Listening on http://127.0.0.1:42907

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
Warning in dir.create(path) :
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nFacets: 4
Warning: Error in if: argument is of length zero
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input timeRange: 7776000 | timeMin: 2024-08-15 13:29:16.258034 | timeMax: 2024-10-14 13:29:16.258632 | timeDiff: 5184000.00059772
Loading required package: bfabricShiny

Attaching package: 'bfabricShiny'

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nFacets: 4
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   1: runApp
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)
input timeRange: 7776000 | timeMin: 2024-08-15 11:29:16.25803 | timeMax: 2024-10-14 11:29:16.25863 | timeDiff: 5184000.00059986
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vals$rawrr: FALSE
vals$rawDiag: FALSE
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    1: runApp
nrow dataFiltered(): 288
Warning: Error in .ggplot: !is.null(variables) is not TRUE
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nrow dataFiltered(): 288
Loading required package: ggh4x
Loading required package: ggplot2

Attaching package: 'ggh4x'

The following object is masked from 'package:ggplot2':

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using 'ggh4x' package ...
nrow dataFiltered(): 182
Warning in mean.default(sort(x, partial = half + 0L:1L)[half + 0L:1L]) :
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Warning: Error in *: non-numeric argument to binary operator
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nrow dataFiltered(): 182
Warning in mean.default(sort(x, partial = half + 0L:1L)[half + 0L:1L]) :
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Warning: Error in *: non-numeric argument to binary operator
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using 'ggh4x' package ...
Warning in dir.create(path) :
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nFacets: 4
Warning: Error in if: argument is of length zero
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input timeRange: 7776000 | timeMin: 2024-08-15 14:26:27.769101 | timeMax: 2024-10-14 14:26:27.769685 | timeDiff: 5184000.00058413
nFacets: 4
Warning: Error in if: argument is of length zero
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nFacets: 4
vals$rawrr: FALSE
vals$rawDiag: FALSE
nrow dataFiltered(): 1200
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nrow dataFiltered(): 1200
using 'ggh4x' package ...
input timeRange: 7776000 | timeMin: 2024-08-15 12:26:27.769 | timeMax: 2024-10-14 12:26:27.77 | timeDiff: 5184000.00099993
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nrow dataFiltered(): 1200
using 'ggh4x' package ...
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)
Warning in file(con, "w") :
  cannot open file 'logs-qc//shinylogs_fgczqcms-dashboard_1728905351970029000.json': No such file or directory
Warning: Error in file: cannot open the connection
  34: file
  33: writeLines
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  31: write_logs_json
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  29: callback
   1: runApp
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vals$rawrr: FALSE
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nrow dataFiltered(): 182
Warning: Error in .ggplot: !is.null(variables) is not TRUE
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    1: runApp
nrow dataFiltered(): 288
Warning: Error in .ggplot: !is.null(variables) is not TRUE
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    1: runApp
nrow dataFiltered(): 288
using 'ggh4x' package ...
nrow dataFiltered(): 182
using 'ggh4x' package ...
Warning: One or more parsing issues, call `problems()` on your data frame for
details, e.g.:
  dat <- vroom(...)
  problems(dat)
autoQC01 module APEX wide nrow: 280874
autoQC01 module APEX long nrow: 0
LGGNEQVTR, TPVISGGPYEYR, LFLQFGAQGSPFLK
APEXAUC.lg2
autoQC01 module APEX long nrow: 900
LGGNEQVTR, TPVISGGPYEYR, LFLQFGAQGSPFLK
APEXAUC.lg2
Warning: Removed 2 rows containing missing values or values outside the scale
range (`geom_point()`).
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using 'ggh4x' package ...
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using 'ggh4x' package ...
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nrow dataFiltered(): 1376
using 'ggh4x' package ...
NA
Warning in dir.create(path) :
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nFacets: 4
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input timeRange: 7776000 | timeMin: 2024-08-15 15:19:18.98497 | timeMax: 2024-10-14 15:19:18.985549 | timeDiff: 5184000.00057912
nFacets: 4
Warning: Error in if: argument is of length zero
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nFacets: 4
vals$rawrr: FALSE
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nrow dataFiltered(): 1312
Warning: Error in .ggplot: !is.null(variables) is not TRUE
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    1: runApp
nrow dataFiltered(): 1312
using 'ggh4x' package ...
input timeRange: 7776000 | timeMin: 2024-08-15 13:19:18.985 | timeMax: 2024-10-14 13:19:18.986 | timeDiff: 5184000.00100017
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nrow dataFiltered(): 1312
using 'ggh4x' package ...
p3000/Proteomics/LUMOS_2/pgehrig_20241009_autoQC/20241011_009_autoQC01.raw
NA
Warning in file(con, "w") :
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Warning: Error in file: cannot open the connection
  34: file
  33: writeLines
  32: jsonlite::write_json
  31: write_logs_json
  30: write_logs
  29: callback
   1: runApp
Warning in dir.create(path) :
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fn has changed to NA
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nFacets: 4
Warning: Error in if: argument is of length zero
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Warning: Error in if: argument is of length zero
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nFacets: 4
input timeRange: 7776000 | timeMin: 2024-08-15 13:30:25.013 | timeMax: 2024-10-14 13:30:25.014 | timeDiff: 5184000.00099993
nFacets: 4
vals$rawrr: FALSE
vals$rawDiag: FALSE
nrow dataFiltered(): 1200
Warning: Error in .ggplot: !is.null(variables) is not TRUE
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    1: runApp
nrow dataFiltered(): 1200
using 'ggh4x' package ...
Warning in file(con, "w") :
  cannot open file 'logs-qc//shinylogs_fgczqcms-dashboard_1728908783994717000.json': No such file or directory
Warning: Error in file: cannot open the connection
  34: file
  33: writeLines
  32: jsonlite::write_json
  31: write_logs_json
  30: write_logs
  29: callback
   1: runApp
Warning in dir.create(path) :
  cannot create dir 'logs-qc', reason 'Permission denied'
fn has changed to NA
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fn has changed to NA
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nFacets: 4
Warning: Error in if: argument is of length zero
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   1: runApp
input timeRange: 7776000 | timeMin: 2024-08-15 16:24:42.80785 | timeMax: 2024-10-14 16:24:42.808432 | timeDiff: 5184000.00058222
nFacets: 4
Warning: Error in if: argument is of length zero
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   1: runApp
nFacets: 4
vals$rawrr: FALSE
vals$rawDiag: FALSE
nrow dataFiltered(): 1312
Warning: Error in .ggplot: !is.null(variables) is not TRUE
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using 'ggh4x' package ...
input timeRange: 7776000 | timeMin: 2024-08-15 14:24:42.808 | timeMax: 2024-10-14 14:24:42.808 | timeDiff: 5184000
nFacets: 4
nrow dataFiltered(): 1312
using 'ggh4x' package ...
Warning in dir.create(path) :
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nFacets: 4
Warning: Error in if: argument is of length zero
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   1: runApp
input timeRange: 7776000 | timeMin: 2024-08-15 16:25:46.34153 | timeMax: 2024-10-14 16:25:46.342129 | timeDiff: 5184000.00059915
nFacets: 4
Warning: Error in if: argument is of length zero
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   1: runApp
nFacets: 4
vals$rawrr: FALSE
vals$rawDiag: FALSE
nrow dataFiltered(): 1200
Warning: Error in .ggplot: !is.null(variables) is not TRUE
  173: <Anonymous>
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    1: runApp
nrow dataFiltered(): 1200
using 'ggh4x' package ...
input timeRange: 7776000 | timeMin: 2024-08-15 14:25:46.342 | timeMax: 2024-10-14 14:25:46.342 | timeDiff: 5184000
nFacets: 4
nrow dataFiltered(): 1200
using 'ggh4x' package ...
nFacets: 4
nrow dataFiltered(): 1312
using 'ggh4x' package ...
nFacets: 4
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)
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vals$rawrr: FALSE
vals$rawDiag: FALSE
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Warning: Error in .ggplot: !is.null(variables) is not TRUE
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    1: runApp
nrow dataFiltered(): 288
Warning: Error in .ggplot: !is.null(variables) is not TRUE
  173: <Anonymous>
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using 'ggh4x' package ...
nrow dataFiltered(): 988
using 'ggh4x' package ...
nFacets: 4
nrow dataFiltered(): 768
using 'ggh4x' package ...
input timeRange: 31536000 | timeMin: 2024-08-15 14:24:42.808 | timeMax: 2024-10-14 16:26:10.651435 | timeDiff: 5184087.84343529
nFacets: 4
nrow dataFiltered(): 768
using 'ggh4x' package ...
input timeRange: 31536000 | timeMin: 2024-08-15 14:24:42.808 | timeMax: 2024-10-14 14:26:10.651 | timeDiff: 5184087.84299994
nFacets: 4
nrow dataFiltered(): 768
using 'ggh4x' package ...
input timeRange: 31536000 | timeMin: 2024-08-15 14:25:46.342 | timeMax: 2024-10-14 16:26:15.439342 | timeDiff: 5184029.09734178
nFacets: 4
nrow dataFiltered(): 988
using 'ggh4x' package ...
nFacets: 1
nrow dataFiltered(): 288
using 'ggh4x' package ...
input timeRange: 31536000 | timeMin: 2024-08-15 14:25:46.342 | timeMax: 2024-10-14 14:26:15.439 | timeDiff: 5184029.09699988
nFacets: 4
nrow dataFiltered(): 988
using 'ggh4x' package ...
nFacets: 1
nrow dataFiltered(): 288
using 'ggh4x' package ...
nFacets: 4
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
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Warning: Error in .ggplot: !is.null(variables) is not TRUE
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    1: runApp
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Warning: Error in .ggplot: !is.null(variables) is not TRUE
  173: <Anonymous>
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using 'ggh4x' package ...
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using 'ggh4x' package ...
NA
input timeRange: 31536000 | timeMin: 2023-12-24 14:26:18.979 | timeMax: 2024-10-14 14:26:10.651 | timeDiff: 25487991.6719999
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using 'ggh4x' package ...
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using 'ggh4x' package ...
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using 'ggh4x' package ...
`geom_line()`: Each group consists of only one observation.
ℹ Do you need to adjust the group aesthetic?
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nrow dataFiltered(): 1404
using 'ggh4x' package ...
nrow dataFiltered(): 2808
using 'ggh4x' package ...
`geom_line()`: Each group consists of only one observation.
