Listening on http://127.0.0.1:33109 Attaching package: 'shinydashboard' The following object is masked from 'package:graphics': box Loading required package: readr Loading required package: reshape2 Loading required package: lattice Loading required package: rawDiag Loading required package: rawrr Loading required package: ggnewscale fn has changed to NA fn has changed to NA fn has changed to NA fn has changed to NA nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-03 08:12:03.877406 | timeMax: 2024-02-01 08:12:03.878 | timeDiff: 5184000.0005939 Loading required package: bfabricShiny Attaching package: 'bfabricShiny' The following object is masked from 'package:base': save nFacets: 4 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 1280 Loading required package: ggh4x Loading required package: ggplot2 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). Warning: Removed 10 rows containing missing values (`geom_line()`). input timeRange: 7776000 | timeMin: 2023-12-03 07:12:03.877 | timeMax: 2024-02-01 07:12:03.878 | timeDiff: 5184000.00099993 nFacets: 4 nrow dataFiltered(): 1280 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). Warning: Removed 10 rows containing missing values (`geom_line()`). nFacets: 1 reading /scratch/DIAQC/qc/dump/autoQC03-diann.txt Warning: One or more parsing issues, call `problems()` on your data frame for details, e.g.: dat <- vroom(...) problems(dat) nFacets: 1 vals$rawrr: FALSE vals$rawDiag: FALSE vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 234 using 'ggh4x' package ... nrow dataFiltered(): 156 using 'ggh4x' package ... nFacets: 4 nrow dataFiltered(): 936 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 144 using 'ggh4x' package ... NA p34067/Proteomics/LUMOS_1/vismi_20240130/20240130_009_autoQC03dda.raw nFacets: 4 nrow dataFiltered(): 1552 using 'ggh4x' package ... Warning: Removed 1 rows containing missing values (`geom_point()`). NA p34007/Proteomics/LUMOS_1/roschi_20240131_YEAST_DIA_FASP/20240131_007_autoQC01.raw NA nrow dataFiltered(): 1552 using 'ggh4x' package ... Warning: Removed 2 rows containing missing values (`geom_point()`). nrow dataFiltered(): 1552 using 'ggh4x' package ... Warning: Removed 1 rows containing missing values (`geom_point()`). p33780/Proteomics/LUMOS_1/vismi_20231220/20231220_005_autoQC01.raw plotClick: fn has changed to /srv/www/htdocs//p33780/Proteomics/LUMOS_1/vismi_20231220/20231220_005_autoQC01.raw p34007/Proteomics/LUMOS_1/roschi_20240129_YEAST_DIA_insol/20240129_007_autoQC01.raw NA p33780/Proteomics/LUMOS_1/vismi_20231220/20231220_005_autoQC01.raw NA vals$rawrr: TRUE nrow dataFiltered(): 1552 using 'ggh4x' package ... Warning: Removed 1 rows containing missing values (`geom_point()`). Reading raw file: /srv/www/htdocs//p33780/Proteomics/LUMOS_1/vismi_20231220/20231220_005_autoQC01.raw Plotting chromatograms ... Read 22032 items nrow dataFiltered(): 1552 using 'ggh4x' package ... Warning: Removed 2 rows containing missing values (`geom_point()`). nrow dataFiltered(): 1552 using 'ggh4x' package ... Warning: Removed 1 rows containing missing values (`geom_point()`). p33780/Proteomics/LUMOS_1/vismi_20231220/20231220_005_autoQC01.raw plotClick: p34007/Proteomics/LUMOS_1/roschi_20240129_YEAST_DIA_insol/20240129_007_autoQC01.raw plotClick: fn has changed to /srv/www/htdocs//p34007/Proteomics/LUMOS_1/roschi_20240129_YEAST_DIA_insol/20240129_007_autoQC01.raw Reading raw file: /srv/www/htdocs//p34007/Proteomics/LUMOS_1/roschi_20240129_YEAST_DIA_insol/20240129_007_autoQC01.raw Plotting chromatograms ... Read 22032 items Warning in predict.lm(fit, data.frame(xc = xx)) : prediction from rank-deficient fit; attr(*, "non-estim") has doubtful cases NA nrow dataFiltered(): 1552 using 'ggh4x' package ... Warning: Removed 1 rows containing missing values (`geom_point()`). nrow dataFiltered(): 1552 using 'ggh4x' package ... Warning: Removed 1 rows containing missing values (`geom_point()`). p34007/Proteomics/LUMOS_1/roschi_20240129_YEAST_DIA_insol/20240129_001_autoQC01.raw NA p34007/Proteomics/LUMOS_1/roschi_20240131_YEAST_DIA_FASP/20240131_001_autoQC01.raw NA 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$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-03 09:18:20.428148 | timeMax: 2024-02-01 09:18:20.428731 | timeDiff: 5184000.00058341 nFacets: 4 vals$rawrr: FALSE vals$rawDiag: FALSE input timeRange: 7776000 | timeMin: 2023-12-03 08:18:20.428 | timeMax: 2024-02-01 08:18:20.429 | timeDiff: 5184000.00099993 nFacets: 4 nrow dataFiltered(): 1328 using 'ggh4x' package ... Warning: Removed 8 rows containing missing values (`geom_point()`). NA p3000/Proteomics/FUSION_2/chiawei_20240108/20240108_001_autoQC01.raw p3000/Proteomics/FUSION_2/chiawei_20240108/20240108_001_autoQC01.raw