Listening on http://127.0.0.1:41835 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: rawrr input timeRange: 7776000 | timeMin: 2023-10-27 11:59:20.025705 | timeMax: 2023-11-17 10:59:20.026356 | timeDiff: 1814400.00065041 Loading required package: bfabricShiny Attaching package: 'bfabricShiny' The following object is masked from 'package:base': save autoQC01 module APEX wide nrow: 244574 autoQC01 module APEX long nrow: 342 LGGNEQVTR, TPVISGGPYEYR, LFLQFGAQGSPFLK AUC Warning: Removed 30 rows containing missing values (`geom_point()`). Warning: Removed 3 rows containing missing values (`geom_line()`). input timeRange: 7776000 | timeMin: 2023-10-27 09:59:20.026 | timeMax: 2023-11-17 09:59:20.026 | timeDiff: 1814400 plot_click: p33314/Proteomics/EXPLORIS_2/analytic_20231107/20231107_C33314_012_autoQC01.raw plot_click: p33314/Proteomics/EXPLORIS_2/analytic_20231107/20231107_C33314_012_autoQC01.raw fn has changed to /srv/www/htdocs//p33314/Proteomics/EXPLORIS_2/analytic_20231107/20231107_C33314_012_autoQC01.raw Reading raw file: /srv/www/htdocs//p33314/Proteomics/EXPLORIS_2/analytic_20231107/20231107_C33314_012_autoQC01.raw length = 3 Plotting chromatograms ... plot_click: p33164/Proteomics/EXPLORIS_2/analytic_20231026/20231026_C33164_013_autoQC01.raw plot_click: p33164/Proteomics/EXPLORIS_2/analytic_20231026/20231026_C33164_013_autoQC01.raw fn has changed to /srv/www/htdocs//p33164/Proteomics/EXPLORIS_2/analytic_20231026/20231026_C33164_013_autoQC01.raw Reading raw file: /srv/www/htdocs//p33164/Proteomics/EXPLORIS_2/analytic_20231026/20231026_C33164_013_autoQC01.raw length = 3 Plotting chromatograms ... Warning in predict.lm(fit, data.frame(xc = xx)) : prediction from rank-deficient fit; attr(*, "non-estim") has doubtful cases plot_click: p33164/Proteomics/EXPLORIS_2/analytic_20231026/20231026_C33164_019_autoQC01.raw plot_click: p33164/Proteomics/EXPLORIS_2/analytic_20231026/20231026_C33164_019_autoQC01.raw fn has changed to /srv/www/htdocs//p33164/Proteomics/EXPLORIS_2/analytic_20231026/20231026_C33164_019_autoQC01.raw Reading raw file: /srv/www/htdocs//p33164/Proteomics/EXPLORIS_2/analytic_20231026/20231026_C33164_019_autoQC01.raw length = 3 Plotting chromatograms ... Warning in predict.lm(fit, data.frame(xc = xx)) : prediction from rank-deficient fit; attr(*, "non-estim") has doubtful cases autoQC01 module APEX long nrow: 297 LGGNEQVTR, TPVISGGPYEYR, LFLQFGAQGSPFLK AUC plot_click: Warning: Removed 6 rows containing missing values (`geom_point()`). Warning: Removed 1 row containing missing values (`geom_line()`). plot_click: p33310/Proteomics/QEXACTIVE_1/analytic_20231102/20231102_C33310_010_autoQC01.raw plot_click: p33310/Proteomics/QEXACTIVE_1/analytic_20231102/20231102_C33310_010_autoQC01.raw fn has changed to /srv/www/htdocs//p33310/Proteomics/QEXACTIVE_1/analytic_20231102/20231102_C33310_010_autoQC01.raw Reading raw file: /srv/www/htdocs//p33310/Proteomics/QEXACTIVE_1/analytic_20231102/20231102_C33310_010_autoQC01.raw length = 3 Plotting chromatograms ... plot_click: p33326/Proteomics/QEXACTIVE_1/analytic_20231103/20231103_C33326_006_autoQC01.raw plot_click: p33326/Proteomics/QEXACTIVE_1/analytic_20231103/20231103_C33326_006_autoQC01.raw fn has changed to /srv/www/htdocs//p33326/Proteomics/QEXACTIVE_1/analytic_20231103/20231103_C33326_006_autoQC01.raw