Listening on http://127.0.0.1:44331 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//p33078/Proteomics/EXPLORIS_1/analytic_20231115/20231115_C33078_019_S572805_L90plus1_NoLS_Doxy.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p33078/Proteomics/EXPLORIS_1/analytic_20231115/20231115_C33078_013_S572796_L92plus1_NLS_doxy.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p33078/Proteomics/EXPLORIS_1/analytic_20231115/20231115_C33078_002_S572811_R90-1_NoLS_noDoxy.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p33078/Proteomics/EXPLORIS_1/analytic_20231115/20231115_C33078_006_S572806_L90plus2_NoLS_Doxy.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p33078/Proteomics/EXPLORIS_1/analytic_20231115/20231115_C33078_032_S572793_R92plus1_NLS_doxy.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p33078/Proteomics/EXPLORIS_1/analytic_20231115/20231115_C33078_022_S572803_R90plus2_NoLS_Doxy.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p33078/Proteomics/EXPLORIS_1/analytic_20231115/20231115_C33078_029_S572801_P90plus3_NoLS_Doxy.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p33078/Proteomics/EXPLORIS_1/analytic_20231115/20231115_C33078_033_S572797_L92plus2_NLS_doxy.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p33078/Proteomics/EXPLORIS_1/analytic_20231115/20231115_C33078_012_S572804_R90plus3_NoLS_Doxy.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p33078/Proteomics/EXPLORIS_1/analytic_20231115/20231115_C33078_004_S572807_L90plus3_NoLS_Doxy.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p33078/Proteomics/EXPLORIS_1/analytic_20231115/20231115_C33078_028_S572812_R90-2_NoLS_noDoxy.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p33078/Proteomics/EXPLORIS_1/analytic_20231115/20231115_C33078_008_S572790_P92plus1_NLS_doxy.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 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 executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p33078/Proteomics/EXPLORIS_1/analytic_20231115/20231115_C33078_034_S572795_R92plus3_NLS_doxy.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p33078/Proteomics/EXPLORIS_1/analytic_20231115/20231115_C33078_016_S572802_R90plus1_NoLS_Doxy.raw qc ... missing column name(s): LMCorrection, ElapsedScanTimesec, transient, AGCMode, PrescanMode NA values replaced in MasterScanNumber renamed LMmZCorrectionppm to LMCorrection renamed AGCPSMode to PrescanMode executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p33078/Proteomics/EXPLORIS_1/analytic_20231115/20231115_C33078_014_S572791_P92plus2_NLS_doxy.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 renamed AGCPSMode to PrescanMode executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p33078/Proteomics/EXPLORIS_1/analytic_20231115/20231115_C33078_018_S572798_L92plus3_NLS_doxy.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 executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p33078/Proteomics/EXPLORIS_1/analytic_20231115/20231115_C33078_026_S572816_L90-3_NoLS_noDoxy.raw qc ... missing column name(s): LMCorrection, ElapsedScanTimesec, transient, AGCMode, PrescanMode NA values replaced in MasterScanNumber executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p33078/Proteomics/EXPLORIS_1/analytic_20231115/20231115_C33078_003_S572809_P90-2_NoLS_noDoxy.raw qc ... renamed LMmZCorrectionppm to LMCorrection executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p33078/Proteomics/EXPLORIS_1/analytic_20231115/20231115_C33078_005_S572799_P90plus1_NoLS_Doxy.raw qc ... 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 executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p33078/Proteomics/EXPLORIS_1/analytic_20231115/20231115_C33078_009_S572800_P90plus2_NoLS_Doxy.raw qc ... executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p33078/Proteomics/EXPLORIS_1/analytic_20231115/20231115_C33078_007_S572810_P90-3_NoLS_noDoxy.raw qc ... renamed LMmZCorrectionppm to LMCorrection renamed AGCPSMode to PrescanMode executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p33078/Proteomics/EXPLORIS_1/analytic_20231115/20231115_C33078_017_S572794_R92plus2_NLS_doxy.raw qc ... missing