nFacets: 4 reading /scratch/DIAQC/qc/dump/autoQC03-diann.txt Warning: One or more parsing issues, call `problems()` on your data frame for details, e.g.: dat <- vroom(...) problems(dat) nFacets: 1 vals$rawrr: FALSE vals$rawDiag: FALSE vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 396 using 'ggh4x' package ... nrow dataFiltered(): 884 using 'ggh4x' package ... NA Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1706771520171591000.json': Permission denied Warning: Error in file: cannot open the connection 34: file 33: writeLines 32: jsonlite::write_json 31: write_logs_json 30: write_logs 29: callback 1: runApp fn has changed to NA fn has changed to NA fn has changed to NA fn has changed to NA nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-03 14:05:33.661881 | timeMax: 2024-02-01 14:05:33.662483 | timeDiff: 5184000.00060129 nFacets: 4 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 1536 using 'ggh4x' package ... Warning: Removed 1 rows containing non-finite values (`stat_smooth()`). Warning: Removed 1 rows containing missing values (`geom_point()`). input timeRange: 7776000 | timeMin: 2023-12-03 13:05:33.662 | timeMax: 2024-02-01 13:05:33.662 | timeDiff: 5184000 nFacets: 4 nrow dataFiltered(): 1536 using 'ggh4x' package ... Warning: Removed 1 rows containing non-finite values (`stat_smooth()`). Warning: Removed 1 rows containing missing values (`geom_point()`). Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1706792730542927000.json': Permission denied 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 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$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-04 06:34:02.162875 | timeMax: 2024-02-02 06:34:02.163455 | timeDiff: 5184000.00058031 nFacets: 4 vals$rawrr: FALSE vals$rawDiag: FALSE input timeRange: 7776000 | timeMin: 2023-12-04 05:34:02.163 | timeMax: 2024-02-02 05:34:02.163 | timeDiff: 5184000 nFacets: 4 nrow dataFiltered(): 1328 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1706852039005692000.json': Permission denied Warning: Error in file: cannot open the connection 34: file 33: writeLines 32: jsonlite::write_json 31: write_logs_json 30: write_logs 29: callback 1: runApp fn has changed to NA fn has changed to NA fn has changed to NA fn has changed to NA nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-04 10:13:39.456138 | timeMax: 2024-02-02 10:13:39.456709 | timeDiff: 5184000.00057077 nFacets: 4 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 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 270 using 'ggh4x' package ... nrow dataFiltered(): 182 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2023-12-04 09:13:39.45614 | timeMax: 2024-02-02 09:13:39.45671 | timeDiff: 5184000.00057006 nFacets: 1 nrow dataFiltered(): 182 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 270 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2023-12-04 09:13:39.456 | timeMax: 2024-02-02 09:13:39.457 | timeDiff: 5184000.00099993 nFacets: 1 nrow dataFiltered(): 182 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 270 using 'ggh4x' package ... NA nrow dataFiltered(): 270 using 'ggh4x' package ... NA nrow dataFiltered(): 182 using 'ggh4x' package ... nFacets: 4 nrow dataFiltered(): 1264 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). NA vals$rawDiag: TRUE vals$rawrr: TRUE p3000/Proteomics/EXPLORIS_2/analytic_20240115/20240115_002_autoQC01.raw 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$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-04 10:55:54.078709 | timeMax: 2024-02-02 10:55:54.079284 | timeDiff: 5184000.00057578 nFacets: 4 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 1264 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). input timeRange: 7776000 | timeMin: 2023-12-04 09:55:54.079 | timeMax: 2024-02-02 09:55:54.079 | timeDiff: 5184000 nFacets: 4 nrow dataFiltered(): 1264 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1706865216426053000.json': Permission denied Warning: Error in file: cannot open the connection 34: file 33: writeLines 32: jsonlite::write_json 31: write_logs_json 30: write_logs 29: callback 1: runApp nrow dataFiltered(): 1264 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). fn has changed to NA fn has changed to NA fn has changed to NA fn has changed to NA nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-04 14:53:32.565162 | timeMax: 2024-02-02 14:53:32.565747 | timeDiff: 5184000.00058508 nFacets: 4 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 1264 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). input timeRange: 7776000 | timeMin: 2023-12-04 13:53:32.565 | timeMax: 2024-02-02 13:53:32.566 | timeDiff: 5184000.00099993 nFacets: 4 nrow