Reading raw file: /srv/www/htdocs//p33326/Proteomics/QEXACTIVE_1/analytic_20231103/20231103_C33326_006_autoQC01.raw length = 3 Plotting chromatograms ... input timeRange: 7776000 | timeMin: 2023-10-27 12:03:33.175787 | timeMax: 2023-11-17 11:03:33.176419 | timeDiff: 1814400.00063157 autoQC01 module APEX wide nrow: 244574 autoQC01 module APEX long nrow: 342 LGGNEQVTR, TPVISGGPYEYR, LFLQFGAQGSPFLK AUC Warning: Removed 30 rows containing missing values (`geom_point()`). Warning: Removed 3 rows containing missing values (`geom_line()`). input timeRange: 7776000 | timeMin: 2023-10-27 10:03:33.176 | timeMax: 2023-11-17 10:03:33.176 | timeDiff: 1814400 autoQC01 module APEX long nrow: 1404 LGGNEQVTR, TPVISGGPYEYR, LFLQFGAQGSPFLK AUC Warning: Removed 70 rows containing missing values (`geom_point()`). Warning: Removed 1 row containing missing values (`geom_line()`). input timeRange: 7776000 | timeMin: 2023-08-26 10:03:43.489 | timeMax: 2023-11-17 10:03:33.176 | timeDiff: 7171189.68700004 plot_click: p33000/Proteomics/EXPLORIS_2/analytic_20231004/20231004_C33000_001_autoQC01.raw plot_click: p33000/Proteomics/EXPLORIS_2/analytic_20231004/20231004_C33000_001_autoQC01.raw fn has changed to /srv/www/htdocs//p33000/Proteomics/EXPLORIS_2/analytic_20231004/20231004_C33000_001_autoQC01.raw Reading raw file: /srv/www/htdocs//p33000/Proteomics/EXPLORIS_2/analytic_20231004/20231004_C33000_001_autoQC01.raw length = 3 Plotting chromatograms ... plot_click: p33000/Proteomics/EXPLORIS_2/analytic_20231004/20231004_C33000_001_autoQC01.raw plot_click: p33000/Proteomics/EXPLORIS_2/analytic_20231004/20231004_C33000_001_autoQC01.raw plot_click: plot_click: fn has changed to /srv/www/htdocs//NA plot_click: p32970/Proteomics/EXPLORIS_2/analytic_20231005/20231005_C32970_006_autoQC01.raw plot_click: p32970/Proteomics/EXPLORIS_2/analytic_20231005/20231005_C32970_006_autoQC01.raw fn has changed to /srv/www/htdocs//p32970/Proteomics/EXPLORIS_2/analytic_20231005/20231005_C32970_006_autoQC01.raw Reading raw file: /srv/www/htdocs//p32970/Proteomics/EXPLORIS_2/analytic_20231005/20231005_C32970_006_autoQC01.raw length = 3 Plotting chromatograms ... autoQC01 module APEX long nrow: 1872 LGGNEQVTR, TPVISGGPYEYR, LFLQFGAQGSPFLK, GTFIIDPAAVIR AUC Warning: Removed 99 rows containing missing values (`geom_point()`). Warning: Removed 3 rows containing missing values (`geom_line()`). plot_click: p32970/Proteomics/EXPLORIS_2/analytic_20231005/20231005_C32970_006_autoQC01.raw | plot_click: p32970/Proteomics/EXPLORIS_2/analytic_20231005/20231005_C32970_006_autoQC01.raw Reading raw file: /srv/www/htdocs//p32970/Proteomics/EXPLORIS_2/analytic_20231005/20231005_C32970_006_autoQC01.raw length = 4 Plotting chromatograms ... autoQC01 module APEX long nrow: 2340 LGGNEQVTR, TPVISGGPYEYR, LFLQFGAQGSPFLK, GTFIIDPAAVIR, VEATFGVDESNAK AUC Warning: Removed 121 rows containing missing values (`geom_point()`). Warning: Removed 3 rows containing missing values (`geom_line()`). plot_click: p32970/Proteomics/EXPLORIS_2/analytic_20231005/20231005_C32970_006_autoQC01.raw | plot_click: p32970/Proteomics/EXPLORIS_2/analytic_20231005/20231005_C32970_006_autoQC01.raw Reading raw file: /srv/www/htdocs//p32970/Proteomics/EXPLORIS_2/analytic_20231005/20231005_C32970_006_autoQC01.raw