ℹ Do you need to adjust the group aesthetic?
nrow dataFiltered(): 1404
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nrow dataFiltered(): 3354
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p3000/Proteomics/LUMOS_1/pgehrig_20240422_autoQC/20240930_04_autoQC03dda_flex_new_Quad.raw
NA
p3000/Proteomics/LUMOS_1/pgehrig_20240422_autoQC/20240930_04_autoQC03dda_flex_new_Quad.raw
NA
p26109/Proteomics/LUMOS_1/andreaf_20240621_M3Training/20240621_013_autoQC03dia.raw
NA
NA
NA
p35114/Proteomics/LUMOS_2/analytic_20240516/20240516_C35114_015_autoQC03dda.raw
plotClick: 
fn has changed to /srv/www/htdocs//p35114/Proteomics/LUMOS_2/analytic_20240516/20240516_C35114_015_autoQC03dda.raw
NA
p35114/Proteomics/LUMOS_2/analytic_20240516/20240516_C35114_015_autoQC03dda.raw
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NA
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using 'ggh4x' package ...
`geom_line()`: Each group consists of only one observation.
ℹ Do you need to adjust the group aesthetic?
nrow dataFiltered(): 1404
using 'ggh4x' package ...
nrow dataFiltered(): 3354
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nrow dataFiltered(): 1314
using 'ggh4x' package ...
nrow dataFiltered(): 2808
using 'ggh4x' package ...
`geom_line()`: Each group consists of only one observation.
ℹ Do you need to adjust the group aesthetic?
nrow dataFiltered(): 1404
using 'ggh4x' package ...
nrow dataFiltered(): 3354
using 'ggh4x' package ...
nrow dataFiltered(): 1314
using 'ggh4x' package ...
nrow dataFiltered(): 2808
using 'ggh4x' package ...
`geom_line()`: Each group consists of only one observation.
ℹ Do you need to adjust the group aesthetic?
nrow dataFiltered(): 1404
using 'ggh4x' package ...
nrow dataFiltered(): 3354
using 'ggh4x' package ...
nrow dataFiltered(): 1314
using 'ggh4x' package ...
nrow dataFiltered(): 2808
using 'ggh4x' package ...
`geom_line()`: Each group consists of only one observation.
ℹ Do you need to adjust the group aesthetic?
nrow dataFiltered(): 1404
using 'ggh4x' package ...
nrow dataFiltered(): 3354
using 'ggh4x' package ...
nrow dataFiltered(): 1314
using 'ggh4x' package ...
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using 'ggh4x' package ...
`geom_line()`: Each group consists of only one observation.
ℹ Do you need to adjust the group aesthetic?
nrow dataFiltered(): 1404
using 'ggh4x' package ...
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nrow dataFiltered(): 1314
using 'ggh4x' package ...
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using 'ggh4x' package ...
`geom_line()`: Each group consists of only one observation.
ℹ Do you need to adjust the group aesthetic?
nrow dataFiltered(): 1404
using 'ggh4x' package ...
nrow dataFiltered(): 3354
using 'ggh4x' package ...
nrow dataFiltered(): 1314
using 'ggh4x' package ...
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using 'ggh4x' package ...
`geom_line()`: Each group consists of only one observation.
ℹ Do you need to adjust the group aesthetic?
nrow dataFiltered(): 1404
using 'ggh4x' package ...
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using 'ggh4x' package ...
nrow dataFiltered(): 1314
using 'ggh4x' package ...
nrow dataFiltered(): 2808
using 'ggh4x' package ...
`geom_line()`: Each group consists of only one observation.
ℹ Do you need to adjust the group aesthetic?
nrow dataFiltered(): 1404
using 'ggh4x' package ...
nrow dataFiltered(): 2808
using 'ggh4x' package ...
`geom_line()`: Each group consists of only one observation.
ℹ Do you need to adjust the group aesthetic?
nrow dataFiltered(): 1404
using 'ggh4x' package ...
nrow dataFiltered(): 3354
using 'ggh4x' package ...
nrow dataFiltered(): 1314
using 'ggh4x' package ...
nrow dataFiltered(): 2808
using 'ggh4x' package ...
`geom_line()`: Each group consists of only one observation.
ℹ Do you need to adjust the group aesthetic?
nrow dataFiltered(): 1404
using 'ggh4x' package ...
nrow dataFiltered(): 3354
using 'ggh4x' package ...
nrow dataFiltered(): 1314
using 'ggh4x' package ...
nrow dataFiltered(): 2808
using 'ggh4x' package ...
`geom_line()`: Each group consists of only one observation.
ℹ Do you need to adjust the group aesthetic?
nrow dataFiltered(): 1404
using 'ggh4x' package ...
nrow dataFiltered(): 3354
using 'ggh4x' package ...
nrow dataFiltered(): 1314
using 'ggh4x' package ...
nrow dataFiltered(): 2808
using 'ggh4x' package ...
`geom_line()`: Each group consists of only one observation.
ℹ Do you need to adjust the group aesthetic?
nrow dataFiltered(): 1404
using 'ggh4x' package ...
nrow dataFiltered(): 3354
using 'ggh4x' package ...
nrow dataFiltered(): 1314
using 'ggh4x' package ...
p3000/Proteomics/LUMOS_2/analytic_20220104_autoQC/20211221_C3000_007_autoQC4L.raw
p3000/Proteomics/LUMOS_2/cfortes_20240115/20240115_003_autoQC03dda.raw
NA
plotClick: 
fn has changed to /srv/www/htdocs//p34067/Proteomics/LUMOS_1/vismi_20240130/20240130_009_autoQC03dda.raw
p34067/Proteomics/LUMOS_1/vismi_20240130/20240130_009_autoQC03dda.raw
NA
p3000/Proteomics/LUMOS_1/pgehrig_20241008_autoQC/20241010_09_autoQC03dda_from_scratch.raw
NA
p3000/Proteomics/LUMOS_1/pgehrig_20240422_autoQC/20240607_30_autoQC03dda.raw
NA
p3000/Proteomics/LUMOS_2/pgehrig_20241009_autoQC/20241011_004_autoQC03dda.raw
p3000/Proteomics/LUMOS_2/pgehrig_20241009_autoQC/20241011_002_autoQC03dda.raw
p3000/Proteomics/LUMOS_2/pgehrig_20241009_autoQC/20241011_004_autoQC03dda.raw
NA
p3000/Proteomics/LUMOS_2/analytics_20240819/20241008_014_autoQC03dda.raw
NA
p3000/Proteomics/LUMOS_2/pgehrig_20241009_autoQC/20241011_002_autoQC03dda.raw
p3000/Proteomics/LUMOS_2/pgehrig_20241009_autoQC/20241011_004_autoQC03dda.raw
p3000/Proteomics/LUMOS_2/pgehrig_20241009_autoQC/20241011_002_autoQC03dda.raw
p3000/Proteomics/LUMOS_2/pgehrig_20241009_autoQC/20241011_002_autoQC03dda.raw
p3000/Proteomics/LUMOS_2/pgehrig_20241009_autoQC/20241011_004_autoQC03dda.raw
NA
NA
Warning in dir.create(path) :
  cannot create dir 'logs-qc', reason 'Permission denied'
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$__autoQC01__-ui
   1: runApp
input timeRange: 7776000 | timeMin: 2024-08-15 16:57:07.957049 | timeMax: 2024-10-14 16:57:07.957632 | timeDiff: 5184000.00058293
nFacets: 4
Warning: Error in if: argument is of length zero
  97: renderUI
  96: func
  83: renderFunc
  82: output$__autoQC01__-ui
   1: runApp
nFacets: 4
vals$rawrr: FALSE
vals$rawDiag: FALSE
nrow dataFiltered(): 1136
Warning: Error in .ggplot: !is.null(variables) is not TRUE
  173: <Anonymous>
  172: stop
  171: stopifnot
  170: .ggplot
  169: ggplot2FUN
  168: renderPlot
  166: func
  126: drawPlot
  112: <reactive:plotObj>
   96: drawReactive
   83: renderFunc
   82: output$__autoQC01__-plot
    1: runApp
nrow dataFiltered(): 1136
using 'ggh4x' package ...
Warning: Removed 3 rows containing missing values or values outside the scale
range (`geom_point()`).
input timeRange: 7776000 | timeMin: 2024-08-15 14:57:07.957 | timeMax: 2024-10-14 14:57:07.958 | timeDiff: 5184000.00099993
nFacets: 4
nrow dataFiltered(): 1136
using 'ggh4x' package ...
Warning: Removed 3 rows containing missing values or values outside the scale
range (`geom_point()`).
nFacets: 1
reading /scratch/DIAQC/qc/dump/autoQC03-diann.txt
Warning: One or more parsing issues, call `problems()` on your data frame for
details, e.g.:
  dat <- vroom(...)
  problems(dat)
nFacets: 1
vals$rawrr: FALSE
vals$rawDiag: FALSE
vals$rawrr: FALSE
vals$rawDiag: FALSE
nrow dataFiltered(): 286
Warning: Error in .ggplot: !is.null(variables) is not TRUE
  173: <Anonymous>
  172: stop
  171: stopifnot
  170: .ggplot
  169: ggplot2FUN
  168: renderPlot
  166: func
  126: drawPlot
  112: <reactive:plotObj>
   96: drawReactive
   83: renderFunc
   82: output$autoQC03-DDA-plot
    1: runApp
nrow dataFiltered(): 198
Warning: Error in .ggplot: !is.null(variables) is not TRUE
  173: <Anonymous>
  172: stop
  171: stopifnot
  170: .ggplot
  169: ggplot2FUN
  168: renderPlot
  166: func
  126: drawPlot
  112: <reactive:plotObj>
   96: drawReactive
   83: renderFunc
   82: output$autoQC03-DIA-plot
    1: runApp
nrow dataFiltered(): 198
using 'ggh4x' package ...
nrow dataFiltered(): 286
using 'ggh4x' package ...
p3000/Proteomics/EXPLORIS_1/lkunz_20241014/20241014_002_autoQC03dda.raw
nrow dataFiltered(): 286
Warning: Error in .ggplot: !is.null(variables) is not TRUE
  173: <Anonymous>
  172: stop
  171: stopifnot
  170: .ggplot
  169: ggplot2FUN
  168: renderPlot
  166: func
  126: drawPlot
  112: <reactive:plotObj>
   96: drawReactive
   83: renderFunc
   82: output$autoQC03-DDA-plot
    1: runApp
nrow dataFiltered(): 286
using 'ggh4x' package ...
