Listening on http://127.0.0.1:44655 Attaching package: 'shinydashboard' The following object is masked from 'package:graphics': box Loading required package: readr Loading required package: reshape2 Loading required package: lattice Loading required package: rawDiag Loading required package: rawrr Loading required package: ggnewscale fn has changed to NA fn has changed to NA fn has changed to NA fn has changed to NA nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2024-01-22 14:45:32.164793 | timeMax: 2024-03-22 14:45:32.165383 | timeDiff: 5184000.00059032 Loading required package: bfabricShiny Attaching package: 'bfabricShiny' The following object is masked from 'package:base': save nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp nFacets: 4 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 1152 Loading required package: ggh4x Loading required package: ggplot2 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). input timeRange: 7776000 | timeMin: 2024-01-22 13:45:32.165 | timeMax: 2024-03-22 13:45:32.165 | timeDiff: 5184000 nFacets: 4 nrow dataFiltered(): 1152 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). nFacets: 4 nrow dataFiltered(): 1920 using 'ggh4x' package ... Warning: Removed 35 rows containing missing values (`geom_point()`). Warning: Removed 3 rows containing missing values (`geom_line()`). nFacets: 1 reading /scratch/DIAQC/qc/dump/autoQC03-diann.txt Warning: One or more parsing issues, call `problems()` on your data frame for details, e.g.: dat <- vroom(...) problems(dat) nFacets: 1 vals$rawrr: FALSE vals$rawDiag: FALSE vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 0 nrow dataFiltered(): 468 using 'ggh4x' package ... p34255/Proteomics/QEXACTIVE_1/analytic_20240213/20240321_C34255_007_autoQC03dda.raw NA p34255/Proteomics/QEXACTIVE_1/analytic_20240213/20240321_C34255_007_autoQC03dda.raw NA nrow dataFiltered(): 468 using 'ggh4x' package ... nrow dataFiltered(): 468 using 'ggh4x' package ... nrow dataFiltered(): 468 using 'ggh4x' package ... nrow dataFiltered(): 468 using 'ggh4x' package ... nrow dataFiltered(): 468 using 'ggh4x' package ... p34570/Proteomics/QEXACTIVE_1/analytic_20240312/20240312_C34570_007_autoQC03dda.raw NA nrow dataFiltered(): 468 using 'ggh4x' package ... nrow dataFiltered(): 468 using 'ggh4x' package ... nrow dataFiltered(): 468 using 'ggh4x' package ... nrow dataFiltered(): 468 using 'ggh4x' package ... nrow dataFiltered(): 468 using 'ggh4x' package ... nrow dataFiltered(): 1920 using 'ggh4x' package ... Warning: Removed 70 rows containing missing values (`geom_point()`). Warning: Removed 3 rows containing missing values (`geom_line()`). nrow dataFiltered(): 1920 using 'ggh4x' package ... Warning: Removed 105 rows containing missing values (`geom_point()`). Warning: Removed 3 rows containing missing values (`geom_line()`). nrow dataFiltered(): 1920 using 'ggh4x' package ... Warning: Removed 140 rows containing missing values (`geom_point()`). Warning: Removed 3 rows containing missing values (`geom_line()`). nrow dataFiltered(): 1920 using 'ggh4x' package ... Warning: Removed 105 rows containing missing values (`geom_point()`). Warning: Removed 3 rows containing missing values (`geom_line()`). NA p34704/Proteomics/QEXACTIVE_1/analytic_20240322/20240322_C34704_001_autoQC01.raw