length = 5 Plotting chromatograms ... autoQC01 module APEX long nrow: 2808 LGGNEQVTR, TPVISGGPYEYR, LFLQFGAQGSPFLK, GTFIIDPAAVIR, VEATFGVDESNAK, GAGSSEPVTGLDAK AUC Warning: Removed 143 rows containing missing values (`geom_point()`). Warning: Removed 4 rows containing missing values (`geom_line()`). plot_click: p32970/Proteomics/EXPLORIS_2/analytic_20231005/20231005_C32970_006_autoQC01.raw | plot_click: p32970/Proteomics/EXPLORIS_2/analytic_20231005/20231005_C32970_006_autoQC01.raw Reading raw file: /srv/www/htdocs//p32970/Proteomics/EXPLORIS_2/analytic_20231005/20231005_C32970_006_autoQC01.raw length = 6 Plotting chromatograms ... autoQC01 module APEX long nrow: 3276 LGGNEQVTR, TPVISGGPYEYR, LFLQFGAQGSPFLK, GTFIIDPAAVIR, VEATFGVDESNAK, GAGSSEPVTGLDAK, DGLDAASYYAPVR AUC Warning: Removed 164 rows containing missing values (`geom_point()`). Warning: Removed 5 rows containing missing values (`geom_line()`). plot_click: p32970/Proteomics/EXPLORIS_2/analytic_20231005/20231005_C32970_006_autoQC01.raw | plot_click: p32970/Proteomics/EXPLORIS_2/analytic_20231005/20231005_C32970_006_autoQC01.raw Reading raw file: /srv/www/htdocs//p32970/Proteomics/EXPLORIS_2/analytic_20231005/20231005_C32970_006_autoQC01.raw length = 7 Plotting chromatograms ... autoQC01 module APEX long nrow: 3744 LGGNEQVTR, TPVISGGPYEYR, LFLQFGAQGSPFLK, GTFIIDPAAVIR, VEATFGVDESNAK, GAGSSEPVTGLDAK, DGLDAASYYAPVR, TPVITGAPYEYR AUC Warning: Removed 193 rows containing missing values (`geom_point()`). Warning: Removed 8 rows containing missing values (`geom_line()`). plot_click: p32970/Proteomics/EXPLORIS_2/analytic_20231005/20231005_C32970_006_autoQC01.raw | plot_click: p32970/Proteomics/EXPLORIS_2/analytic_20231005/20231005_C32970_006_autoQC01.raw Reading raw file: /srv/www/htdocs//p32970/Proteomics/EXPLORIS_2/analytic_20231005/20231005_C32970_006_autoQC01.raw length = 8 Plotting chromatograms ... autoQC01 module APEX long nrow: 4212 LGGNEQVTR, TPVISGGPYEYR, LFLQFGAQGSPFLK, GTFIIDPAAVIR, VEATFGVDESNAK, GAGSSEPVTGLDAK, DGLDAASYYAPVR, TPVITGAPYEYR, ADVTPADFSEWSK AUC Warning: Removed 210 rows containing missing values (`geom_point()`). Warning: Removed 9 rows containing missing values (`geom_line()`). plot_click: p32970/Proteomics/EXPLORIS_2/analytic_20231005/20231005_C32970_006_autoQC01.raw | plot_click: p32970/Proteomics/EXPLORIS_2/analytic_20231005/20231005_C32970_006_autoQC01.raw Reading raw file: /srv/www/htdocs//p32970/Proteomics/EXPLORIS_2/analytic_20231005/20231005_C32970_006_autoQC01.raw length = 9 Plotting chromatograms ... autoQC01 module APEX long nrow: 4680 LGGNEQVTR, TPVISGGPYEYR, LFLQFGAQGSPFLK, GTFIIDPAAVIR, VEATFGVDESNAK, GAGSSEPVTGLDAK, DGLDAASYYAPVR, TPVITGAPYEYR, ADVTPADFSEWSK, GTFIIDPGGVIR AUC Warning: Removed 231 rows containing missing values (`geom_point()`). Warning: Removed 10 rows containing missing values (`geom_line()`). plot_click: p32970/Proteomics/EXPLORIS_2/analytic_20231005/20231005_C32970_006_autoQC01.raw | plot_click: p32970/Proteomics/EXPLORIS_2/analytic_20231005/20231005_C32970_006_autoQC01.raw Reading raw file: /srv/www/htdocs//p32970/Proteomics/EXPLORIS_2/analytic_20231005/20231005_C32970_006_autoQC01.raw length = 10 Plotting chromatograms ... autoQC01 module APEX long nrow: 5148 