Warning in file(con, "w") :
  cannot open file 'logs-qc//shinylogs_fgczqcms-dashboard_1728917824536654000.json': No such file or directory
Warning: Error in file: cannot open the connection
  34: file
  33: writeLines
  32: jsonlite::write_json
  31: write_logs_json
  30: write_logs
  29: callback
   1: runApp
Warning in file(con, "w") :
  cannot open file 'logs-qc//shinylogs_fgczqcms-dashboard_1728915942908935000.json': No such file or directory
Warning: Error in file: cannot open the connection
  34: file
  33: writeLines
  32: jsonlite::write_json
  31: write_logs_json
  30: write_logs
  29: callback
   1: runApp
Warning in file(con, "w") :
  cannot open file 'logs-qc//shinylogs_fgczqcms-dashboard_1728915879132125000.json': No such file or directory
Warning: Error in file: cannot open the connection
  34: file
  33: writeLines
  32: jsonlite::write_json
  31: write_logs_json
  30: write_logs
  29: callback
   1: runApp
Warning in dir.create(path) :
  cannot create dir 'logs-qc', reason 'Permission denied'
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$__autoQC01__-ui
   1: runApp
Warning: Error in if: missing value where TRUE/FALSE needed
  1: runApp
input timeRange: 1209600 | timeMin: 2024-10-08 09:58:03.975942 | timeMax: 2024-10-15 09:58:03.975986 | timeDiff: 604800.000043631
nFacets: 4
Warning: Error in if: argument is of length zero
  97: renderUI
  96: func
  83: renderFunc
  82: output$__autoQC01__-ui
   1: runApp
Warning in file(con, "w") :
  cannot open file 'logs-qc//shinylogs_fgczqcms-dashboard_1728979083970570000.json': No such file or directory
Warning: Error in file: cannot open the connection
  34: file
  33: writeLines
  32: jsonlite::write_json
  31: write_logs_json
  30: write_logs
  29: callback
   1: runApp
Warning in dir.create(path) :
  cannot create dir 'logs-qc', reason 'Permission denied'
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$__autoQC01__-ui
   1: runApp
input timeRange: 7776000 | timeMin: 2024-08-16 10:14:08.275825 | timeMax: 2024-10-15 10:14:08.276419 | timeDiff: 5184000.00059438
nFacets: 4
Warning: Error in if: argument is of length zero
  97: renderUI
  96: func
  83: renderFunc
  82: output$__autoQC01__-ui
   1: runApp
nFacets: 4
vals$rawrr: FALSE
vals$rawDiag: FALSE
nrow dataFiltered(): 768
Warning: Error in .ggplot: !is.null(variables) is not TRUE
  173: <Anonymous>
  172: stop
  171: stopifnot
  170: .ggplot
  169: ggplot2FUN
  168: renderPlot
  166: func
  126: drawPlot
  112: <reactive:plotObj>
   96: drawReactive
   83: renderFunc
   82: output$__autoQC01__-plot
    1: runApp
nrow dataFiltered(): 768
using 'ggh4x' package ...
Warning: Removed 38 rows containing missing values or values outside the scale
range (`geom_point()`).
Warning: Removed 10 rows containing missing values or values outside the scale
range (`geom_line()`).
input timeRange: 7776000 | timeMin: 2024-08-16 08:14:08.276 | timeMax: 2024-10-15 08:14:08.276 | timeDiff: 5184000
nFacets: 4
nrow dataFiltered(): 768
using 'ggh4x' package ...
Warning: Removed 38 rows containing missing values or values outside the scale
range (`geom_point()`).
Warning: Removed 10 rows containing missing values or values outside the scale
range (`geom_line()`).
NA
p36531/Proteomics/QEXACTIVE_1/analytic_20241009/20241009_C36531_003_autoQC01.raw
p36531/Proteomics/QEXACTIVE_1/analytic_20241009/20241009_C36531_006_autoQC01.raw
p36531/Proteomics/QEXACTIVE_1/analytic_20241009/20241009_C36531_006_autoQC01.raw
NA
p36531/Proteomics/QEXACTIVE_1/analytic_20241008/20241008_C36531_001_autoQC01.raw
NA
nFacets: 1
reading /scratch/DIAQC/qc/dump/autoQC03-diann.txt
Warning: One or more parsing issues, call `problems()` on your data frame for
details, e.g.:
  dat <- vroom(...)
  problems(dat)
nFacets: 1
vals$rawrr: FALSE
vals$rawDiag: FALSE
vals$rawrr: FALSE
vals$rawDiag: FALSE
nrow dataFiltered(): 299
Warning: Error in .ggplot: !is.null(variables) is not TRUE
  173: <Anonymous>
  172: stop
  171: stopifnot
  170: .ggplot
  169: ggplot2FUN
  168: renderPlot
  166: func
  126: drawPlot
  112: <reactive:plotObj>
   96: drawReactive
   83: renderFunc
   82: output$autoQC03-DDA-plot
    1: runApp
nrow dataFiltered(): 0
nrow dataFiltered(): 0
nrow dataFiltered(): 299
using 'ggh4x' package ...
NA
nrow dataFiltered(): 299
using 'ggh4x' package ...
Warning in dir.create(path) :
  cannot create dir 'logs-qc', reason 'Permission denied'
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$__autoQC01__-ui
   1: runApp
input timeRange: 7776000 | timeMin: 2024-08-16 16:43:32.365732 | timeMax: 2024-10-15 16:43:32.366324 | timeDiff: 5184000.00059199
nFacets: 4
Warning: Error in if: argument is of length zero
  97: renderUI
  96: func
  83: renderFunc
  82: output$__autoQC01__-ui
   1: runApp
nFacets: 0
Warning: Error in if: argument is of length zero
  97: renderUI
  96: func
  83: renderFunc
  82: output$autoQC03-DDA-ui
   1: runApp
reading /scratch/DIAQC/qc/dump/autoQC03-diann.txt
Warning: One or more parsing issues, call `problems()` on your data frame for
details, e.g.:
  dat <- vroom(...)
  problems(dat)
nFacets: 1
Warning: Error in if: argument is of length zero
  97: renderUI
  96: func
  83: renderFunc
  82: output$autoQC03-DIA-ui
   1: runApp
nFacets: 4
nFacets: 1
vals$rawrr: FALSE
vals$rawDiag: FALSE
vals$rawrr: FALSE
vals$rawDiag: FALSE
nrow dataFiltered(): 260
Warning: Error in .ggplot: !is.null(variables) is not TRUE
  173: <Anonymous>
  172: stop
  171: stopifnot
  170: .ggplot
  169: ggplot2FUN
  168: renderPlot
  166: func
  126: drawPlot
  112: <reactive:plotObj>
   96: drawReactive
   83: renderFunc
   82: output$autoQC03-DDA-plot
    1: runApp
nrow dataFiltered(): 234
Warning: Error in .ggplot: !is.null(variables) is not TRUE
  173: <Anonymous>
  172: stop
  171: stopifnot
  170: .ggplot
  169: ggplot2FUN
  168: renderPlot
  166: func
  126: drawPlot
  112: <reactive:plotObj>
   96: drawReactive
   83: renderFunc
   82: output$autoQC03-DIA-plot
    1: runApp
nrow dataFiltered(): 234
using 'ggh4x' package ...
nrow dataFiltered(): 260
using 'ggh4x' package ...
input timeRange: 7776000 | timeMin: 2024-08-16 14:43:32.36573 | timeMax: 2024-10-15 14:43:32.36632 | timeDiff: 5184000.00059009
nFacets: 4
nrow dataFiltered(): 260
using 'ggh4x' package ...
nFacets: 1
nrow dataFiltered(): 234
using 'ggh4x' package ...
input timeRange: 7776000 | timeMin: 2024-08-16 14:43:32.366 | timeMax: 2024-10-15 14:43:32.366 | timeDiff: 5184000
nFacets: 4
nrow dataFiltered(): 260
using 'ggh4x' package ...
nFacets: 1
nrow dataFiltered(): 234
using 'ggh4x' package ...
p36507/Proteomics/FUSION_2/analytic_20241008/20241014_C36507_005_autoQC03dia.raw
Warning in dir.create(path) :
  cannot create dir 'logs-qc', reason 'Permission denied'
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$__autoQC01__-ui
   1: runApp
input timeRange: 7776000 | timeMin: 2024-08-17 11:08:10.51467 | timeMax: 2024-10-16 11:08:10.515252 | timeDiff: 5184000.00058222
nFacets: 4
Warning: Error in if: argument is of length zero
  97: renderUI
  96: func
  83: renderFunc
  82: output$__autoQC01__-ui
   1: runApp
nFacets: 4
vals$rawrr: FALSE
vals$rawDiag: FALSE
nrow dataFiltered(): 1040
Warning: Error in .ggplot: !is.null(variables) is not TRUE
  173: <Anonymous>
  172: stop
  171: stopifnot
  170: .ggplot
  169: ggplot2FUN
  168: renderPlot
  166: func
  126: drawPlot
  112: <reactive:plotObj>
   96: drawReactive
   83: renderFunc
   82: output$__autoQC01__-plot
    1: runApp
nrow dataFiltered(): 1040
using 'ggh4x' package ...
Warning: Removed 3 rows containing missing values or values outside the scale
range (`geom_point()`).
input timeRange: 7776000 | timeMin: 2024-08-17 09:08:10.515 | timeMax: 2024-10-16 09:08:10.515 | timeDiff: 5184000
nFacets: 4
nrow dataFiltered(): 1040
using 'ggh4x' package ...
Warning: Removed 3 rows containing missing values or values outside the scale
range (`geom_point()`).
p28115/Proteomics/EXPLORIS_1/wzhong_20241015_main_trial1_Oct16/20241015_001_autoQC01.raw
NA
vals$rawrr: TRUE
p28115/Proteomics/EXPLORIS_1/wzhong_20241015_main_trial1_Oct16/20241015_001_autoQC01.raw
plotClick: 
fn has changed to /srv/www/htdocs//p28115/Proteomics/EXPLORIS_1/wzhong_20241015_main_trial1_Oct16/20241015_001_autoQC01.raw
Reading raw file: /srv/www/htdocs//p28115/Proteomics/EXPLORIS_1/wzhong_20241015_main_trial1_Oct16/20241015_001_autoQC01.raw
Plotting chromatograms ...
