomics/EXPLORIS_2/analytic_20231101/20231101_C33256_007_S582941_CLF-GPF_inf_3.raw\np33256/Proteomics/EXPLORIS_2/analytic_20231101/20231101_C33256_002_S582940_CLF-GPF_inf_2.raw\np33256/Proteomics/EXPLORIS_2/analytic_20231101/20231101_C33256_006_S582936_WT_inf_1.raw \np33256/Proteomics/EXPLORIS_2/analytic_20231101/20231101_C33256_010_S582942_SWN-GPF_inf_1.raw\np33256/Proteomics/EXPLORIS_2/analytic_20231101/20231101_C33256_003_S582943_SWN-GPF_inf_2.raw\np33256/Proteomics/EXPLORIS_2/analytic_20231101/20231101_C33256_008_S582944_SWN-GPF_inf_3.raw\np33256/Proteomics/EXPLORIS_2/analytic_20231101/20231101_C33256_011_S582937_WT_inf_2.raw \np33256/Proteomics/EXPLORIS_2/analytic_20231101/20231101_C33256_004_S582939_CLF-GPF_inf_1.raw\np33256/Proteomics/EXPLORIS_2/analytic_20231101/20231101_C33256_012_S582938_WT_inf_3.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` = 2383280), list(`_classname` = "resource", `_id` = 2383279), list(`_classname` = "resource", `_id` = 2383278), list(`_classname` = "resource", `_id` = 2383277), list(`_classname` = "resource", `_id` = 2383276), list(`_classname` = "resource", `_id` = 2383275), list(`_classname` = "resource", `_id` = 2383274), list(`_classname` = "resource", `_id` = 2383273), list(`_classname` = "resource", `_id` = 2383272)), modified = "2023-11-02 14:05:43", modifiedby = "tobiasko", name = "TIC and basepeak plot", status = "AVAILABLE"))list(list(`_classname` = "resource", `_id` = 2383564, container = list(`_classname` = "order", `_id` = 33256), created = "2023-11-02 14:05:44", createdby = "tobiasko", filechecksum = "e44d311248aa15e026622e4dc76fc714", junk = "false", modified = "2023-11-02 14:05:44", modifiedby = "tobiasko", name = "WU295594-20231102-1405-rawDiag.pdf", relativepath = "container_33256/workunit_295594/WU295594-20231102-1405-rawDiag.pdf", size = "366636", status = "available", storage = list(`_classname` = "storage", `_id` = 10), uri = list("https://fgcz-bfabric.uzh.ch/dmexternal/container_33256/workunit_295594/WU295594-20231102-1405-rawDiag.pdf", "scp://localhost/export/bfabric/data/b-fabric-external-repo/container_33256/workunit_295594/WU295594-20231102-1405-rawDiag.pdf"), workunit = list(`_classname` = "workunit", `_id` = 295594))) The current plot is available as workunit 295594 #rows are 224479 output$download 1... saving 'login and webservicepassword' ... output$scan.frequency <- renderPlot Warning: Removed 29 rows containing missing values (`geom_line()`). #rows are 224479 output$download 2... ggsave to file /tmp/RtmpywnG0y/rawDiag-92045249cba8d.pdf Warning: Removed 29 rows containing missing values (`geom_line()`). generated pdf /tmp/RtmpywnG0y/rawDiag-92045249cba8d.pdf bfabricShiny::uploadResource ... list(list(`_classname` = "workunit", `_id` = 295595, application = list(`_classname` = "application", `_id` = 225), container = list(`_classname` = "order", `_id` = 33256), created = "2023-11-02 14:06:07", createdby = "tobiasko", description = "input files:\np33256/Proteomics/EXPLORIS_2/analytic_20231101/20231101_C33256_007_S582941_CLF-GPF_inf_3.raw\np33256/Proteomics/EXPLORIS_2/analytic_20231101/20231101_C33256_002_S582940_CLF-GPF_inf_2.raw\np33256/Proteomics/EXPLORIS_2/analytic_20231101/20231101_C33256_006_S582936_WT_inf_1.raw \np33256/Proteomics/EXPLORIS_2/analytic_20231101/20231101_C33256_010_S582942_SWN-GPF_inf_1.raw\np33256/Proteomics/EXPLORIS_2/analytic_20231101/20231101_C33256_003_S582943_SWN-GPF_inf_2.raw\np33256/Proteomics/EXPLORIS_2/analytic_20231101/20231101_C33256_008_S582944_SWN-GPF_inf_3.raw\np33256/Proteomics/EXPLORIS_2/analytic_20231101/20231101_C33256_011_S582937_WT_inf_2.raw \np33256/Proteomics/EXPLORIS_2/analytic_20231101/20231101_C33256_004_S582939_CLF-GPF_inf_1.raw\np33256/Proteomics/EXPLORIS_2/analytic_20231101/20231101_C33256_012_S582938_WT_inf_3.