NA p34698/Proteomics/QEXACTIVE_1/analytic_20240321/20240321_C34698_001_autoQC01.raw NA p34704/Proteomics/QEXACTIVE_1/analytic_20240322/20240322_C34704_001_autoQC01.raw NA p34704/Proteomics/QEXACTIVE_1/analytic_20240322/20240322_C34704_001_autoQC01.raw p34230/Proteomics/QEXACTIVE_1/analytic_20240215/20240215_C34230_001_autoQC01.raw autoQC01 module APEX wide nrow: 263879 autoQC01 module APEX long nrow: 1440 LGGNEQVTR, TPVISGGPYEYR, LFLQFGAQGSPFLK APEXAUC.lg2 Warning: Removed 62 rows containing missing values (`geom_point()`). NA autoQC01 module APEX long nrow: 1440 LGGNEQVTR, TPVISGGPYEYR, LFLQFGAQGSPFLK APEXAUC.lg2AUC Warning: Removed 93 rows containing missing values (`geom_point()`). autoQC01 module APEX long nrow: 1440 LGGNEQVTR, TPVISGGPYEYR, LFLQFGAQGSPFLK, YILAGVENSK APEXAUC.lg2AUC Warning: Removed 93 rows containing missing values (`geom_point()`). autoQC01 module APEX long nrow: 1920 LGGNEQVTR, TPVISGGPYEYR, LFLQFGAQGSPFLK, YILAGVENSK APEXAUC.lg2AUC Warning: Removed 93 rows containing missing values (`geom_point()`). autoQC01 module APEX long nrow: 1920 LGGNEQVTR, TPVISGGPYEYR, LFLQFGAQGSPFLK, YILAGVENSK APEXAUC.lg2 Warning: Removed 62 rows containing missing values (`geom_point()`). p34704/Proteomics/QEXACTIVE_1/analytic_20240322/20240322_C34704_001_autoQC01.raw NA p34704/Proteomics/QEXACTIVE_1/analytic_20240322/20240322_C34704_001_autoQC01.raw autoQC01 module APEX long nrow: 1920 LGGNEQVTR, TPVISGGPYEYR, LFLQFGAQGSPFLK APEXAUC.lg2 Warning: Removed 62 rows containing missing values (`geom_point()`). autoQC01 module APEX long nrow: 1440 LGGNEQVTR, TPVISGGPYEYR, LFLQFGAQGSPFLK APEXAUC.lg2 Warning: Removed 62 rows containing missing values (`geom_point()`). autoQC01 module APEX long nrow: 1440 LGGNEQVTR, TPVISGGPYEYR, LFLQFGAQGSPFLK, GAGSSEPVTGLDAK APEXAUC.lg2 Warning: Removed 62 rows containing missing values (`geom_point()`). autoQC01 module APEX long nrow: 1920 LGGNEQVTR, TPVISGGPYEYR, LFLQFGAQGSPFLK, GAGSSEPVTGLDAK APEXAUC.lg2 Warning: Removed 62 rows containing missing values (`geom_point()`). autoQC01 module APEX long nrow: 1920 LGGNEQVTR, TPVISGGPYEYR, LFLQFGAQGSPFLK, GAGSSEPVTGLDAK, TPVITGAPYEYR APEXAUC.lg2 Warning: Removed 62 rows containing missing values (`geom_point()`). autoQC01 module APEX long nrow: 2400 LGGNEQVTR, TPVISGGPYEYR, LFLQFGAQGSPFLK, GAGSSEPVTGLDAK, TPVITGAPYEYR APEXAUC.lg2 Warning: Removed 62 rows containing missing values (`geom_point()`). autoQC01 module APEX long nrow: 2400 LGGNEQVTR, TPVISGGPYEYR, LFLQFGAQGSPFLK, GAGSSEPVTGLDAK, TPVITGAPYEYR, ADVTPADFSEWSK APEXAUC.lg2 Warning: Removed 62 rows containing missing values (`geom_point()`). autoQC01 module APEX long nrow: 2880 LGGNEQVTR, TPVISGGPYEYR, LFLQFGAQGSPFLK, GAGSSEPVTGLDAK, TPVITGAPYEYR, ADVTPADFSEWSK APEXAUC.lg2 Warning: Removed 62 rows containing missing values (`geom_point()`). autoQC01 module APEX long nrow: 2880 LGGNEQVTR, TPVISGGPYEYR, LFLQFGAQGSPFLK, GAGSSEPVTGLDAK, TPVITGAPYEYR, ADVTPADFSEWSK, DGLDAASYYAPVR APEXAUC.lg2 Warning: Removed 62 rows containing missing values (`geom_point()`). autoQC01 module APEX long nrow: 3360 LGGNEQVTR, TPVISGGPYEYR, LFLQFGAQGSPFLK, GAGSSEPVTGLDAK, TPVITGAPYEYR, ADVTPADFSEWSK, DGLDAASYYAPVR APEXAUC.lg2 Warning: Removed 130 rows containing missing values (`geom_point()`). Warning: Removed 3 rows containing missing