dataFiltered(): 1264 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1706867751005420000.json': Permission denied 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 '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1706882009472962000.json': Permission denied 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 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$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-04 15:33:05.091257 | timeMax: 2024-02-02 15:33:05.091835 | timeDiff: 5184000.0005784 nFacets: 4 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 1280 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). input timeRange: 7776000 | timeMin: 2023-12-04 14:33:05.091 | timeMax: 2024-02-02 14:33:05.092 | timeDiff: 5184000.00099993 nFacets: 4 nrow dataFiltered(): 1280 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1706884381977399000.json': Permission denied Warning: Error in file: cannot open the connection 34: file 33: writeLines 32: jsonlite::write_json 31: write_logs_json 30: write_logs 29: callback 1: runApp fn has changed to NA fn has changed to NA fn has changed to NA fn has changed to NA nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-07 09:27:01.617493 | timeMax: 2024-02-05 09:27:01.618066 | timeDiff: 5184000.00057292 nFacets: 4 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 1200 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). input timeRange: 7776000 | timeMin: 2023-12-07 08:27:01.617 | timeMax: 2024-02-05 08:27:01.618 | timeDiff: 5184000.00099993 nFacets: 4 nrow dataFiltered(): 1200 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). nFacets: 4 nrow dataFiltered(): 1536 using 'ggh4x' package ... Warning: Removed 1 rows containing missing values (`geom_point()`). vals$rawrr: TRUE NA p31573/Proteomics/LUMOS_1/milope_20240202/20240202_027_autoQC01.raw plotClick: fn has changed to /srv/www/htdocs//p31573/Proteomics/LUMOS_1/milope_20240202/20240202_027_autoQC01.raw Reading raw file: /srv/www/htdocs//p31573/Proteomics/LUMOS_1/milope_20240202/20240202_027_autoQC01.raw Plotting chromatograms ... Read 22032 items nFacets: 4 reading /scratch/DIAQC/qc/dump/autoQC03-diann.txt Warning: One or more parsing issues, call `problems()` on your data frame for details, e.g.: dat <- vroom(...) problems(dat) nFacets: 1 vals$rawrr: FALSE vals$rawDiag: FALSE vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 144 using 'ggh4x' package ... nrow dataFiltered(): 988 using 'ggh4x' package ... vals$rawrr: TRUE p33686/Proteomics/LUMOS_1/analytic_20240201/20240201_C33686_007_autoQC03dda.raw NA p33686/Proteomics/LUMOS_1/analytic_20240201/20240201_C33686_007_autoQC03dda.raw plotClick: fn has changed to /srv/www/htdocs//p33686/Proteomics/LUMOS_1/analytic_20240201/20240201_C33686_007_autoQC03dda.raw Reading raw file: /srv/www/htdocs//p33686/Proteomics/LUMOS_1/analytic_20240201/20240201_C33686_007_autoQC03dda.raw Plotting chromatograms ... Read 22032 items NA vals$rawrr: TRUE NA plotClick: fn has changed to /srv/www/htdocs//NA Warning in renderUI() : raw file /srv/www/htdocs//NA does not exist. p31573/Proteomics/LUMOS_1/milope_20240202/20240202_028_autoQC03dia.raw Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1707121618620692000.json': Permission denied Warning: Error in file: cannot open the connection 34: file 33: writeLines 32: jsonlite::write_json 31: write_logs_json 30: write_logs 29: callback 1: runApp fn has changed to NA fn has changed to NA fn has changed to NA fn has changed to NA nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-07 12:27:05.870904 | timeMax: 2024-02-05 12:27:05.871474 | timeDiff: 5184000.00056958 nFacets: 4 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 1184 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). input timeRange: 7776000 | timeMin: 2023-12-07 11:27:05.871 | timeMax: 2024-02-05 11:27:05.871 | timeDiff: 5184000 nFacets: 4 nrow dataFiltered(): 1184 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`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(): 270 using 'ggh4x' package ... nrow dataFiltered(): 143 using 'ggh4x' package ... NA nFacets: 1 nrow dataFiltered(): 260 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 126 using 'ggh4x' package ... nFacets: 3 nrow dataFiltered(): 533 using 'ggh4x' package ... `geom_line()`: Each group consists of only one observation. ℹ Do you need to adjust the group aesthetic? nFacets: 1 nrow dataFiltered(): 234 using 'ggh4x' package ... Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1707132422836670000.json': Permission denied 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 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$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-07 17:38:04.176402 | timeMax: 2024-02-05 17:38:04.177361 | timeDiff: 5184000.00095844 nFacets: 4 nFacets: 4 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 1552 using 'ggh4x' package ... Warning: Removed 1 rows containing missing values (`geom_point()`). input timeRange: 7776000 | timeMin: 2023-12-07 16:38:04.176 | timeMax: 2024-02-05 16:38:04.177 | timeDiff: 5184000.00099993 nFacets: 4 nrow dataFiltered(): 1552 using 'ggh4x' package ... Warning: Removed 1 rows containing missing values (`geom_point()`). Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1707151080521454000.json': Permission denied Warning: Error in file: cannot open the connection 34: file 33: writeLines 32: jsonlite::write_json 31: write_logs_json 30: write_logs 29: callback 1: runApp fn has changed to NA fn has changed to NA fn has changed to NA fn has changed to NA nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-08 10:35:49.64332 | timeMax: 2024-02-06 10:35:49.643889 | timeDiff: 5184000.00056934 nFacets: 4 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 1232 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). input timeRange: 7776000 | timeMin: 2023-12-08 09:35:49.643 | timeMax: 2024-02-06 09:35:49.644 | timeDiff: 5184000.00100017 nFacets: 4 nrow dataFiltered(): 1232 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). nFacets: 4 nrow dataFiltered(): 1584 using 'ggh4x' package ... Warning: Removed 1 rows containing missing values (`geom_point()`). p29369/Proteomics/LUMOS_1/moslu_20231205_231212_TTTS_samples/20231205_001_autoQC01.raw 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$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-08 12:54:44.09178 | timeMax: 2024-02-06 12:54:44.092355 | timeDiff: 5184000.00057507 nFacets: 4 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 1232 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). input timeRange: 7776000 | timeMin: 2023-12-08 11:54:44.092 | timeMax: 2024-02-06 11:54:44.092 | timeDiff: 5184000 nFacets: 4 nrow dataFiltered(): 1232 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). nFacets: 4 nrow dataFiltered(): 1600 using 'ggh4x' package ... Warning: Removed 1 rows containing missing values (`geom_point()`). vals$rawrr: TRUE 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(): 144 using 'ggh4x' package ... nrow dataFiltered(): 988 using 'ggh4x' package ... p33686/Proteomics/LUMOS_1/analytic_20240201/20240201_C33686_007_autoQC03dda.raw p31573/Proteomics/LUMOS_1/milope_20240202/20240202_028_autoQC03dia.raw plotClick: fn has changed to /srv/www/htdocs//p31573/Proteomics/LUMOS_1/milope_20240202/20240202_028_autoQC03dia.raw plotClick: plotClick: plotClick: NA p34007/Proteomics/LUMOS_1/roschi_20240129_YEAST_DIA_insol/20240129_015_autoQC03dia.raw NA p31573/Proteomics/LUMOS_1/milope_20240202/20240202_028_autoQC03dia.raw plotClick: Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1707220481043956000.json': Permission denied 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 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$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-08 13:45:22.448851 | timeMax: 2024-02-06 13:45:22.449417 | timeDiff: 5184000.00056672 nFacets: 4 nFacets: 4 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 1600 using 'ggh4x' package ... Warning: Removed 1 rows containing missing values (`geom_point()`). input timeRange: 7776000 | timeMin: 2023-12-08 12:45:22.449 | timeMax: 2024-02-06 12:45:22.449 | timeDiff: 5184000 nFacets: 4 nrow dataFiltered(): 1600 using 'ggh4x' package ... Warning: Removed 1 rows containing missing values (`geom_point()`). NA nFacets: 4 reading /scratch/DIAQC/qc/dump/autoQC03-diann.txt Warning: One or more parsing issues, call `problems()` on your data frame for details, e.g.: dat <- vroom(...) problems(dat) nFacets: 1 vals$rawrr: FALSE vals$rawDiag: FALSE vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 162 using 'ggh4x' package ... nrow dataFiltered(): 988 using 'ggh4x' package ... NA p30646/Proteomics/LUMOS_1/gnarduzzi_20240205/20240205_012_autoQC03dia.raw NA NA plotClick: fn has changed to /srv/www/htdocs//NA fn has changed to NA fn has changed to NA fn has changed to NA fn has changed to NA nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-08 14:18:27.911734 | timeMax: 2024-02-06 14:18:27.912301 | timeDiff: 5184000.00056672 nFacets: 4 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 1232 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). input timeRange: 7776000 | timeMin: 2023-12-08 13:18:27.912 | timeMax: 2024-02-06 13:18:27.912 | timeDiff: 5184000 nFacets: 4 nrow dataFiltered(): 1232 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). NA nFacets: 4 nrow dataFiltered(): 1248 using 'ggh4x' package ... Warning: Removed 