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` = 2383280), list(`_classname` = "resource", `_id` = 2383279), list(`_classname` = "resource", `_id` = 2383278), list(`_classname` = "resource", `_id` = 2383277), list(`_classname` = "resource", `_id` = 2383276), list(`_classname` = "resource", `_id` = 2383275), list(`_classname` = "resource", `_id` = 2383274), list(`_classname` = "resource", `_id` = 2383273), list(`_classname` = "resource", `_id` = 2383272)), modified = "2023-11-02 14:06:07", modifiedby = "tobiasko", name = "scan frequency plot", status = "AVAILABLE"))list(list(`_classname` = "resource", `_id` = 2383565, container = list(`_classname` = "order", `_id` = 33256), created = "2023-11-02 14:06:08", createdby = "tobiasko", filechecksum = "67d63c4ec01907d546c82dd4cbb4dade", junk = "false", modified = "2023-11-02 14:06:08", modifiedby = "tobiasko", name = "WU295595-20231102-1406-rawDiag.pdf", relativepath = "container_33256/workunit_295595/WU295595-20231102-1406-rawDiag.pdf", size = "288088", status = "available", storage = list(`_classname` = "storage", `_id` = 10), uri = list("https://fgcz-bfabric.uzh.ch/dmexternal/container_33256/workunit_295595/WU295595-20231102-1406-rawDiag.pdf", "scp://localhost/export/bfabric/data/b-fabric-external-repo/container_33256/workunit_295595/WU295595-20231102-1406-rawDiag.pdf"), workunit = list(`_classname` = "workunit", `_id` = 295595))) The current plot is available as workunit 295595 #rows are 224479 output$download 1... #rows are 224479 output$download 2... `geom_smooth()` using formula = 'y ~ x' #rows are 224479 output$download 2... ggsave to file /tmp/RtmpywnG0y/rawDiag-920456e30b7ab.pdf `geom_smooth()` using formula = 'y ~ x' generated pdf /tmp/RtmpywnG0y/rawDiag-920456e30b7ab.pdf bfabricShiny::uploadResource ... list(list(`_classname` = "workunit", `_id` = 295596, application = list(`_classname` = "application", `_id` = 225), container = list(`_classname` = "order", `_id` = 33256), created = "2023-11-02 14:07:01", createdby = "tobiasko", description = "input files:\np33256/Proteomics/EXPLORIS_2/analytic_20231101/20231101_C33256_007_S582941_CLF-GPF_inf_3.raw\np33256/Proteomics/EXPLORIS_2/analytic_20231101/20231101_C33256_002_S582940_CLF-GPF_inf_2.raw\np33256/Proteomics/EXPLORIS_2/analytic_20231101/20231101_C33256_006_S582936_WT_inf_1.raw \np33256/Proteomics/EXPLORIS_2/analytic_20231101/20231101_C33256_010_S582942_SWN-GPF_inf_1.raw\np33256/Proteomics/EXPLORIS_2/analytic_20231101/20231101_C33256_003_S582943_SWN-GPF_inf_2.raw\np33256/Proteomics/EXPLORIS_2/analytic_20231101/20231101_C33256_008_S582944_SWN-GPF_inf_3.raw\np33256/Proteomics/EXPLORIS_2/analytic_20231101/20231101_C33256_011_S582937_WT_inf_2.raw \np33256/Proteomics/EXPLORIS_2/analytic_20231101/20231101_C33256_004_S582939_CLF-GPF_inf_1.raw\np33256/Proteomics/EXPLORIS_2/analytic_20231101/20231101_C33256_012_S582938_WT_inf_3.