column name(s): LMCorrection, ElapsedScanTimesec, transient, AGCMode, PrescanMode NA values replaced in MasterScanNumber renamed LMmZCorrectionppm to LMCorrection renamed AGCPSMode to PrescanMode executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p33078/Proteomics/EXPLORIS_1/analytic_20231115/20231115_C33078_024_S572814_L90-1_NoLS_noDoxy.raw qc ... missing column name(s): LMCorrection, ElapsedScanTimesec, transient, AGCMode, PrescanMode NA values replaced in MasterScanNumber renamed LMmZCorrectionppm to LMCorrection renamed AGCPSMode to PrescanMode executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p33078/Proteomics/EXPLORIS_1/analytic_20231115/20231115_C33078_015_S572792_P92plus3_NLS_doxy.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 renamed AGCPSMode to PrescanMode executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p33078/Proteomics/EXPLORIS_1/analytic_20231115/20231115_C33078_023_S572813_R90-3_NoLS_noDoxy.raw qc ... missing column name(s): LMCorrection, ElapsedScanTimesec, transient, AGCMode, PrescanMode NA values replaced in MasterScanNumber renamed LMmZCorrectionppm to LMCorrection renamed AGCPSMode to PrescanMode missing column name(s): LMCorrection, ElapsedScanTimesec, transient, AGCMode, PrescanMode NA values replaced in MasterScanNumber renamed LMmZCorrectionppm to LMCorrection renamed AGCPSMode to PrescanMode missing column name(s): LMCorrection, ElapsedScanTimesec, transient, AGCMode, PrescanMode NA values replaced in MasterScanNumber missing column name(s): LMCorrection, ElapsedScanTimesec, transient, AGCMode, PrescanMode NA values replaced in MasterScanNumber renamed LMmZCorrectionppm to LMCorrection renamed LMmZCorrectionppm to LMCorrection renamed AGCPSMode to PrescanMode renamed AGCPSMode to PrescanMode missing column name(s): LMCorrection, ElapsedScanTimesec, transient, AGCMode, PrescanMode NA values replaced in MasterScanNumber renamed LMmZCorrectionppm to LMCorrection renamed AGCPSMode to PrescanMode executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p33078/Proteomics/EXPLORIS_1/analytic_20231115/20231115_C33078_025_S572815_L90-2_NoLS_noDoxy.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 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 executing mono /usr/local/lib/R/site-library/rawDiag/exec/fgcz_raw.exe /srv/www/htdocs//p33078/Proteomics/EXPLORIS_1/analytic_20231115/20231115_C33078_027_S572808_P90-1_NoLS_noDoxy.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 renamed AGCPSMode to PrescanMode #rows are 785892 output$tic.basepeak <- renderPlot({ #rows are 785892 output$download 2... saving 'login and webservicepassword' ... ggsave to file /tmp/RtmpFdc7oh/rawDiag-1f281473dfb494.pdf generated pdf /tmp/RtmpFdc7oh/rawDiag-1f281473dfb494.pdf bfabricShiny::uploadResource ... list(list(`_classname` = "workunit", `_id` = 296227, application = list(`_classname` = "application", `_id` = 225), container = list(`_classname` = "order", `_id` = 33078), created = "2023-11-17 11:24:21", createdby = "tobiasko", description = "input files:\np33078/Proteomics/EXPLORIS_1/analytic_20231115/20231115_C33078_029_S572801_P90plus3_NoLS_Doxy.raw\np33078/Proteomics/EXPLORIS_1/analytic_20231115/20231115_C33078_002_S572811_R90-1_NoLS_noDoxy.raw \np33078/Proteomics/EXPLORIS_1/analytic_20231115/20231115_C33078_013_S572796_L92plus1_NLS_doxy.raw \np33078/Proteomics/EXPLORIS_1/analytic_20231115/20231115_C33078_022_S572803_R90plus2_NoLS_Doxy.raw\np33078/Proteomics/EXPLORIS_1/analytic_20231115/20231115_C33078_006_S572806_L90plus2_NoLS_Doxy.raw\np33078/Proteomics/EXPLORIS_1/analytic_20231115/20231115_C33078_019_S572805_L90plus1_NoLS_Doxy.raw\np33078/Proteomics/EXPLORIS_1/analytic_20231115/20231115_C33078_032_S572793_R92plus1_NLS_doxy.raw \np33078/Proteomics/EXPLORIS_1/analytic_20231115/20231115_C33078_033_S572797_L92plus2_NLS_doxy.raw \np33078/Proteomics/EXPLORIS_1/analytic_20231115/20231115_C33078_012_S572804_R90plus3_NoLS_Doxy.raw\np33078/Proteomics/EXPLORIS_1/analytic_20231115/20231115_C33078_004_S572807_L90plus3_NoLS_Doxy.raw\np33078/Proteomics/EXPLORIS_1/analytic_20231115/20231115_C33078_028_S572812_R90-2_NoLS_noDoxy.raw \np33078/Proteomics/EXPLORIS_1/analytic_20231115/20231115_C33078_008_S572790_P92plus1_NLS_doxy.raw \np33078/Proteomics/EXPLORIS_1/analytic_20231115/20231115_C33078_015_S572792_P92plus3_NLS_doxy.raw \np33078/Proteomics/EXPLORIS_1/analytic_20231115/20231115_C33078_024_S572814_L90-1_NoLS_noDoxy.raw \np33078/Proteomics/EXPLORIS_1/analytic_20231115/20231115_C33078_034_S572795_R92plus3_NLS_doxy.raw \np33078/Proteomics/EXPLORIS_1/analytic_20231115/20231115_C33078_014_S572791_P92plus2_NLS_doxy.raw \np33078/Proteomics/EXPLORIS_1/analytic_20231115/20231115_C33078_026_S572816_L90-3_NoLS_noDoxy.raw \np33078/Proteomics/EXPLORIS_1/analytic_20231115/20231115_C33078_016_S572802_R90plus1_NoLS_Doxy.raw\np33078/Proteomics/EXPLORIS_1/analytic_20231115/20231115_C33078_005_S572799_P90plus1_NoLS_Doxy.raw\np33078/Proteomics/EXPLORIS_1/analytic_20231115/20231115_C33078_017_S572794_R92plus2_NLS_doxy.raw \np33078/Proteomics/EXPLORIS_1/analytic_20231115/20231115_C33078_003_S572809_P90-2_NoLS_noDoxy.raw \np33078/Proteomics/EXPLORIS_1/analytic_20231115/20231115_C33078_007_S572810_P90-3_NoLS_noDoxy.raw \np33078/Proteomics/EXPLORIS_1/analytic_20231115/20231115_C33078_018_S572798_L92plus3_NLS_doxy.raw \np33078/Proteomics/EXPLORIS_1/analytic_20231115/20231115_C33078_009_S572800_P90plus2_NoLS_Doxy.raw\np33078/Proteomics/EXPLORIS_1/analytic_20231115/20231115_C33078_027_S572808_P90-1_NoLS_noDoxy.raw \np33078/Proteomics/EXPLORIS_1/analytic_20231115/20231115_C33078_025_S572815_L90-2_NoLS_noDoxy.raw \np33078/Proteomics/EXPLORIS_1/analytic_20231115/20231115_C33078_023_S572813_R90-3_NoLS_noDoxy.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` = 2395681), list(`_classname` = "resource", `_id` = 2395680), list(`_classname` = "resource", `_id` = 2395679), list(`_classname` = "resource", `_id` = 2395678), list(`_classname` = "resource", `_id` = 2395677), list(`_classname` = "resource", `_id` = 2395676), list(`_classname` = "resource", `_id` = 2395675), list(`_classname` = "resource", `_id` = 2395674), list(`_classname` = "resource", `_id` = 2395673), list( `_classname` = "resource", `_id` = 2395672), list(`_classname` = "resource", `_id` = 2395671), list(`_classname` = "resource", `_id` = 2395670), list(`_classname` = "resource", `_id` = 2395669), list(`_classname` = "resource", `_id` = 2395668), list(`_classname` = "resource", `_id` = 2395667), list(`_classname` = "resource", `_id` = 2395666), list(`_classname` = "resource", `_id` = 2395665), list(`_classname` = "resource", `_id` = 2395664), list(`_classname` = "resource", `_id` = 2395663), list(`_classname` = "resource", `_id` = 2395662), list(`_classname` = "resource", `_id` = 2395661), list(`_classname` = "resource", `_id` = 2395660), list(`_classname` = "resource", `_id` = 2395659), list(`_classname` = "resource", `_id` = 2395658), list(`_classname` = "resource", `_id` = 2395657), list(`_classname` = "resource", `_id` = 2395656), list(`_classname` = "resource", `_id` = 2395655)), modified = "2023-11-17 11:24:21", modifiedby = "tobiasko", name = "TIC and basepeak plot", status = "AVAILABLE"))list(list(`_classname` = "resource", `_id` = 2395683, container = list(`_classname` = "order", `_id` = 33078), created = "2023-11-17 11:24:22", createdby = "tobiasko", filechecksum = "ac0b7a5f4fec8cd09dfaf1816a9171cf", junk = "false", modified = "2023-11-17 11:24:22", modifiedby = "tobiasko", name = "WU296227-20231117-1124-rawDiag.pdf", relativepath = "container_33078/workunit_296227/WU296227-20231117-1124-rawDiag.pdf", size = "956589", status = "available", storage = list(`_classname` = "storage", `_id` = 10), uri = list("https://fgcz-bfabric.uzh.ch/dmexternal/container_33078/workunit_296227/WU296227-20231117-1124-rawDiag.pdf", "scp://localhost/export/bfabric/data/b-fabric-external-repo/container_33078/workunit_296227/WU296227-20231117-1124-rawDiag.pdf"), workunit = list(`_classname` = "workunit", `_id` = 296227))) The current plot is available as workunit 296227 #rows are 785892 output$download 1... saving 'login and webservicepassword' ... output$tic.basepeak <- renderPlot({ #rows are 785892 output$download 2... output$tic.basepeak <- renderPlot({ #rows are 785892 output$download 2...