6 rows containing missing values (`geom_point()`). p34007/Proteomics/LUMOS_2/cfortes_20240205_yeast_DIA_KF_clean/20240205_004_autoQC01c.raw NA nFacets: 3 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(): 180 using 'ggh4x' package ... nrow dataFiltered(): 507 using 'ggh4x' package ... `geom_line()`: Each group consists of only one observation. ℹ Do you need to adjust the group aesthetic? p34007/Proteomics/LUMOS_2/cfortes_20240205_yeast_DIA_KF_clean/20240205_005_autoQC03dda.raw NA p34007/Proteomics/LUMOS_2/cfortes_20240202_yeast_DIA_KF_clean/20240202_016_autoQC03dia.raw plotClick: fn has changed to /srv/www/htdocs//p34007/Proteomics/LUMOS_2/cfortes_20240202_yeast_DIA_KF_clean/20240202_016_autoQC03dia.raw p34007/Proteomics/LUMOS_2/cfortes_20240205_yeast_DIA_KF_clean/20240205_005_autoQC03dda.raw plotClick: fn has changed to /srv/www/htdocs//p34007/Proteomics/LUMOS_2/cfortes_20240205_yeast_DIA_KF_clean/20240205_005_autoQC03dda.raw NA p34007/Proteomics/LUMOS_2/cfortes_20240205_yeast_DIA_KF_clean/20240205_005_autoQC03dda.raw plotClick: NA Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1707225504887999000.json': Permission denied 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 '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1707223519470747000.json': Permission denied 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 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$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-08 15:50:40.222386 | timeMax: 2024-02-06 15:50:40.222958 | timeDiff: 5184000.00057149 nFacets: 4 vals$rawrr: FALSE vals$rawDiag: FALSE autoQC01 module APEX wide nrow: 259611 input timeRange: 7776000 | timeMin: 2023-12-08 14:50:40.22239 | timeMax: 2024-02-06 14:50:40.22296 | timeDiff: 5184000.00057006 autoQC01 module APEX long nrow: 912 LGGNEQVTR, TPVISGGPYEYR, LFLQFGAQGSPFLK APEXAUC.lg2 Warning: Removed 26 rows containing missing values (`geom_point()`). autoQC01 module APEX long nrow: 936 LGGNEQVTR, TPVISGGPYEYR, LFLQFGAQGSPFLK APEXAUC.lg2 Warning: Removed 26 rows containing missing values (`geom_point()`). NA nFacets: 4 nrow dataFiltered(): 1248 using 'ggh4x' package ... Warning: Removed 6 rows containing missing values (`geom_point()`). input timeRange: 7776000 | timeMin: 2023-12-08 14:50:40.222 | timeMax: 2024-02-06 14:50:40.223 | timeDiff: 5184000.00100017 nFacets: 4 nrow dataFiltered(): 1248 using 'ggh4x' package ... Warning: Removed 6 rows containing missing values (`geom_point()`). NA p34007/Proteomics/LUMOS_2/cfortes_20240205_yeast_DIA_KF_clean/20240205_004_autoQC01c.raw plotClick: fn has changed to /srv/www/htdocs//p34007/Proteomics/LUMOS_2/cfortes_20240205_yeast_DIA_KF_clean/20240205_004_autoQC01c.raw plotClick: p34007/Proteomics/LUMOS_2/cfortes_20240205_yeast_DIA_KF_clean/20240205_004_autoQC01c.raw NA plotClick: p34007/Proteomics/LUMOS_2/cfortes_20240205_yeast_DIA_KF_clean/20240205_004_autoQC01c.raw p34007/Proteomics/LUMOS_2/cfortes_20240205_yeast_DIA_KF_clean/20240205_004_autoQC01c.raw p34007/Proteomics/LUMOS_2/cfortes_20240205_yeast_DIA_KF_clean/20240205_004_autoQC01c.raw p33726/Proteomics/LUMOS_2/analytic_20240111/20240110_C33726_005_autoQC01.raw NA 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 '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1707231037229109000.json': Permission denied 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 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: 2023-12-09 09:59:33.73793 | timeMax: 2024-02-07 09:59:33.738502 | timeDiff: 5184000.00057173 nFacets: 4 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 1232 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). input timeRange: 7776000 | timeMin: 2023-12-09 08:59:33.738 | timeMax: 2024-02-07 08:59:33.739 | timeDiff: 5184000.00100017 nFacets: 4 nrow dataFiltered(): 1232 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). 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$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-09 10:00:29.484127 | timeMax: 2024-02-07 10:00:29.484693 | timeDiff: 5184000.00056648 nFacets: 4 Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1707296426430667000.json': Permission denied Warning: Error in file: cannot open the connection 34: file 33: writeLines 32: jsonlite::write_json 31: write_logs_json 30: write_logs 29: callback 1: runApp fn has changed to NA fn has changed to NA fn has changed to NA fn has changed to NA nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-09 14:26:43.054272 | timeMax: 2024-02-07 14:26:43.055482 | timeDiff: 5184000.00121021 nFacets: 4 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 nFacets: 3 nFacets: 1 vals$rawrr: FALSE vals$rawDiag: FALSE vals$rawrr: FALSE vals$rawDiag: FALSE vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 