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` = 2383280), list(`_classname` = "resource", `_id` = 2383279), list(`_classname` = "resource", `_id` = 2383278), list(`_classname` = "resource", `_id` = 2383277), list(`_classname` = "resource", `_id` = 2383276), list(`_classname` = "resource", `_id` = 2383275), list(`_classname` = "resource", `_id` = 2383274), list(`_classname` = "resource", `_id` = 2383273), list(`_classname` = "resource", `_id` = 2383272)), modified = "2023-11-02 14:07:01", modifiedby = "tobiasko", name = "cycle load plot", status = "AVAILABLE"))list(list(`_classname` = "resource", `_id` = 2383566, container = list(`_classname` = "order", `_id` = 33256), created = "2023-11-02 14:07:03", createdby = "tobiasko", filechecksum = "895a582bc42ad31d165bc0c883d1d55e", junk = "false", modified = "2023-11-02 14:07:03", modifiedby = "tobiasko", name = "WU295596-20231102-1407-rawDiag.pdf", relativepath = "container_33256/workunit_295596/WU295596-20231102-1407-rawDiag.pdf", size = "687488", status = "available", storage = list(`_classname` = "storage", `_id` = 10), uri = list("https://fgcz-bfabric.uzh.ch/dmexternal/container_33256/workunit_295596/WU295596-20231102-1407-rawDiag.pdf", "scp://localhost/export/bfabric/data/b-fabric-external-repo/container_33256/workunit_295596/WU295596-20231102-1407-rawDiag.pdf"), workunit = list(`_classname` = "workunit", `_id` = 295596))) The current plot is available as workunit 295596 #rows are 224479 output$download 1... Warning: Removed 4 rows containing non-finite values (`stat_smooth()`). #rows are 224479 output$download 2... ggsave to file /tmp/RtmpywnG0y/rawDiag-920454dcc9f65.pdf Warning: Removed 4 rows containing non-finite values (`stat_smooth()`). generated pdf /tmp/RtmpywnG0y/rawDiag-920454dcc9f65.pdf bfabricShiny::uploadResource ... list(list(`_classname` = "workunit", `_id` = 295597, application = list(`_classname` = "application", `_id` = 225), container = list(`_classname` = "order", `_id` = 33256), created = "2023-11-02 14:07:19", createdby = "tobiasko", description = "input files:\np33256/Proteomics/EXPLORIS_2/analytic_20231101/20231101_C33256_007_S582941_CLF-GPF_inf_3.raw\np33256/Proteomics/EXPLORIS_2/analytic_20231101/20231101_C33256_002_S582940_CLF-GPF_inf_2.raw\np33256/Proteomics/EXPLORIS_2/analytic_20231101/20231101_C33256_006_S582936_WT_inf_1.raw \np33256/Proteomics/EXPLORIS_2/analytic_20231101/20231101_C33256_010_S582942_SWN-GPF_inf_1.raw\np33256/Proteomics/EXPLORIS_2/analytic_20231101/20231101_C33256_003_S582943_SWN-GPF_inf_2.raw\np33256/Proteomics/EXPLORIS_2/analytic_20231101/20231101_C33256_008_S582944_SWN-GPF_inf_3.raw\np33256/Proteomics/EXPLORIS_2/analytic_20231101/20231101_C33256_011_S582937_WT_inf_2.raw \np33256/Proteomics/EXPLORIS_2/analytic_20231101/20231101_C33256_004_S582939_CLF-GPF_inf_1.raw\np33256/Proteomics/EXPLORIS_2/analytic_20231101/20231101_C33256_012_S582938_WT_inf_3.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` = 2383280), list(`_classname` = "resource", `_id` = 2383279), list(`_classname` = "resource", `_id` = 2383278), list(`_classname` = "resource", `_id` = 2383277), list(`_classname` = "resource", `_id` = 2383276), list(`_classname` = "resource", `_id` = 2383275), list(`_classname` = "resource", `_id` = 2383274), list(`_classname` = "resource", `_id` = 2383273), list(`_classname` = "resource", `_id` = 2383272)), modified = "2023-11-02 14:07:19", modifiedby = "tobiasko", name = "lock mass correction plot", status = "AVAILABLE"))list(list(`_classname` = "resource", `_id` = 2383567, container = list(`_classname` = "order", `_id` = 33256), created = "2023-11-02 14:07:20", createdby = "tobiasko", filechecksum = "2ef4e8f3fe351e2099fe667be89c56d7", junk = "false", modified = "2023-11-02 14:07:20", modifiedby = "tobiasko", name = "WU295597-20231102-1407-rawDiag.pdf", relativepath = "container_33256/workunit_295597/WU295597-20231102-1407-rawDiag.pdf", size = "222544", status = "available", storage = list(`_classname` = "storage", `_id` = 10), uri = list("https://fgcz-bfabric.uzh.ch/dmexternal/container_33256/workunit_295597/WU295597-20231102-1407-rawDiag.pdf", "scp://localhost/export/bfabric/data/b-fabric-external-repo/container_33256/workunit_295597/WU295597-20231102-1407-rawDiag.pdf"), workunit = list(`_classname` = "workunit", `_id` = 295597))) The current plot is available as workunit 295597 #rows are 224479 output$download 1... #rows are 224479 output$download 2... ggsave to file /tmp/RtmpywnG0y/rawDiag-920453b590527.pdf generated pdf /tmp/RtmpywnG0y/rawDiag-920453b590527.pdf bfabricShiny::uploadResource ... list(list(`_classname` = "workunit", `_id` = 295598, application = list(`_classname` = "application", `_id` = 225), container = list(`_classname` = "order", `_id` = 33256), created = "2023-11-02 14:08:04", createdby = "tobiasko", description = "input files:\np33256/Proteomics/EXPLORIS_2/analytic_20231101/20231101_C33256_007_S582941_CLF-GPF_inf_3.raw\np33256/Proteomics/EXPLORIS_2/analytic_20231101/20231101_C33256_002_S582940_CLF-GPF_inf_2.raw\np33256/Proteomics/EXPLORIS_2/analytic_20231101/20231101_C33256_006_S582936_WT_inf_1.raw \np33256/Proteomics/EXPLORIS_2/analytic_20231101/20231101_C33256_010_S582942_SWN-GPF_inf_1.raw\np33256/Proteomics/EXPLORIS_2/analytic_20231101/20231101_C33256_003_S582943_SWN-GPF_inf_2.raw\np33256/Proteomics/EXPLORIS_2/analytic_20231101/20231101_C33256_008_S582944_SWN-GPF_inf_3.raw\np33256/Proteomics/EXPLORIS_2/analytic_20231101/20231101_C33256_011_S582937_WT_inf_2.raw \np33256/Proteomics/EXPLORIS_2/analytic_20231101/20231101_C33256_004_S582939_CLF-GPF_inf_1.raw\np33256/Proteomics/EXPLORIS_2/analytic_20231101/20231101_C33256_012_S582938_WT_inf_3.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` = 2383280), list(`_classname` = "resource", `_id` = 2383279), list(`_classname` = "resource", `_id` = 2383278), list(`_classname` = "resource", `_id` = 2383277), list(`_classname` = "resource", `_id` = 2383276), list(`_classname` = "resource", `_id` = 2383275), list(`_classname` = "resource", `_id` = 2383274), list(`_classname` = "resource", `_id` = 2383273), list(`_classname` = "resource", `_id` = 2383272)), modified = "2023-11-02 14:08:04", modifiedby = "tobiasko", name = "injection time plot", status = "AVAILABLE"))list(list(`_classname` = "resource", `_id` = 2383568, container = list(`_classname` = "order", `_id` = 33256), created = "2023-11-02 14:08:06", createdby = "tobiasko", filechecksum = "66bf1af7655ccb06ebe67bcadd7aaf77", junk = "false", modified = "2023-11-02 14:08:06", modifiedby = "tobiasko", name = "WU295598-20231102-1408-rawDiag.pdf", relativepath = "container_33256/workunit_295598/WU295598-20231102-1408-rawDiag.pdf", size = "943191", status = "available", storage = list(`_classname` = "storage", `_id` = 10), uri = list("https://fgcz-bfabric.uzh.ch/dmexternal/container_33256/workunit_295598/WU295598-20231102-1408-rawDiag.pdf", "scp://localhost/export/bfabric/data/b-fabric-external-repo/container_33256/workunit_295598/WU295598-20231102-1408-rawDiag.pdf"), workunit = list(`_classname` = "workunit", `_id` = 295598))) The current plot is available as workunit 295598 #rows are 224479 output$download 1... #rows are 224479 output$download 2... ggsave to file /tmp/RtmpywnG0y/rawDiag-920451cd3604f.pdf generated pdf /tmp/RtmpywnG0y/rawDiag-920451cd3604f.pdf bfabricShiny::uploadResource ... list(list(`_classname` = "workunit", `_id` = 295599, application = list(`_classname` = "application", `_id` = 225), container = list(`_classname` = "order", `_id` = 33256), created = "2023-11-02 14:08:24", createdby = "tobiasko", description = "input