values (`geom_line()`). autoQC01 module APEX long nrow: 3360 LGGNEQVTR, TPVISGGPYEYR, LFLQFGAQGSPFLK, GAGSSEPVTGLDAK, TPVITGAPYEYR, ADVTPADFSEWSK, DGLDAASYYAPVR, GTFIIDPGGVIR APEXAUC.lg2 Warning: Removed 130 rows containing missing values (`geom_point()`). Warning: Removed 3 rows containing missing values (`geom_line()`). autoQC01 module APEX long nrow: 3840 LGGNEQVTR, TPVISGGPYEYR, LFLQFGAQGSPFLK, GAGSSEPVTGLDAK, TPVITGAPYEYR, ADVTPADFSEWSK, DGLDAASYYAPVR, GTFIIDPGGVIR APEXAUC.lg2 Warning: Removed 130 rows containing missing values (`geom_point()`). Warning: Removed 3 rows containing missing values (`geom_line()`). autoQC01 module APEX long nrow: 3840 LGGNEQVTR, TPVISGGPYEYR, LFLQFGAQGSPFLK, GAGSSEPVTGLDAK, TPVITGAPYEYR, ADVTPADFSEWSK, DGLDAASYYAPVR APEXAUC.lg2 Warning: Removed 130 rows containing missing values (`geom_point()`). Warning: Removed 3 rows containing missing values (`geom_line()`). autoQC01 module APEX long nrow: 3360 LGGNEQVTR, TPVISGGPYEYR, LFLQFGAQGSPFLK, GAGSSEPVTGLDAK, TPVITGAPYEYR, ADVTPADFSEWSK, DGLDAASYYAPVR APEXAUC.lg2 Warning: Removed 130 rows containing missing values (`geom_point()`). Warning: Removed 3 rows containing missing values (`geom_line()`). autoQC01 module APEX long nrow: 3360 LGGNEQVTR, TPVISGGPYEYR, LFLQFGAQGSPFLK, GAGSSEPVTGLDAK, TPVITGAPYEYR, ADVTPADFSEWSK APEXAUC.lg2 Warning: Removed 130 rows containing missing values (`geom_point()`). Warning: Removed 3 rows containing missing values (`geom_line()`). autoQC01 module APEX long nrow: 3360 LGGNEQVTR, TPVISGGPYEYR, LFLQFGAQGSPFLK, GAGSSEPVTGLDAK, TPVITGAPYEYR APEXAUC.lg2 Warning: Removed 130 rows containing missing values (`geom_point()`). Warning: Removed 3 rows containing missing values (`geom_line()`). autoQC01 module APEX long nrow: 3360 LGGNEQVTR, TPVISGGPYEYR, LFLQFGAQGSPFLK, GAGSSEPVTGLDAK APEXAUC.lg2 Warning: Removed 130 rows containing missing values (`geom_point()`). Warning: Removed 3 rows containing missing values (`geom_line()`). autoQC01 module APEX long nrow: 3360 LGGNEQVTR, TPVISGGPYEYR, LFLQFGAQGSPFLK APEXAUC.lg2 Warning: Removed 130 rows containing missing values (`geom_point()`). Warning: Removed 3 rows containing missing values (`geom_line()`). autoQC01 module APEX long nrow: 3360 LGGNEQVTR, TPVISGGPYEYR APEXAUC.lg2 Warning: Removed 130 rows containing missing values (`geom_point()`). Warning: Removed 3 rows containing missing values (`geom_line()`). autoQC01 module APEX long nrow: 960 LGGNEQVTR, TPVISGGPYEYR APEXAUC.lg2 autoQC01 module APEX long nrow: 960 LGGNEQVTR, TPVISGGPYEYR, YILAGVENSK APEXAUC.lg2 autoQC01 module APEX long nrow: 1440 LGGNEQVTR, TPVISGGPYEYR, YILAGVENSK APEXAUC.lg2 autoQC01 module APEX long nrow: 1440 LGGNEQVTR, TPVISGGPYEYR APEXAUC.lg2 autoQC01 module APEX long nrow: 960 LGGNEQVTR, TPVISGGPYEYR APEXAUC.lg2 autoQC01 module APEX long nrow: 960 LGGNEQVTR, TPVISGGPYEYR, TPVITGAPYEYR APEXAUC.lg2 autoQC01 module APEX long nrow: 1440 LGGNEQVTR, TPVISGGPYEYR, TPVITGAPYEYR APEXAUC.lg2 autoQC01 module APEX long nrow: 1440 LGGNEQVTR, TPVISGGPYEYR APEXAUC.lg2 autoQC01 module APEX long nrow: 960 LGGNEQVTR, TPVISGGPYEYR APEXAUC.lg2 autoQC01 module APEX long nrow: 960 LGGNEQVTR, TPVISGGPYEYR, GAGSSEPVTGLDAK APEXAUC.lg2 autoQC01 module APEX long nrow: 1440 LGGNEQVTR, TPVISGGPYEYR, GAGSSEPVTGLDAK APEXAUC.lg2 NA Execution halted