Read 22032 items
Warning in dir.create(path) :
  cannot create dir 'logs-qc', reason 'Permission denied'
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$__autoQC01__-ui
   1: runApp
input timeRange: 7776000 | timeMin: 2024-08-17 11:18:43.816159 | timeMax: 2024-10-16 11:18:43.816739 | timeDiff: 5184000.00058007
nFacets: 4
Warning: Error in if: argument is of length zero
  97: renderUI
  96: func
  83: renderFunc
  82: output$__autoQC01__-ui
   1: runApp
nFacets: 4
input timeRange: 7776000 | timeMin: 2024-08-17 09:18:43.816 | timeMax: 2024-10-16 09:18:43.817 | timeDiff: 5184000.00099993
nFacets: 4
Warning in file(con, "w") :
  cannot open file 'logs-qc//shinylogs_fgczqcms-dashboard_1729070320361957000.json': No such file or directory
Warning: Error in file: cannot open the connection
  34: file
  33: writeLines
  32: jsonlite::write_json
  31: write_logs_json
  30: write_logs
  29: callback
   1: runApp
Warning in dir.create(path) :
  cannot create dir 'logs-qc', reason 'Permission denied'
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$__autoQC01__-ui
   1: runApp
input timeRange: 7776000 | timeMin: 2024-08-17 11:21:50.473312 | timeMax: 2024-10-16 11:21:50.473936 | timeDiff: 5184000.0006237
nFacets: 4
Warning: Error in if: argument is of length zero
  97: renderUI
  96: func
  83: renderFunc
  82: output$__autoQC01__-ui
   1: runApp
Warning in file(con, "w") :
  cannot open file 'logs-qc//shinylogs_fgczqcms-dashboard_1729070507025343000.json': No such file or directory
Warning: Error in file: cannot open the connection
  34: file
  33: writeLines
  32: jsonlite::write_json
  31: write_logs_json
  30: write_logs
  29: callback
   1: runApp
Warning in file(con, "w") :
  cannot open file 'logs-qc//shinylogs_fgczqcms-dashboard_1729003408941748000.json': No such file or directory
Warning: Error in file: cannot open the connection
  34: file
  33: writeLines
  32: jsonlite::write_json
  31: write_logs_json
  30: write_logs
  29: callback
   1: runApp
Warning in dir.create(path) :
  cannot create dir 'logs-qc', reason 'Permission denied'
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$__autoQC01__-ui
   1: runApp
input timeRange: 7776000 | timeMin: 2024-08-17 13:26:53.766126 | timeMax: 2024-10-16 13:26:53.766722 | timeDiff: 5184000.00059533
nFacets: 4
Warning: Error in if: argument is of length zero
  97: renderUI
  96: func
  83: renderFunc
  82: output$__autoQC01__-ui
   1: runApp
nFacets: 4
vals$rawrr: FALSE
vals$rawDiag: FALSE
nrow dataFiltered(): 1216
Warning: Error in .ggplot: !is.null(variables) is not TRUE
  173: <Anonymous>
  172: stop
  171: stopifnot
  170: .ggplot
  169: ggplot2FUN
  168: renderPlot
  166: func
  126: drawPlot
  112: <reactive:plotObj>
   96: drawReactive
   83: renderFunc
   82: output$__autoQC01__-plot
    1: runApp
nrow dataFiltered(): 1216
using 'ggh4x' package ...
input timeRange: 7776000 | timeMin: 2024-08-17 11:26:53.766 | timeMax: 2024-10-16 11:26:53.767 | timeDiff: 5184000.00099993
nFacets: 4
nrow dataFiltered(): 1216
using 'ggh4x' package ...
nFacets: 4
nrow dataFiltered(): 752
using 'ggh4x' package ...
Warning: Removed 37 rows containing missing values or values outside the scale
range (`geom_point()`).
Warning: Removed 9 rows containing missing values or values outside the scale
range (`geom_line()`).
p36531/Proteomics/QEXACTIVE_1/analytic_20241008/20241008_C36531_001_autoQC01.raw
plotClick: 
fn has changed to /srv/www/htdocs//p36531/Proteomics/QEXACTIVE_1/analytic_20241008/20241008_C36531_001_autoQC01.raw
NA
p36523/Proteomics/QEXACTIVE_1/analytic_20241007/20241007_C36523_004_autoQC01.raw
Warning in dir.create(path) :
  cannot create dir 'logs-qc', reason 'Permission denied'
fn has changed to NA
fn has changed to NA
fn has changed to NA
fn has changed to NA
nFacets: 4
Warning: Error in if: argument is of length zero
  97: renderUI
  96: func
  83: renderFunc
  82: output$__autoQC01__-ui
   1: runApp
input timeRange: 7776000 | timeMin: 2024-08-17 14:26:45.719107 | timeMax: 2024-10-16 14:26:45.719695 | timeDiff: 5184000.00058746
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$rawDiag: FALSE
nrow dataFiltered(): 1216
Warning: Error in .ggplot: !is.null(variables) is not TRUE
  173: <Anonymous>
  172: stop
  171: stopifnot
  170: .ggplot
  169: ggplot2FUN
  168: renderPlot
  166: func
  126: drawPlot
  112: <reactive:plotObj>
   96: drawReactive
   83: renderFunc
   82: output$__autoQC01__-plot
    1: runApp
nrow dataFiltered(): 1216
using 'ggh4x' package ...
input timeRange: 7776000 | timeMin: 2024-08-17 12:26:45.719 | timeMax: 2024-10-16 12:26:45.72 | timeDiff: 5184000.00099993
nFacets: 4
nrow dataFiltered(): 1216
using 'ggh4x' package ...
nFacets: 4
nrow dataFiltered(): 752
using 'ggh4x' package ...
Warning: Removed 37 rows containing missing values or values outside the scale
range (`geom_point()`).
Warning: Removed 9 rows containing missing values or values outside the scale
range (`geom_line()`).
NA
p36531/Proteomics/QEXACTIVE_1/analytic_20241008/20241008_C36531_001_autoQC01.raw
plotClick: 
fn has changed to /srv/www/htdocs//p36531/Proteomics/QEXACTIVE_1/analytic_20241008/20241008_C36531_001_autoQC01.raw
NA
p36531/Proteomics/QEXACTIVE_1/analytic_20241008/20241008_C36531_001_autoQC01.raw
plotClick: 
NA
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(): 286
Warning: Error in .ggplot: !is.null(variables) is not TRUE
  173: <Anonymous>
  172: stop
  171: stopifnot
  170: .ggplot
  169: ggplot2FUN
  168: renderPlot
  166: func
  126: drawPlot
  112: <reactive:plotObj>
   96: drawReactive
   83: renderFunc
   82: output$autoQC03-DDA-plot
    1: runApp
nrow dataFiltered(): 0
nrow dataFiltered(): 0
nrow dataFiltered(): 286
using 'ggh4x' package ...
NA
p36531/Proteomics/QEXACTIVE_1/analytic_20241008/20241008_C36531_009_autoQC03dda.raw
plotClick: 
fn has changed to /srv/www/htdocs//p36531/Proteomics/QEXACTIVE_1/analytic_20241008/20241008_C36531_009_autoQC03dda.raw
NA
p36531/Proteomics/QEXACTIVE_1/analytic_20241008/20241008_C36531_009_autoQC03dda.raw
NA
plotClick: 
p36531/Proteomics/QEXACTIVE_1/analytic_20241008/20241008_C36531_009_autoQC03dda.raw
NA
Warning: One or more parsing issues, call `problems()` on your data frame for
details, e.g.:
  dat <- vroom(...)
  problems(dat)
autoQC01 module APEX wide nrow: 280984
autoQC01 module APEX long nrow: 0
LGGNEQVTR, TPVISGGPYEYR, LFLQFGAQGSPFLK
APEXAUC.lg2
autoQC01 module APEX long nrow: 564
LGGNEQVTR, TPVISGGPYEYR, LFLQFGAQGSPFLK
APEXAUC.lg2
Warning: Removed 28 rows containing missing values or values outside the scale
range (`geom_point()`).
Warning in file(con, "w") :
  cannot open file 'logs-qc//shinylogs_fgczqcms-dashboard_1729081602312554000.json': No such file or directory
Warning: Error in file: cannot open the connection
  34: file
  33: writeLines
  32: jsonlite::write_json
  31: write_logs_json
  30: write_logs
  29: callback
   1: runApp
Warning in dir.create(path) :
  cannot create dir 'logs-qc', reason 'Permission denied'
fn has changed to NA
fn has changed to NA
fn has changed to NA
fn has changed to NA
nFacets: 4
Warning: Error in if: argument is of length zero
  97: renderUI
  96: func
  83: renderFunc
  82: output$__autoQC01__-ui
   1: runApp
input timeRange: 7776000 | timeMin: 2024-08-17 14:28:38.694474 | timeMax: 2024-10-16 14:28:38.695059 | timeDiff: 5184000.00058556
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$rawDiag: FALSE
nrow dataFiltered(): 1216
Warning: Error in .ggplot: !is.null(variables) is not TRUE
  173: <Anonymous>
  172: stop
  171: stopifnot
  170: .ggplot
  169: ggplot2FUN
  168: renderPlot
  166: func
  126: drawPlot
  112: <reactive:plotObj>
   96: drawReactive
   83: renderFunc
   82: output$__autoQC01__-plot
    1: runApp
nrow dataFiltered(): 1216
using 'ggh4x' package ...
input timeRange: 7776000 | timeMin: 2024-08-17 12:28:38.694 | timeMax: 2024-10-16 12:28:38.695 | timeDiff: 5184000.00099993
nFacets: 4
nrow dataFiltered(): 1216
using 'ggh4x' package ...
nFacets: 4
nrow dataFiltered(): 752
using 'ggh4x' package ...
Warning: Removed 37 rows containing missing values or values outside the scale
range (`geom_point()`).
Warning: Removed 9 rows containing missing values or values outside the scale
range (`geom_line()`).
input timeRange: 7776000 | timeMin: 2024-08-17 12:28:38.694 | timeMax: 2024-10-16 12:28:40.16913 | timeDiff: 5184001.47512984
nFacets: 4
nrow dataFiltered(): 752
using 'ggh4x' package ...
Warning: Removed 37 rows containing missing values or values outside the scale
range (`geom_point()`).
Warning: Removed 9 rows containing missing values or values outside the scale
range (`geom_line()`).
input timeRange: 7776000 | timeMin: 2024-08-17 12:28:38.694 | timeMax: 2024-10-16 12:28:40.169 | timeDiff: 5184001.4749999
nFacets: 4
nrow dataFiltered(): 752
using 'ggh4x' package ...
Warning: Removed 37 rows containing missing values or values outside the scale
range (`geom_point()`).
Warning: Removed 9 rows containing missing values or values outside the scale
range (`geom_line()`).