files:\np33256/Proteomics/EXPLORIS_2/analytic_20231101/20231101_C33256_007_S582941_CLF-GPF_inf_3.raw\np33256/Proteomics/EXPLORIS_2/analytic_20231101/20231101_C33256_002_S582940_CLF-GPF_inf_2.raw\np33256/Proteomics/EXPLORIS_2/analytic_20231101/20231101_C33256_006_S582936_WT_inf_1.raw \np33256/Proteomics/EXPLORIS_2/analytic_20231101/20231101_C33256_010_S582942_SWN-GPF_inf_1.raw\np33256/Proteomics/EXPLORIS_2/analytic_20231101/20231101_C33256_003_S582943_SWN-GPF_inf_2.raw\np33256/Proteomics/EXPLORIS_2/analytic_20231101/20231101_C33256_008_S582944_SWN-GPF_inf_3.raw\np33256/Proteomics/EXPLORIS_2/analytic_20231101/20231101_C33256_011_S582937_WT_inf_2.raw \np33256/Proteomics/EXPLORIS_2/analytic_20231101/20231101_C33256_004_S582939_CLF-GPF_inf_1.raw\np33256/Proteomics/EXPLORIS_2/analytic_20231101/20231101_C33256_012_S582938_WT_inf_3.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` = 2383280), list(`_classname` = "resource", `_id` = 2383279), list(`_classname` = "resource", `_id` = 2383278), list(`_classname` = "resource", `_id` = 2383277), list(`_classname` = "resource", `_id` = 2383276), list(`_classname` = "resource", `_id` = 2383275), list(`_classname` = "resource", `_id` = 2383274), list(`_classname` = "resource", `_id` = 2383273), list(`_classname` = "resource", `_id` = 2383272)), modified = "2023-11-02 14:08:24", modifiedby = "tobiasko", name = "charge state plot", status = "AVAILABLE"))list(list(`_classname` = "resource", `_id` = 2383569, container = list(`_classname` = "order", `_id` = 33256), created = "2023-11-02 14:08:25", createdby = "tobiasko", filechecksum = "89be0af419606772ae2e95ba3f7acbdf", junk = "false", modified = "2023-11-02 14:08:25", modifiedby = "tobiasko", name = "WU295599-20231102-1408-rawDiag.pdf", relativepath = "container_33256/workunit_295599/WU295599-20231102-1408-rawDiag.pdf", size = "9565", status = "available", storage = list(`_classname` = "storage", `_id` = 10), uri = list("https://fgcz-bfabric.uzh.ch/dmexternal/container_33256/workunit_295599/WU295599-20231102-1408-rawDiag.pdf", "scp://localhost/export/bfabric/data/b-fabric-external-repo/container_33256/workunit_295599/WU295599-20231102-1408-rawDiag.pdf"), workunit = list(`_classname` = "workunit", `_id` = 295599))) The current plot is available as workunit 295599 #rows are 224479 output$download 1... DEBUG queryMass Warning: 'readXICs' is deprecated. Use 'rawrr::readChromatogram' instead. See help("Deprecated") Warning: 'readXICs' is deprecated. Use 'rawrr::readChromatogram' instead. See help("Deprecated") Warning: 'readXICs' is deprecated. Use 'rawrr::readChromatogram' instead. See help("Deprecated") Warning: 'readXICs' is deprecated. Use 'rawrr::readChromatogram' instead. See help("Deprecated") Warning: 'readXICs' is deprecated. Use 'rawrr::readChromatogram' instead. See help("Deprecated") Warning: 'readXICs' is deprecated. Use 'rawrr::readChromatogram' instead. See help("Deprecated") Warning: 'readXICs' is deprecated. Use 'rawrr::readChromatogram' instead. See help("Deprecated") Warning: 'readXICs' is deprecated. Use 'rawrr::readChromatogram' instead. See help("Deprecated") Warning: 'readXICs' is deprecated. Use 'rawrr::readChromatogram' instead. See help("Deprecated") Warning: `aes_string()` was deprecated in ggplot2 3.0.0. ℹ Please use tidy evaluation idioms with `aes()`. ℹ See also `vignette("ggplot2-in-packages")` for more information. Warning: Using `size` aesthetic for lines was deprecated in ggplot2 3.4.0. ℹ Please use `linewidth` instead. #rows are 224479 output$download 2... DEBUG renderPlot plotQCs #rows are 224479 output$download 2... Execution halted