LGGNEQVTR, TPVISGGPYEYR, LFLQFGAQGSPFLK, GTFIIDPAAVIR, VEATFGVDESNAK, GAGSSEPVTGLDAK, DGLDAASYYAPVR, TPVITGAPYEYR, ADVTPADFSEWSK, GTFIIDPGGVIR, YILAGVENSK AUC Warning: Removed 247 rows containing missing values (`geom_point()`). Warning: Removed 12 rows containing missing values (`geom_line()`). Reading raw file: /srv/www/htdocs//p32970/Proteomics/EXPLORIS_2/analytic_20231005/20231005_C32970_006_autoQC01.raw length = 11 Plotting chromatograms ... Warning: Using `size` aesthetic for lines was deprecated in ggplot2 3.4.0. ℹ Please use `linewidth` instead. Warning: Removed 247 rows containing missing values (`geom_point()`). Warning: Removed 12 rows containing missing values (`geom_line()`). autoQC01 module APEX long nrow: 5148 LGGNEQVTR, TPVISGGPYEYR, LFLQFGAQGSPFLK, GTFIIDPAAVIR, VEATFGVDESNAK, GAGSSEPVTGLDAK, DGLDAASYYAPVR, TPVITGAPYEYR, ADVTPADFSEWSK, GTFIIDPGGVIR, YILAGVENSK AUCFWHM Warning: Removed 494 rows containing missing values (`geom_point()`). Warning: Removed 12 rows containing missing values (`geom_line()`). autoQC01 module APEX long nrow: 5148 LGGNEQVTR, TPVISGGPYEYR, LFLQFGAQGSPFLK, GTFIIDPAAVIR, VEATFGVDESNAK, GAGSSEPVTGLDAK, DGLDAASYYAPVR, TPVITGAPYEYR, ADVTPADFSEWSK, GTFIIDPGGVIR, YILAGVENSK AUCFWHMAPEX Warning: Removed 741 rows containing missing values (`geom_point()`). Warning: Removed 12 rows containing missing values (`geom_line()`). autoQC01 module APEX long nrow: 2475 LGGNEQVTR, TPVISGGPYEYR, LFLQFGAQGSPFLK, GTFIIDPAAVIR, VEATFGVDESNAK, GAGSSEPVTGLDAK, DGLDAASYYAPVR, TPVITGAPYEYR, ADVTPADFSEWSK, GTFIIDPGGVIR, YILAGVENSK AUCFWHMAPEX Warning: Removed 492 rows containing missing values (`geom_point()`). Warning: Removed 3 rows containing missing values (`geom_line()`). plot_click: p3000/Proteomics/FUSION_2/chiawei_20231010/20231010_001_autoQC01.raw | plot_click: p3000/Proteomics/FUSION_2/chiawei_20231010/20231010_001_autoQC01.raw plot_click: p3000/Proteomics/FUSION_2/chiawei_20231010/20231010_001_autoQC01.raw | plot_click: p3000/Proteomics/FUSION_2/chiawei_20231010/20231010_001_autoQC01.raw fn has changed to /srv/www/htdocs//p3000/Proteomics/FUSION_2/chiawei_20231010/20231010_001_autoQC01.raw Reading raw file: /srv/www/htdocs//p3000/Proteomics/FUSION_2/chiawei_20231010/20231010_001_autoQC01.raw length = 11 Plotting chromatograms ... Warning in predict.lm(fit, data.frame(xc = xx)) : prediction from rank-deficient fit; attr(*, "non-estim") has doubtful cases Warning in predict.lm(fit, data.frame(xc = xx)) : prediction from rank-deficient fit; attr(*, "non-estim") has doubtful cases plot_click: p32968/Proteomics/FUSION_2/anil_20230926/20230926_001_autoQC01.raw | plot_click: p32968/Proteomics/FUSION_2/anil_20230926/20230926_001_autoQC01.raw plot_click: p32968/Proteomics/FUSION_2/anil_20230926/20230926_001_autoQC01.raw | plot_click: p32968/Proteomics/FUSION_2/anil_20230926/20230926_001_autoQC01.raw fn has changed to /srv/www/htdocs//p32968/Proteomics/FUSION_2/anil_20230926/20230926_001_autoQC01.raw Reading raw file: /srv/www/htdocs//p32968/Proteomics/FUSION_2/anil_20230926/20230926_001_autoQC01.raw length = 11 Plotting chromatograms ... Warning in predict.lm(fit, data.frame(xc = xx)) : prediction from rank-deficient fit; attr(*, "non-estim") has doubtful cases Warning in predict.lm(fit, data.frame(xc = xx)) : prediction from rank-deficient fit; attr(*, "non-estim") has doubtful cases plot_click: p33036/Proteomics/FUSION_2/spindler_20231006/20231006_015_autoQC01.raw plot_click: p33036/Proteomics/FUSION_2/spindler_20231006/20231006_015_autoQC01.raw fn has changed to /srv/www/htdocs//p33036/Proteomics/FUSION_2/spindler_20231006/20231006_015_autoQC01.raw Reading raw file: /srv/www/htdocs//p33036/Proteomics/FUSION_2/spindler_20231006/20231006_015_autoQC01.raw length = 11 Plotting chromatograms ... Warning in predict.lm(fit, data.frame(xc = xx)) : prediction from rank-deficient fit; attr(*, "non-estim") has doubtful cases plot_click: p3000/Proteomics/FUSION_2/chiawei_20231010/20231010_002_autoQC01.raw plot_click: p3000/Proteomics/FUSION_2/chiawei_20231010/20231010_002_autoQC01.raw fn has changed to /srv/www/htdocs//p3000/Proteomics/FUSION_2/chiawei_20231010/20231010_002_autoQC01.raw Reading raw file: /srv/www/htdocs//p3000/Proteomics/FUSION_2/chiawei_20231010/20231010_002_autoQC01.raw length = 11 Plotting chromatograms ... Warning in predict.lm(fit, data.frame(xc = xx)) : prediction from rank-deficient fit; attr(*, "non-estim") has doubtful cases Warning in predict.lm(fit, data.frame(xc = xx)) : prediction from rank-deficient fit; attr(*, "non-estim") has doubtful cases Warning: Error in if: missing value where TRUE/FALSE needed 1: runApp input timeRange: 1209600 | timeMin: 2023-11-10 11:22:17.188912 | timeMax: 2023-11-17 11:22:17.188985 | timeDiff: 604800.000072718 input timeRange: 7776000 | timeMin: 2023-10-27 12:22:19.409311 | timeMax: 2023-11-17 11:22:19.40993 | timeDiff: 1814400.00061989 autoQC01 module APEX wide nrow: 244574 autoQC01 module APEX long nrow: 342 LGGNEQVTR, TPVISGGPYEYR, LFLQFGAQGSPFLK AUC Warning: Removed 30 rows containing missing values (`geom_point()`). Warning: Removed 3 rows containing missing values (`geom_line()`). input timeRange: 7776000 | timeMin: 2023-10-27 10:22:19.409 | timeMax: 2023-11-17 10:22:19.41 | timeDiff: 1814400.00100017 input timeRange: 7776000 | timeMin: 2023-10-27 12:24:39.461726 | timeMax: 2023-11-17 11:24:39.462361 | timeDiff: 1814400.00063491 autoQC01 module APEX wide nrow: 244574 autoQC01 module APEX long nrow: 342 LGGNEQVTR, TPVISGGPYEYR, LFLQFGAQGSPFLK AUC Warning: Removed 30 rows containing missing values (`geom_point()`). Warning: Removed 3 rows containing missing values (`geom_line()`). input timeRange: 7776000 | timeMin: 2023-10-27 10:24:39.462 | timeMax: 2023-11-17 10:24:39.462 | timeDiff: 1814400 input timeRange: 7776000 | timeMin: 2023-10-27 12:24:45.769504 | timeMax: 2023-11-17 11:24:45.774117 | timeDiff: 1814400.00461221 autoQC01 module APEX wide nrow: 244574 autoQC01 module APEX long nrow: 342 LGGNEQVTR, TPVISGGPYEYR, LFLQFGAQGSPFLK AUC Warning: Removed 30 rows containing missing values (`geom_point()`). Warning: Removed 3 rows containing missing values (`geom_line()`). input timeRange: 7776000 | timeMin: 2023-10-27 10:24:45.77 | timeMax: 2023-11-17 10:24:45.774 | timeDiff: 1814400.00399995 autoQC01 module APEX long nrow: 657 LGGNEQVTR, TPVISGGPYEYR, LFLQFGAQGSPFLK AUC Warning: Removed 44 rows containing missing values (`geom_point()`). input timeRange: 7776000 | timeMin: 2023-10-11 10:24:45.662 | timeMax: 2023-11-17 10:24:39.462 | timeDiff: 3196793.79999995