NA
p36595/Proteomics/QEXACTIVE_1/analytic_20241016/20241016_C36595_002_autoQC01.raw
NA
plotClick: 
fn has changed to /srv/www/htdocs//NA
p36595/Proteomics/QEXACTIVE_1/analytic_20241016/20241016_C36595_002_autoQC01.raw
plotClick: 
fn has changed to /srv/www/htdocs//p36595/Proteomics/QEXACTIVE_1/analytic_20241016/20241016_C36595_002_autoQC01.raw
NA
plotClick: 
p36595/Proteomics/QEXACTIVE_1/analytic_20241016/20241016_C36595_002_autoQC01.raw
NA
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(): 286
Warning: Error in .ggplot: !is.null(variables) is not TRUE
  173: <Anonymous>
  172: stop
  171: stopifnot
  170: .ggplot
  169: ggplot2FUN
  168: renderPlot
  166: func
  126: drawPlot
  112: <reactive:plotObj>
   96: drawReactive
   83: renderFunc
   82: output$autoQC03-DDA-plot
    1: runApp
nrow dataFiltered(): 0
nrow dataFiltered(): 0
nrow dataFiltered(): 286
using 'ggh4x' package ...
NA
p36531/Proteomics/QEXACTIVE_1/analytic_20241008/20241008_C36531_009_autoQC03dda.raw
plotClick: 
fn has changed to /srv/www/htdocs//p36531/Proteomics/QEXACTIVE_1/analytic_20241008/20241008_C36531_009_autoQC03dda.raw
Warning in dir.create(path) :
  cannot create dir 'logs-qc', reason 'Permission denied'
fn has changed to NA
fn has changed to NA
fn has changed to NA
fn has changed to NA
nFacets: 4
Warning: Error in if: argument is of length zero
  97: renderUI
  96: func
  83: renderFunc
  82: output$__autoQC01__-ui
   1: runApp
input timeRange: 7776000 | timeMin: 2024-08-17 14:29:25.45805 | timeMax: 2024-10-16 14:29:25.458642 | timeDiff: 5184000.00059199
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$rawDiag: FALSE
nrow dataFiltered(): 752
Warning: Error in .ggplot: !is.null(variables) is not TRUE
  173: <Anonymous>
  172: stop
  171: stopifnot
  170: .ggplot
  169: ggplot2FUN
  168: renderPlot
  166: func
  126: drawPlot
  112: <reactive:plotObj>
   96: drawReactive
   83: renderFunc
   82: output$__autoQC01__-plot
    1: runApp
input timeRange: 7776000 | timeMin: 2024-08-17 12:29:25.458 | timeMax: 2024-10-16 12:29:25.459 | timeDiff: 5184000.00100017
nFacets: 4
nrow dataFiltered(): 752
Warning: Error in .ggplot: !is.null(variables) is not TRUE
  173: <Anonymous>
  172: stop
  171: stopifnot
  170: .ggplot
  169: ggplot2FUN
  168: renderPlot
  166: func
  126: drawPlot
  112: <reactive:plotObj>
   96: drawReactive
   83: renderFunc
   82: output$__autoQC01__-plot
    1: runApp
nrow dataFiltered(): 752
using 'ggh4x' package ...
Warning: Removed 37 rows containing missing values or values outside the scale
range (`geom_point()`).
Warning: Removed 9 rows containing missing values or values outside the scale
range (`geom_line()`).
NA
nFacets: 1
reading /scratch/DIAQC/qc/dump/autoQC03-diann.txt
Warning: One or more parsing issues, call `problems()` on your data frame for
details, e.g.:
  dat <- vroom(...)
  problems(dat)
nFacets: 1
vals$rawrr: FALSE
vals$rawDiag: FALSE
vals$rawrr: FALSE
vals$rawDiag: FALSE
nrow dataFiltered(): 286
Warning: Error in .ggplot: !is.null(variables) is not TRUE
  173: <Anonymous>
  172: stop
  171: stopifnot
  170: .ggplot
  169: ggplot2FUN
  168: renderPlot
  166: func
  126: drawPlot
  112: <reactive:plotObj>
   96: drawReactive
   83: renderFunc
   82: output$autoQC03-DDA-plot
    1: runApp
nrow dataFiltered(): 0
nrow dataFiltered(): 0
nrow dataFiltered(): 286
using 'ggh4x' package ...
Warning in file(con, "w") :
  cannot open file 'logs-qc//shinylogs_fgczqcms-dashboard_1729081714943444000.json': No such file or directory
Warning: Error in file: cannot open the connection
  34: file
  33: writeLines
  32: jsonlite::write_json
  31: write_logs_json
  30: write_logs
  29: callback
   1: runApp
NA
Warning in file(con, "w") :
  cannot open file 'logs-qc//shinylogs_fgczqcms-dashboard_1729081761987565000.json': No such file or directory
Warning: Error in file: cannot open the connection
  34: file
  33: writeLines
  32: jsonlite::write_json
  31: write_logs_json
  30: write_logs
  29: callback
   1: runApp
Warning in file(con, "w") :
  cannot open file 'logs-qc//shinylogs_fgczqcms-dashboard_1729078010372216000.json': No such file or directory
Warning: Error in file: cannot open the connection
  34: file
  33: writeLines
  32: jsonlite::write_json
  31: write_logs_json
  30: write_logs
  29: callback
   1: runApp
Warning in dir.create(path) :
  cannot create dir 'logs-qc', reason 'Permission denied'
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$__autoQC01__-ui
   1: runApp
input timeRange: 7776000 | timeMin: 2024-08-18 09:14:25.611726 | timeMax: 2024-10-17 09:14:25.612333 | timeDiff: 5184000.00060749
nFacets: 4
Warning: Error in if: argument is of length zero
  97: renderUI
  96: func
  83: renderFunc
  82: output$__autoQC01__-ui
   1: runApp
nFacets: 4
vals$rawrr: FALSE
vals$rawDiag: FALSE
nrow dataFiltered(): 1184
Warning: Error in .ggplot: !is.null(variables) is not TRUE
  173: <Anonymous>
  172: stop
  171: stopifnot
  170: .ggplot
  169: ggplot2FUN
  168: renderPlot
  166: func
  126: drawPlot
  112: <reactive:plotObj>
   96: drawReactive
   83: renderFunc
   82: output$__autoQC01__-plot
    1: runApp
nrow dataFiltered(): 1184
using 'ggh4x' package ...
input timeRange: 7776000 | timeMin: 2024-08-18 07:14:25.612 | timeMax: 2024-10-17 07:14:25.612 | timeDiff: 5184000
nFacets: 4
nrow dataFiltered(): 1184
using 'ggh4x' package ...
nFacets: 1
reading /scratch/DIAQC/qc/dump/autoQC03-diann.txt
Warning: One or more parsing issues, call `problems()` on your data frame for
details, e.g.:
  dat <- vroom(...)
  problems(dat)
nFacets: 1
vals$rawrr: FALSE
vals$rawDiag: FALSE
vals$rawrr: FALSE
vals$rawDiag: FALSE
nrow dataFiltered(): 182
Warning: Error in .ggplot: !is.null(variables) is not TRUE
  173: <Anonymous>
  172: stop
  171: stopifnot
  170: .ggplot
  169: ggplot2FUN
  168: renderPlot
  166: func
  126: drawPlot
  112: <reactive:plotObj>
   96: drawReactive
   83: renderFunc
   82: output$autoQC03-DDA-plot
    1: runApp
nrow dataFiltered(): 324
Warning: Error in .ggplot: !is.null(variables) is not TRUE
  173: <Anonymous>
  172: stop
  171: stopifnot
  170: .ggplot
  169: ggplot2FUN
  168: renderPlot
  166: func
  126: drawPlot
  112: <reactive:plotObj>
   96: drawReactive
   83: renderFunc
   82: output$autoQC03-DIA-plot
    1: runApp
nrow dataFiltered(): 324
using 'ggh4x' package ...
nrow dataFiltered(): 182
using 'ggh4x' package ...
NA
p36355/Proteomics/EXPLORIS_2/analytic_20241016/20241016_C36355_005_autoQC03dia.raw
Warning in file(con, "w") :
  cannot open file 'logs-qc//shinylogs_fgczqcms-dashboard_1729149262165639000.json': No such file or directory
Warning: Error in file: cannot open the connection
  34: file
  33: writeLines
  32: jsonlite::write_json
  31: write_logs_json
  30: write_logs
  29: callback
   1: runApp
Warning in dir.create(path) :
  cannot create dir 'logs-qc', reason 'Permission denied'
fn has changed to NA
fn has changed to NA
fn has changed to NA
fn has changed to NA
nFacets: 4
Warning: Error in if: argument is of length zero
  97: renderUI
  96: func
  83: renderFunc
  82: output$__autoQC01__-ui
   1: runApp
input timeRange: 7776000 | timeMin: 2024-08-18 09:18:21.013446 | timeMax: 2024-10-17 09:18:21.014047 | timeDiff: 5184000.00060177
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$rawDiag: FALSE
nrow dataFiltered(): 1184
Warning: Error in .ggplot: !is.null(variables) is not TRUE
  173: <Anonymous>
  172: stop
  171: stopifnot
  170: .ggplot
  169: ggplot2FUN
  168: renderPlot
  166: func
  126: drawPlot
  112: <reactive:plotObj>
   96: drawReactive
   83: renderFunc
   82: output$__autoQC01__-plot
    1: runApp
nrow dataFiltered(): 1184
using 'ggh4x' package ...
input timeRange: 7776000 | timeMin: 2024-08-18 07:18:21.013 | timeMax: 2024-10-17 07:18:21.014 | timeDiff: 5184000.00099993
nFacets: 4
nrow dataFiltered(): 1184
using 'ggh4x' package ...
nFacets: 4
nrow dataFiltered(): 1216
using 'ggh4x' package ...
nFacets: 4
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(): 1014
Warning: Error in .ggplot: !is.null(variables) is not TRUE
  173: <Anonymous>
  172: stop
  171: stopifnot
  170: .ggplot
  169: ggplot2FUN
  168: renderPlot
  166: func
  126: drawPlot
  112: <reactive:plotObj>
   96: drawReactive
   83: renderFunc
   82: output$autoQC03-DDA-plot
    1: runApp
nrow dataFiltered(): 288
Warning: Error in .ggplot: !is.null(variables) is not TRUE
  173: <Anonymous>
  172: stop
  171: stopifnot
  170: .ggplot
  169: ggplot2FUN
  168: renderPlot
  166: func
  126: drawPlot
  112: <reactive:plotObj>
   96: drawReactive
   83: renderFunc
   82: output$autoQC03-DIA-plot
    1: runApp
nrow dataFiltered(): 288
using 'ggh4x' package ...
nrow dataFiltered(): 1014
using 'ggh4x' package ...