180 using 'ggh4x' package ... nrow dataFiltered(): 507 using 'ggh4x' package ... `geom_line()`: Each group consists of only one observation. ℹ Do you need to adjust the group aesthetic? input timeRange: 7776000 | timeMin: 2023-12-09 13:26:43.05427 | timeMax: 2024-02-07 13:26:43.05548 | timeDiff: 5184000.00120997 nFacets: 3 nrow dataFiltered(): 507 using 'ggh4x' package ... `geom_line()`: Each group consists of only one observation. ℹ Do you need to adjust the group aesthetic? nFacets: 1 nrow dataFiltered(): 180 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2023-12-09 13:26:43.054 | timeMax: 2024-02-07 13:26:43.055 | timeDiff: 5184000.00100017 nFacets: 3 nrow dataFiltered(): 507 using 'ggh4x' package ... `geom_line()`: Each group consists of only one observation. ℹ Do you need to adjust the group aesthetic? nFacets: 1 nrow dataFiltered(): 180 using 'ggh4x' package ... NA p34007/Proteomics/LUMOS_2/cfortes_20240205_yeast_DIA_KF_clean/20240205_005_autoQC03dda.raw plotClick: fn has changed to /srv/www/htdocs//NA NA plotClick: fn has changed to /srv/www/htdocs//p34007/Proteomics/LUMOS_2/cfortes_20240205_yeast_DIA_KF_clean/20240205_005_autoQC03dda.raw p34007/Proteomics/LUMOS_2/cfortes_20240205_yeast_DIA_KF_clean/20240205_005_autoQC03dda.raw NA plotClick: p34007/Proteomics/LUMOS_2/cfortes_20240205_yeast_DIA_KF_clean/20240205_005_autoQC03dda.raw plotClick: plotClick: p34007/Proteomics/LUMOS_2/cfortes_20240206_yeast_DIA_KF_clean/20240206_020_autoQC03dia.raw plotClick: fn has changed to /srv/www/htdocs//p34007/Proteomics/LUMOS_2/cfortes_20240206_yeast_DIA_KF_clean/20240206_020_autoQC03dia.raw NA p34007/Proteomics/LUMOS_2/cfortes_20240206_yeast_DIA_KF_clean/20240206_020_autoQC03dia.raw plotClick: NA Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1707312393694462000.json': Permission denied 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 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$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-09 14:46:48.17028 | timeMax: 2024-02-07 14:46:48.17085 | timeDiff: 5184000.00057054 nFacets: 4 nFacets: 1 reading /scratch/DIAQC/qc/dump/autoQC03-diann.txt Warning: One or more parsing issues, call `problems()` on your data frame for details, e.g.: dat <- vroom(...) problems(dat) nFacets: 1 vals$rawrr: FALSE vals$rawDiag: FALSE vals$rawrr: FALSE vals$rawDiag: FALSE vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 324 using 'ggh4x' package ... nrow dataFiltered(): 156 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2023-12-09 13:46:48.17028 | timeMax: 2024-02-07 13:46:48.17085 | timeDiff: 5184000.00057006 nFacets: 1 nrow dataFiltered(): 156 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 324 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2023-12-09 13:46:48.17 | timeMax: 2024-02-07 13:46:48.171 | timeDiff: 5184000.00099993 nFacets: 1 nrow dataFiltered(): 156 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 324 using 'ggh4x' package ... nFacets: 4 nrow dataFiltered(): 936 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 360 using 'ggh4x' package ... Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1706775497184204000.json': Permission denied Warning: Error in file: cannot open the connection 34: file 33: writeLines 32: jsonlite::write_json 31: write_logs_json 30: write_logs 29: callback 1: runApp fn has changed to NA fn has changed to NA fn has changed to NA fn has changed to NA nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-09 17:15:54.890136 | timeMax: 2024-02-07 17:15:54.890837 | timeDiff: 5184000.00070119 nFacets: 4 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 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 324 using 'ggh4x' package ... nrow dataFiltered(): 156 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2023-12-09 16:15:54.89014 | timeMax: 2024-02-07 16:15:54.89084 | timeDiff: 5184000.00070024 nFacets: 1 nrow dataFiltered(): 156 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 324 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2023-12-09 16:15:54.89 | timeMax: 2024-02-07 16:15:54.891 | timeDiff: 5184000.00099993 nFacets: 1 nrow dataFiltered(): 156 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 324 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 286 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 126 using 'ggh4x' package ... p34118/Proteomics/EXPLORIS_1/analytic_20240205/20240205_C34118_002b_autoQC03dda.raw p34118/Proteomics/EXPLORIS_1/analytic_20240205/20240205_C34118_027_autoQC03dda.raw p34118/Proteomics/EXPLORIS_1/analytic_20240205/20240205_C34118_002_autoQC03dda.raw p34118/Proteomics/EXPLORIS_1/analytic_20240205/20240205_C34118_027_autoQC03dda.raw p34118/Proteomics/EXPLORIS_1/analytic_20240205/20240205_C34118_002b_autoQC03dda.raw NA p34118/Proteomics/EXPLORIS_1/analytic_20240205/20240205_C34118_002b_autoQC03dda.raw p34118/Proteomics/EXPLORIS_1/analytic_20240205/20240205_C34118_027_autoQC03dda.raw p34118/Proteomics/EXPLORIS_1/analytic_20240205/20240205_C34118_002_autoQC03dda.raw vals$rawrr: TRUE p34118/Proteomics/EXPLORIS_1/analytic_20240205/20240205_C34118_002b_autoQC03dda.raw plotClick: fn has changed to /srv/www/htdocs//p34118/Proteomics/EXPLORIS_1/analytic_20240205/20240205_C34118_002b_autoQC03dda.raw Reading raw file: /srv/www/htdocs//p34118/Proteomics/EXPLORIS_1/analytic_20240205/20240205_C34118_002b_autoQC03dda.raw Plotting chromatograms ... Read 22032 items nrow dataFiltered(): 286 using 'ggh4x' package ... nrow dataFiltered(): 126 using 'ggh4x' package ... NA vals$rawDiag: TRUE plotChargeState reading index for 20240205_C34118_002b_autoQC03dda.raw... vals$rawrr: FALSE p34118/Proteomics/EXPLORIS_1/analytic_20240205/20240205_C34118_002b_autoQC03dda.raw plotClick: plotClick: vals$rawDiag: FALSE vals$rawrr: TRUE p34118/Proteomics/EXPLORIS_1/analytic_20240205/20240205_C34118_027_autoQC03dda.raw plotClick: fn has changed to /srv/www/htdocs//p34118/Proteomics/EXPLORIS_1/analytic_20240205/20240205_C34118_027_autoQC03dda.raw Reading raw file: /srv/www/htdocs//p34118/Proteomics/EXPLORIS_1/analytic_20240205/20240205_C34118_027_autoQC03dda.raw Plotting chromatograms ... Read 22032 items reading index for 20240205_C34118_027_autoQC03dda.raw... p34118/Proteomics/EXPLORIS_1/analytic_20240205/20240205_C34118_002_autoQC03dda.raw plotClick: fn has changed to /srv/www/htdocs//p34118/Proteomics/EXPLORIS_1/analytic_20240205/20240205_C34118_002_autoQC03dda.raw Reading raw file: /srv/www/htdocs//p34118/Proteomics/EXPLORIS_1/analytic_20240205/20240205_C34118_002_autoQC03dda.raw Plotting chromatograms ... Read 22032 items reading index for 20240205_C34118_002_autoQC03dda.raw... vals$rawrr: FALSE vals$rawDiag: TRUE vals$rawDiag: FALSE vals$rawrr: TRUE NA Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1707322551844725000.json': Permission denied Warning: Error in file: cannot open the connection 34: file 33: writeLines 32: jsonlite::write_json 31: write_logs_json 30: write_logs 29: callback 1: runApp fn has changed to NA fn has changed to NA fn has changed to NA fn has changed to NA nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-10 08:39:42.319108 | timeMax: 2024-02-08 08:39:42.319774 | timeDiff: 5184000.00066614 nFacets: 4 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 1184 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). input timeRange: 7776000 | timeMin: 2023-12-10 07:39:42.319 | timeMax: 2024-02-08 07:39:42.32 | timeDiff: 5184000.00099993 nFacets: 4 nrow dataFiltered(): 1184 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). nFacets: 4 nrow dataFiltered(): 1280 using 'ggh4x' package ... Warning: Removed 8 rows containing missing values (`geom_point()`). p34007/Proteomics/LUMOS_2/cfortes_20240206_yeast_DIA_KF_clean/20240207_005_autoQC01b.raw plotClick: fn has changed to /srv/www/htdocs//p34007/Proteomics/LUMOS_2/cfortes_20240206_yeast_DIA_KF_clean/20240207_005_autoQC01b.raw NA p34007/Proteomics/LUMOS_2/cfortes_20240206_yeast_DIA_KF_clean/20240207_005_autoQC01b.raw NA p34007/Proteomics/LUMOS_2/cfortes_20240206_yeast_DIA_KF_clean/20240207_005_autoQC01b.raw plotClick: p34007/Proteomics/LUMOS_2/cfortes_20240206_yeast_DIA_KF_clean/20240207_005_autoQC01b.raw plotClick: p34007/Proteomics/LUMOS_2/cfortes_20240206_yeast_DIA_KF_clean/20240206_019_autoQC01.raw p34007/Proteomics/LUMOS_2/cfortes_20240206_yeast_DIA_KF_clean/20240206_013_autoQC01.raw NA p34007/Proteomics/LUMOS_2/cfortes_20240206_yeast_DIA_KF_clean/20240207_005_autoQC01b.raw plotClick: NA nFacets: 3 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(): 198 using 'ggh4x' package ... nrow dataFiltered(): 507 using 'ggh4x' package ... `geom_line()`: Each group consists of only one observation. ℹ Do you need to adjust the group aesthetic? NA p34007/Proteomics/LUMOS_2/cfortes_20240205_yeast_DIA_KF_clean/20240205_005_autoQC03dda.raw NA plotClick: fn has changed to /srv/www/htdocs//NA plotClick: fn has changed to /srv/www/htdocs//p34007/Proteomics/LUMOS_2/cfortes_20240206_yeast_DIA_KF_clean/20240207_006_autoQC03dia.raw p34007/Proteomics/LUMOS_2/cfortes_20240206_yeast_DIA_KF_clean/20240207_006_autoQC03dia.raw NA p34007/Proteomics/LUMOS_2/cfortes_20240206_yeast_DIA_KF_clean/20240207_006_autoQC03dia.raw plotClick: NA NA p34007/Proteomics/LUMOS_2/cfortes_20240205_yeast_DIA_KF_clean/20240205_005_autoQC03dda.raw plotClick: fn has changed to /srv/www/htdocs//p34007/Proteomics/LUMOS_2/cfortes_20240205_yeast_DIA_KF_clean/20240205_005_autoQC03dda.raw Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1707377978900152000.json': Permission