NA
p3000/Proteomics/LUMOS_2/pgehrig_20241009_autoQC/20241016_005_autoQC03dia.raw
vals$rawrr: TRUE
plotClick: 
fn has changed to /srv/www/htdocs//p3000/Proteomics/LUMOS_2/pgehrig_20241009_autoQC/20241016_005_autoQC03dia.raw
Reading raw file: /srv/www/htdocs//p3000/Proteomics/LUMOS_2/pgehrig_20241009_autoQC/20241016_005_autoQC03dia.raw
Plotting chromatograms ...
Read 22032 items
NA
Plotting chromatograms ...
NA
p3000/Proteomics/LUMOS_2/pgehrig_20241009_autoQC/20241016_004_autoQC03dda.raw
NA
nrow dataFiltered(): 288
using 'ggh4x' package ...
nrow dataFiltered(): 1014
using 'ggh4x' package ...
Plotting chromatograms ...
Error in .make_numeric_version(x, strict, .standard_regexps()$valid_numeric_version) : 
  invalid non-character version specification 'x' (type: double)
Warning in dir.create(path) :
  cannot create dir 'logs-qc', reason 'Permission denied'
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$__autoQC01__-ui
   1: runApp
input timeRange: 7776000 | timeMin: 2024-08-18 09:20:08.440802 | timeMax: 2024-10-17 09:20:08.441384 | timeDiff: 5184000.00058174
nFacets: 4
Warning: Error in if: argument is of length zero
  97: renderUI
  96: func
  83: renderFunc
  82: output$__autoQC01__-ui
   1: runApp
nFacets: 0
Warning: Error in if: argument is of length zero
  97: renderUI
  96: func
  83: renderFunc
  82: output$autoQC03-DDA-ui
   1: runApp
reading /scratch/DIAQC/qc/dump/autoQC03-diann.txt
Warning: One or more parsing issues, call `problems()` on your data frame for
details, e.g.:
  dat <- vroom(...)
  problems(dat)
nFacets: 1
Warning: Error in if: argument is of length zero
  97: renderUI
  96: func
  83: renderFunc
  82: output$autoQC03-DIA-ui
   1: runApp
nFacets: 1
nFacets: 1
vals$rawrr: FALSE
vals$rawDiag: FALSE
vals$rawrr: FALSE
vals$rawDiag: FALSE
nrow dataFiltered(): 182
Warning: Error in .ggplot: !is.null(variables) is not TRUE
  173: <Anonymous>
  172: stop
  171: stopifnot
  170: .ggplot
  169: ggplot2FUN
  168: renderPlot
  166: func
  126: drawPlot
  112: <reactive:plotObj>
   96: drawReactive
   83: renderFunc
   82: output$autoQC03-DDA-plot
    1: runApp
nrow dataFiltered(): 324
Warning: Error in .ggplot: !is.null(variables) is not TRUE
  173: <Anonymous>
  172: stop
  171: stopifnot
  170: .ggplot
  169: ggplot2FUN
  168: renderPlot
  166: func
  126: drawPlot
  112: <reactive:plotObj>
   96: drawReactive
   83: renderFunc
   82: output$autoQC03-DIA-plot
    1: runApp
nrow dataFiltered(): 324
using 'ggh4x' package ...
nrow dataFiltered(): 182
using 'ggh4x' package ...
input timeRange: 7776000 | timeMin: 2024-08-18 07:20:08.4408 | timeMax: 2024-10-17 07:20:08.44138 | timeDiff: 5184000.00057983
nFacets: 1
nrow dataFiltered(): 182
using 'ggh4x' package ...
nFacets: 1
nrow dataFiltered(): 324
using 'ggh4x' package ...
input timeRange: 7776000 | timeMin: 2024-08-18 07:20:08.441 | timeMax: 2024-10-17 07:20:08.441 | timeDiff: 5184000
nFacets: 1
nrow dataFiltered(): 182
using 'ggh4x' package ...
nFacets: 1
nrow dataFiltered(): 324
using 'ggh4x' package ...
p3000/Proteomics/EXPLORIS_2/lkunz_20241014/20241014_002_autoQC03dda.raw
NA
nFacets: 4
nrow dataFiltered(): 1014
using 'ggh4x' package ...
nFacets: 1
nrow dataFiltered(): 288
using 'ggh4x' package ...
Warning in file(con, "w") :
  cannot open file 'logs-qc//shinylogs_fgczqcms-dashboard_1729149605010132000.json': No such file or directory
Warning: Error in file: cannot open the connection
  34: file
  33: writeLines
  32: jsonlite::write_json
  31: write_logs_json
  30: write_logs
  29: callback
   1: runApp
Warning in dir.create(path) :
  cannot create dir 'logs-qc', reason 'Permission denied'
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$__autoQC01__-ui
   1: runApp
input timeRange: 7776000 | timeMin: 2024-08-18 10:25:45.571572 | timeMax: 2024-10-17 10:25:45.572167 | timeDiff: 5184000.00059438
nFacets: 4
Warning: Error in if: argument is of length zero
  97: renderUI
  96: func
  83: renderFunc
  82: output$__autoQC01__-ui
   1: runApp
nFacets: 4
vals$rawrr: FALSE
vals$rawDiag: FALSE
nrow dataFiltered(): 1184
Warning: Error in .ggplot: !is.null(variables) is not TRUE
  173: <Anonymous>
  172: stop
  171: stopifnot
  170: .ggplot
  169: ggplot2FUN
  168: renderPlot
  166: func
  126: drawPlot
  112: <reactive:plotObj>
   96: drawReactive
   83: renderFunc
   82: output$__autoQC01__-plot
    1: runApp
input timeRange: 7776000 | timeMin: 2024-08-18 08:25:45.572 | timeMax: 2024-10-17 08:25:45.572 | timeDiff: 5184000
nFacets: 4
nrow dataFiltered(): 1184
Warning: Error in .ggplot: !is.null(variables) is not TRUE
  173: <Anonymous>
  172: stop
  171: stopifnot
  170: .ggplot
  169: ggplot2FUN
  168: renderPlot
  166: func
  126: drawPlot
  112: <reactive:plotObj>
   96: drawReactive
   83: renderFunc
   82: output$__autoQC01__-plot
    1: runApp
nrow dataFiltered(): 1184
using 'ggh4x' package ...
nFacets: 4
nrow dataFiltered(): 1216
using 'ggh4x' package ...
NA
Warning: One or more parsing issues, call `problems()` on your data frame for
details, e.g.:
  dat <- vroom(...)
  problems(dat)
autoQC01 module APEX wide nrow: 281083
autoQC01 module APEX long nrow: 0
LGGNEQVTR, TPVISGGPYEYR, LFLQFGAQGSPFLK
APEXAUC.lg2
autoQC01 module APEX long nrow: 912
LGGNEQVTR, TPVISGGPYEYR, LFLQFGAQGSPFLK
APEXAUC.lg2
p3000/Proteomics/LUMOS_2/pgehrig_20241009_autoQC/20241016_001_autoQC01.raw
p3000/Proteomics/LUMOS_2/pgehrig_20241009_autoQC/20241016_003_autoQC01.raw
NA
p3000/Proteomics/LUMOS_2/pgehrig_20241009_autoQC/20241016_003_autoQC01.raw
NA
p3000/Proteomics/LUMOS_2/pgehrig_20241009_autoQC/20241016_003_autoQC01.raw
plotClick: 
fn has changed to /srv/www/htdocs//p3000/Proteomics/LUMOS_2/pgehrig_20241009_autoQC/20241016_003_autoQC01.raw
nFacets: 4
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(): 1014
Warning: Error in .ggplot: !is.null(variables) is not TRUE
  173: <Anonymous>
  172: stop
  171: stopifnot
  170: .ggplot
  169: ggplot2FUN
  168: renderPlot
  166: func
  126: drawPlot
  112: <reactive:plotObj>
   96: drawReactive
   83: renderFunc
   82: output$autoQC03-DDA-plot
    1: runApp
nrow dataFiltered(): 288
Warning: Error in .ggplot: !is.null(variables) is not TRUE
  173: <Anonymous>
  172: stop
  171: stopifnot
  170: .ggplot
  169: ggplot2FUN
  168: renderPlot
  166: func
  126: drawPlot
  112: <reactive:plotObj>
   96: drawReactive
   83: renderFunc
   82: output$autoQC03-DIA-plot
    1: runApp
nrow dataFiltered(): 288
using 'ggh4x' package ...
nrow dataFiltered(): 1014
using 'ggh4x' package ...
vals$rawrr: TRUE
p3000/Proteomics/LUMOS_2/pgehrig_20241009_autoQC/20241016_004_autoQC03dda.raw
NA
p3000/Proteomics/LUMOS_2/pgehrig_20241009_autoQC/20241016_005_autoQC03dia.raw
plotClick: 
fn has changed to /srv/www/htdocs//p3000/Proteomics/LUMOS_2/pgehrig_20241009_autoQC/20241016_005_autoQC03dia.raw
NA
p3000/Proteomics/LUMOS_2/pgehrig_20241009_autoQC/20241016_004_autoQC03dda.raw
NA
p3000/Proteomics/LUMOS_2/pgehrig_20241009_autoQC/20241016_004_autoQC03dda.raw
NA
p3000/Proteomics/LUMOS_2/pgehrig_20241009_autoQC/20241016_004_autoQC03dda.raw
plotClick: 
fn has changed to /srv/www/htdocs//p3000/Proteomics/LUMOS_2/pgehrig_20241009_autoQC/20241016_004_autoQC03dda.raw
Reading raw file: /srv/www/htdocs//p3000/Proteomics/LUMOS_2/pgehrig_20241009_autoQC/20241016_004_autoQC03dda.raw
Plotting chromatograms ...
Read 22032 items
NA
Warning in file(con, "w") :
  cannot open file 'logs-qc//shinylogs_fgczqcms-dashboard_1729153542100516000.json': No such file or directory
Warning: Error in file: cannot open the connection
  34: file
  33: writeLines
  32: jsonlite::write_json
  31: write_logs_json
  30: write_logs
  29: callback
   1: runApp
Warning in dir.create(path) :
  cannot create dir 'logs-qc', reason 'Permission denied'
fn has changed to NA
fn has changed to NA
fn has changed to NA
fn has changed to NA
nFacets: 4
Warning: Error in if: argument is of length zero
  97: renderUI
  96: func
  83: renderFunc
  82: output$__autoQC01__-ui
   1: runApp
input timeRange: 7776000 | timeMin: 2024-08-18 11:13:09.026927 | timeMax: 2024-10-17 11:13:09.027516 | timeDiff: 5184000.00058913
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$rawDiag: FALSE
nrow dataFiltered(): 1232
Warning: Error in .ggplot: !is.null(variables) is not TRUE
  173: <Anonymous>
  172: stop
  171: stopifnot
  170: .ggplot
  169: ggplot2FUN
  168: renderPlot
  166: func
  126: drawPlot
  112: <reactive:plotObj>
   96: drawReactive
   83: renderFunc
   82: output$__autoQC01__-plot
    1: runApp
nrow dataFiltered(): 1232
using 'ggh4x' package ...
input timeRange: 7776000 | timeMin: 2024-08-18 09:13:09.027 | timeMax: 2024-10-17 09:13:09.028 | timeDiff: 5184000.00100017
nFacets: 4
nrow dataFiltered(): 1232
using 'ggh4x' package ...
NA
p3000/Proteomics/LUMOS_2/analytics_20240917/20240917_004_autoQC01.raw
NA
p3000/Proteomics/LUMOS_2/pgehrig_20241009_autoQC/20241016_001_autoQC01.raw
nFacets: 4
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(): 1014
Warning: Error in .ggplot: !is.null(variables) is not TRUE
  173: <Anonymous>
  172: stop
  171: stopifnot
  170: .ggplot
  169: ggplot2FUN
  168: renderPlot
  166: func
  126: drawPlot
  112: <reactive:plotObj>
   96: drawReactive
   83: renderFunc
   82: output$autoQC03-DDA-plot
    1: runApp
nrow dataFiltered(): 288
Warning: Error in .ggplot: !is.null(variables) is not TRUE
  173: <Anonymous>
  172: stop
  171: stopifnot
  170: .ggplot
  169: ggplot2FUN
  168: renderPlot
  166: func
  126: drawPlot
  112: <reactive:plotObj>
   96: drawReactive
   83: renderFunc
   82: output$autoQC03-DIA-plot
    1: runApp
nrow dataFiltered(): 288
using 'ggh4x' package ...
nrow dataFiltered(): 1014
using 'ggh4x' package ...
NA
p3000/Proteomics/LUMOS_2/pgehrig_20241009_autoQC/20241016_004_autoQC03dda.raw
plotClick: 
fn has changed to /srv/www/htdocs//p3000/Proteomics/LUMOS_2/pgehrig_20241009_autoQC/20241016_004_autoQC03dda.raw
NA
p3000/Proteomics/LUMOS_2/pgehrig_20241009_autoQC/20241016_004_autoQC03dda.raw
plotClick: 
NA
Warning in dir.create(path) :
  cannot create dir 'logs-qc', reason 'Permission denied'
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$__autoQC01__-ui
   1: runApp
input timeRange: 7776000 | timeMin: 2024-08-18 11:42:33.074837 | timeMax: 2024-10-17 11:42:33.075428 | timeDiff: 5184000.00059104
nFacets: 4
Warning: Error in if: argument is of length zero
  97: renderUI
  96: func
  83: renderFunc
  82: output$__autoQC01__-ui
   1: runApp
nFacets: 4
vals$rawrr: FALSE
vals$rawDiag: FALSE
nrow dataFiltered(): 1248
Warning: Error in .ggplot: !is.null(variables) is not TRUE
  173: <Anonymous>
  172: stop
  171: stopifnot
  170: .ggplot
  169: ggplot2FUN
  168: renderPlot
  166: func
  126: drawPlot
  112: <reactive:plotObj>
   96: drawReactive
   83: renderFunc
   82: output$__autoQC01__-plot
    1: runApp
nrow dataFiltered(): 1248
using 'ggh4x' package ...
input timeRange: 7776000 | timeMin: 2024-08-18 09:42:33.075 | timeMax: 2024-10-17 09:42:33.075 | timeDiff: 5184000
nFacets: 4
nrow dataFiltered(): 1248
using 'ggh4x' package ...
nFacets: 4
reading /scratch/DIAQC/qc/dump/autoQC03-diann.txt
Warning: One or more parsing issues, call `problems()` on your data frame for
details, e.g.:
  dat <- vroom(...)
  problems(dat)
nFacets: 1
vals$rawrr: FALSE
vals$rawDiag: FALSE
vals$rawrr: FALSE
vals$rawDiag: FALSE
nrow dataFiltered(): 1014
Warning: Error in .ggplot: !is.null(variables) is not TRUE
  173: <Anonymous>
  172: stop
  171: stopifnot
  170: .ggplot
  169: ggplot2FUN
  168: renderPlot
  166: func
  126: drawPlot
  112: <reactive:plotObj>
   96: drawReactive
   83: renderFunc
   82: output$autoQC03-DDA-plot
    1: runApp
nrow dataFiltered(): 288
Warning: Error in .ggplot: !is.null(variables) is not TRUE
  173: <Anonymous>
  172: stop
  171: stopifnot
  170: .ggplot
  169: ggplot2FUN
  168: renderPlot
  166: func
  126: drawPlot
  112: <reactive:plotObj>
   96: drawReactive
   83: renderFunc
   82: output$autoQC03-DIA-plot
    1: runApp
nrow dataFiltered(): 288
using 'ggh4x' package ...
nrow dataFiltered(): 1014
using 'ggh4x' package ...
Warning in file(con, "w") :
  cannot open file 'logs-qc//shinylogs_fgczqcms-dashboard_1729156385630589000.json': No such file or directory
Warning: Error in file: cannot open the connection
  34: file
  33: writeLines
  32: jsonlite::write_json
  31: write_logs_json
  30: write_logs
  29: callback
   1: runApp
NA
NA
Warning in dir.create(path) :
  cannot create dir 'logs-qc', reason 'Permission denied'
fn has changed to NA
fn has changed to NA
fn has changed to NA
fn has changed to NA
nFacets: 4
Warning: Error in if: argument is of length zero
  97: renderUI
  96: func
  83: renderFunc
  82: output$__autoQC01__-ui
   1: runApp
input timeRange: 7776000 | timeMin: 2024-08-18 11:53:59.86954 | timeMax: 2024-10-17 11:53:59.870125 | timeDiff: 5184000.00058484
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$rawDiag: FALSE
nrow dataFiltered(): 1248
Warning: Error in .ggplot: !is.null(variables) is not TRUE
  173: <Anonymous>
  172: stop
  171: stopifnot
  170: .ggplot
  169: ggplot2FUN
  168: renderPlot
  166: func
  126: drawPlot
  112: <reactive:plotObj>
   96: drawReactive
   83: renderFunc
   82: output$__autoQC01__-plot
    1: runApp
nrow dataFiltered(): 1248
using 'ggh4x' package ...
input timeRange: 7776000 | timeMin: 2024-08-18 09:53:59.87 | timeMax: 2024-10-17 09:53:59.87 | timeDiff: 5184000
nFacets: 4
nrow dataFiltered(): 1248
using 'ggh4x' package ...
Warning in file(con, "w") :
  cannot open file 'logs-qc//shinylogs_fgczqcms-dashboard_1729158149643489000.json': No such file or directory
Warning: Error in file: cannot open the connection
  34: file
  33: writeLines
  32: jsonlite::write_json
  31: write_logs_json
  30: write_logs
  29: callback
   1: runApp
Warning in dir.create(path) :
  cannot create dir 'logs-qc', reason 'Permission denied'
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$__autoQC01__-ui
   1: runApp
input timeRange: 7776000 | timeMin: 2024-08-18 12:50:49.993334 | timeMax: 2024-10-17 12:50:49.993915 | timeDiff: 5184000.00058126
nFacets: 4
Warning: Error in if: argument is of length zero
  97: renderUI
  96: func
  83: renderFunc
  82: output$__autoQC01__-ui
   1: runApp
nFacets: 4
vals$rawrr: FALSE
vals$rawDiag: FALSE
nrow dataFiltered(): 1248
Warning: Error in .ggplot: !is.null(variables) is not TRUE
  173: <Anonymous>
  172: stop
  171: stopifnot
  170: .ggplot
  169: ggplot2FUN
  168: renderPlot
  166: func
  126: drawPlot
  112: <reactive:plotObj>
   96: drawReactive
   83: renderFunc
   82: output$__autoQC01__-plot
    1: runApp
nrow dataFiltered(): 1248
using 'ggh4x' package ...
input timeRange: 7776000 | timeMin: 2024-08-18 10:50:49.993 | timeMax: 2024-10-17 10:50:49.994 | timeDiff: 5184000.00099993
nFacets: 4
nrow dataFiltered(): 1248
using 'ggh4x' package ...
NA
Warning in file(con, "w") :
  cannot open file 'logs-qc//shinylogs_fgczqcms-dashboard_1729149497561440000.json': No such file or directory
Warning: Error in file: cannot open the connection
  34: file
  33: writeLines
  32: jsonlite::write_json
  31: write_logs_json
  30: write_logs
  29: callback
   1: runApp
input timeRange: 31536000 | timeMin: 2024-08-18 10:50:49.993 | timeMax: 2024-10-17 13:22:53.726636 | timeDiff: 5185923.7336359
nFacets: 4
nrow dataFiltered(): 1248
using 'ggh4x' package ...
input timeRange: 31536000 | timeMin: 2024-08-18 10:50:49.993 | timeMax: 2024-10-17 11:22:53.727 | timeDiff: 5185923.73399997
nFacets: 4
nrow dataFiltered(): 1248
using 'ggh4x' package ...
input timeRange: 31536000 | timeMin: 2023-11-29 11:22:55 | timeMax: 2024-10-17 11:22:53.727 | timeDiff: 27907198.727
nFacets: 4
nrow dataFiltered(): 7776
using 'ggh4x' package ...
Warning: Removed 28 rows containing missing values or values outside the scale
range (`geom_point()`).
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)
Warning in file(con, "w") :
  cannot open file 'logs-qc//shinylogs_fgczqcms-dashboard_1729158836368901000.json': No such file or directory
Warning: Error in file: cannot open the connection
  34: file
  33: writeLines
  32: jsonlite::write_json
  31: write_logs_json
  30: write_logs
  29: callback
   1: runApp
Warning in dir.create(path) :
  cannot create dir 'logs-qc', reason 'Permission denied'
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: 2024-08-18 17:09:03.858284 | timeMax: 2024-10-17 17:09:03.858868 | timeDiff: 5184000.0005846
nFacets: 4
Warning: Error in if: argument is of length zero
  97: renderUI
  96: func
  83: renderFunc
  82: output$__autoQC01__-ui
   1: runApp
nFacets: 0
Warning: Error in if: argument is of length zero
  97: renderUI
  96: func
  83: renderFunc
  82: output$autoQC03-DDA-ui
   1: runApp
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
Warning: Error in if: argument is of length zero
  97: renderUI
  96: func
  83: renderFunc
  82: output$autoQC03-DIA-ui
   1: runApp
nFacets: 4
nFacets: 1
vals$rawrr: FALSE
vals$rawDiag: FALSE
vals$rawrr: FALSE
vals$rawDiag: FALSE
nrow dataFiltered(): 1014
Warning: Error in .ggplot: !is.null(variables) is not TRUE
  173: <Anonymous>
  172: stop
  171: stopifnot
  170: .ggplot
  169: ggplot2FUN
  168: renderPlot
  166: func
  126: drawPlot
  112: <reactive:plotObj>
   96: drawReactive
   83: renderFunc
   82: output$autoQC03-DDA-plot
    1: runApp
nrow dataFiltered(): 288
Warning: Error in .ggplot: !is.null(variables) is not TRUE
  173: <Anonymous>
  172: stop
  171: stopifnot
  170: .ggplot
  169: ggplot2FUN
  168: renderPlot
  166: func
  126: drawPlot
  112: <reactive:plotObj>
   96: drawReactive
   83: renderFunc
   82: output$autoQC03-DIA-plot
    1: runApp
nrow dataFiltered(): 288
using 'ggh4x' package ...
nrow dataFiltered(): 1014
using 'ggh4x' package ...
input timeRange: 7776000 | timeMin: 2024-08-18 15:09:03.85828 | timeMax: 2024-10-17 15:09:03.85887 | timeDiff: 5184000.00059009
nFacets: 4
nrow dataFiltered(): 1014
using 'ggh4x' package ...
nFacets: 1
nrow dataFiltered(): 288
using 'ggh4x' package ...
input timeRange: 7776000 | timeMin: 2024-08-18 15:09:03.858 | timeMax: 2024-10-17 15:09:03.859 | timeDiff: 5184000.00099993
nFacets: 4
nrow dataFiltered(): 1014
using 'ggh4x' package ...
nFacets: 1
nrow dataFiltered(): 288
using 'ggh4x' package ...
plotClick: 
fn has changed to /srv/www/htdocs//p3000/Proteomics/LUMOS_2/pgehrig_20241009_autoQC/20241016_004_autoQC03dda.raw
p3000/Proteomics/LUMOS_2/pgehrig_20241009_autoQC/20241016_004_autoQC03dda.raw
NA
plotClick: 
fn has changed to /srv/www/htdocs//NA
plotClick: 
fn has changed to /srv/www/htdocs//p3000/Proteomics/LUMOS_2/pgehrig_20241009_autoQC/20241016_004_autoQC03dda.raw
p3000/Proteomics/LUMOS_2/pgehrig_20241009_autoQC/20241016_004_autoQC03dda.raw
NA
p3000/Proteomics/LUMOS_2/pgehrig_20241009_autoQC/20241016_005_autoQC03dia.raw
plotClick: 
fn has changed to /srv/www/htdocs//p3000/Proteomics/LUMOS_2/pgehrig_20241009_autoQC/20241016_005_autoQC03dia.raw
plotClick: 
p3000/Proteomics/LUMOS_2/pgehrig_20241009_autoQC/20241016_004_autoQC03dda.raw
NA
plotClick: 
p3000/Proteomics/LUMOS_2/pgehrig_20241009_autoQC/20241016_004_autoQC03dda.raw
NA
p3000/Proteomics/LUMOS_2/pgehrig_20241009_autoQC/20241016_004_autoQC03dda.raw
NA
plotClick: 
p3000/Proteomics/LUMOS_2/pgehrig_20241009_autoQC/20241016_004_autoQC03dda.raw
NA
Warning in file(con, "w") :
  cannot open file 'logs-qc//shinylogs_fgczqcms-dashboard_1729162246519517000.json': No such file or directory
Warning: Error in file: cannot open the connection
  34: file
  33: writeLines
  32: jsonlite::write_json
  31: write_logs_json
  30: write_logs
  29: callback
   1: runApp
Warning in dir.create(path) :
  cannot create dir 'logs-qc', reason 'Permission denied'
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: 2024-08-19 08:19:39.885063 | timeMax: 2024-10-18 08:19:39.885653 | timeDiff: 5184000.00059009
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$rawDiag: FALSE
nrow dataFiltered(): 1280
Warning: Error in .ggplot: !is.null(variables) is not TRUE
  173: <Anonymous>
  172: stop
  171: stopifnot
  170: .ggplot
  169: ggplot2FUN
  168: renderPlot
  166: func
  126: drawPlot
  112: <reactive:plotObj>
   96: drawReactive
   83: renderFunc
   82: output$__autoQC01__-plot
    1: runApp
nrow dataFiltered(): 1280
using 'ggh4x' package ...
input timeRange: 7776000 | timeMin: 2024-08-19 06:19:39.885 | timeMax: 2024-10-18 06:19:39.886 | timeDiff: 5184000.00099993
nFacets: 4
nrow dataFiltered(): 1280
using 'ggh4x' package ...
nFacets: 4
nrow dataFiltered(): 1056
using 'ggh4x' package ...
Warning: Removed 3 rows containing missing values or values outside the scale
range (`geom_point()`).
NA
vals$rawrr: TRUE
p28115/Proteomics/EXPLORIS_1/wzhong_20241015_main_trial1_Oct16/20241015_021_autoQC01.raw
plotClick: 
fn has changed to /srv/www/htdocs//p28115/Proteomics/EXPLORIS_1/wzhong_20241015_main_trial1_Oct16/20241015_021_autoQC01.raw
Reading raw file: /srv/www/htdocs//p28115/Proteomics/EXPLORIS_1/wzhong_20241015_main_trial1_Oct16/20241015_021_autoQC01.raw
Plotting chromatograms ...
Read 22032 items
NA
p28115/Proteomics/EXPLORIS_1/wzhong_20241015_main_trial1_Oct16/20241015_021_autoQC01.raw
NA
Warning in file(con, "w") :
  cannot open file 'logs-qc//shinylogs_fgczqcms-dashboard_1728912621542985000.json': No such file or directory
Warning: Error in file: cannot open the connection
  34: file
  33: writeLines
  32: jsonlite::write_json
  31: write_logs_json
  30: write_logs
  29: callback
   1: runApp
Warning in file(con, "w") :
  cannot open file 'logs-qc//shinylogs_fgczqcms-dashboard_1729232376441349000.json': No such file or directory
Warning: Error in file: cannot open the connection
  34: file
  33: writeLines
  32: jsonlite::write_json
  31: write_logs_json
  30: write_logs
  29: callback
   1: runApp
Warning in file(con, "w") :
  cannot open file 'logs-qc//shinylogs_fgczqcms-dashboard_1729177740444094000.json': No such file or directory
Warning: Error in file: cannot open the connection
  34: file
  33: writeLines
  32: jsonlite::write_json
  31: write_logs_json
  30: write_logs
  29: callback
   1: runApp
Warning in dir.create(path) :
  cannot create dir 'logs-qc', reason 'Permission denied'
fn has changed to NA
fn has changed to NA
fn has changed to NA
fn has changed to NA
nFacets: 4
Warning: Error in if: argument is of length zero
  97: renderUI
  96: func
  83: renderFunc
  82: output$__autoQC01__-ui
   1: runApp
input timeRange: 7776000 | timeMin: 2024-08-19 11:34:50.944036 | timeMax: 2024-10-18 11:34:50.944615 | timeDiff: 5184000.00057983
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$rawDiag: FALSE
nrow dataFiltered(): 1056
Warning: Error in .ggplot: !is.null(variables) is not TRUE
  173: <Anonymous>
  172: stop
  171: stopifnot
  170: .ggplot
  169: ggplot2FUN
  168: renderPlot
  166: func
  126: drawPlot
  112: <reactive:plotObj>
   96: drawReactive
   83: renderFunc
   82: output$__autoQC01__-plot
    1: runApp
nrow dataFiltered(): 1056
using 'ggh4x' package ...
Warning: Removed 3 rows containing missing values or values outside the scale
range (`geom_point()`).
input timeRange: 7776000 | timeMin: 2024-08-19 09:34:50.944 | timeMax: 2024-10-18 09:34:50.945 | timeDiff: 5184000.00099993
nFacets: 4
nrow dataFiltered(): 1056
using 'ggh4x' package ...
Warning: Removed 3 rows containing missing values or values outside the scale
range (`geom_point()`).
Warning in file(con, "w") :
  cannot open file 'logs-qc//shinylogs_fgczqcms-dashboard_1729069687077475000.json': No such file or directory
Warning: Error in file: cannot open the connection
  34: file
  33: writeLines
  32: jsonlite::write_json
  31: write_logs_json
  30: write_logs
  29: callback
   1: runApp
Warning in dir.create(path) :
  cannot create dir 'logs-qc', reason 'Permission denied'
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$__autoQC01__-ui
   1: runApp
input timeRange: 7776000 | timeMin: 2024-08-19 13:03:46.631621 | timeMax: 2024-10-18 13:03:46.632209 | timeDiff: 5184000.00058746
nFacets: 4
Warning: Error in if: argument is of length zero
  97: renderUI
  96: func
  83: renderFunc
  82: output$__autoQC01__-ui
   1: runApp
Warning: One or more parsing issues, call `problems()` on your data frame for
details, e.g.:
  dat <- vroom(...)
  problems(dat)
input timeRange: 7776000 | timeMin: 2024-08-19 11:03:46.63162 | timeMax: 2024-10-18 11:03:46.63221 | timeDiff: 5184000.00058985
autoQC01 module APEX wide nrow: 281182
autoQC01 module APEX long nrow: 0
LGGNEQVTR, TPVISGGPYEYR, LFLQFGAQGSPFLK
APEXAUC.lg2
autoQC01 module APEX long nrow: 888
LGGNEQVTR, TPVISGGPYEYR, LFLQFGAQGSPFLK
APEXAUC.lg2
Warning: Removed 2 rows containing missing values or values outside the scale
range (`geom_point()`).
Warning in file(con, "w") :
  cannot open file 'logs-qc//shinylogs_fgczqcms-dashboard_1729249423147346000.json': No such file or directory
Warning: Error in file: cannot open the connection
  34: file
  33: writeLines
  32: jsonlite::write_json
  31: write_logs_json
  30: write_logs
  29: callback
   1: runApp