denied 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 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$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-10 14:11:55.27921 | timeMax: 2024-02-08 14:11:55.279974 | timeDiff: 5184000.00076437 nFacets: 4 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 1184 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). input timeRange: 7776000 | timeMin: 2023-12-10 13:11:55.279 | timeMax: 2024-02-08 13:11:55.28 | timeDiff: 5184000.00099993 nFacets: 4 nrow dataFiltered(): 1184 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). nFacets: 4 nrow dataFiltered(): 1296 using 'ggh4x' package ... Warning: Removed 8 rows containing missing values (`geom_point()`). p34162/Proteomics/LUMOS_2/analytic_20240208/20240208_C34162_001_autoQC01.raw plotClick: fn has changed to /srv/www/htdocs//p34162/Proteomics/LUMOS_2/analytic_20240208/20240208_C34162_001_autoQC01.raw NA Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1707397911188063000.json': Permission denied Warning: Error in file: cannot open the connection 34: file 33: writeLines 32: jsonlite::write_json 31: write_logs_json 30: write_logs 29: callback 1: runApp nrow dataFiltered(): 1232 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1707296370714551000.json': Permission denied Warning: Error in file: cannot open the connection 34: file 33: writeLines 32: jsonlite::write_json 31: write_logs_json 30: write_logs 29: callback 1: runApp fn has changed to NA fn has changed to NA fn has changed to NA fn has changed to NA nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-11 08:32:13.904334 | timeMax: 2024-02-09 08:32:13.904921 | timeDiff: 5184000.00058651 nFacets: 4 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 1168 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). input timeRange: 7776000 | timeMin: 2023-12-11 07:32:13.904 | timeMax: 2024-02-09 07:32:13.905 | timeDiff: 5184000.00099993 nFacets: 4 nrow dataFiltered(): 1168 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). 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$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-11 09:30:48.460339 | timeMax: 2024-02-09 09:30:48.460917 | timeDiff: 5184000.00057864 nFacets: 4 nFacets: 4 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 1328 using 'ggh4x' package ... Warning: Removed 8 rows containing missing values (`geom_point()`). input timeRange: 7776000 | timeMin: 2023-12-11 08:30:48.46 | timeMax: 2024-02-09 08:30:48.461 | timeDiff: 5184000.00099993 nFacets: 4 nrow dataFiltered(): 1328 using 'ggh4x' package ... Warning: Removed 8 rows containing missing values (`geom_point()`). nFacets: 3 reading /scratch/DIAQC/qc/dump/autoQC03-diann.txt Warning: One or more parsing issues, call `problems()` on your data frame for details, e.g.: dat <- vroom(...) problems(dat) nFacets: 1 vals$rawrr: FALSE vals$rawDiag: FALSE vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 198 using 'ggh4x' package ... nrow dataFiltered(): 533 using 'ggh4x' package ... `geom_line()`: Each group consists of only one observation. ℹ Do you need to adjust the group aesthetic? NA p34162/Proteomics/LUMOS_2/analytic_20240208/20240208_C34162_009_autoQC03dda.raw nrow dataFiltered(): 533 using 'ggh4x' package ... `geom_line()`: Each group consists of only one observation. ℹ Do you need to adjust the group aesthetic? `geom_line()`: Each group consists of only one observation. ℹ Do you need to adjust the group aesthetic? vals$rawrr: TRUE nrow dataFiltered(): 533 using 'ggh4x' package ... `geom_line()`: Each group consists of only one observation. ℹ Do you need to adjust the group aesthetic? plotClick: fn has changed to /srv/www/htdocs//p34162/Proteomics/LUMOS_2/analytic_20240208/20240208_C34162_009_autoQC03dda.raw Reading raw file: /srv/www/htdocs//p34162/Proteomics/LUMOS_2/analytic_20240208/20240208_C34162_009_autoQC03dda.raw Plotting chromatograms ... Read 22032 items NA p34162/Proteomics/LUMOS_2/analytic_20240208/20240208_C34162_009_autoQC03dda.raw plotClick: Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1707467445434419000.json': Permission denied 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 '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1707463930868246000.json': Permission denied 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 '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1707212146611728000.json': Permission denied 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 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$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-11 23:56:00.204789 | timeMax: 2024-02-09 23:56:00.205426 | timeDiff: 5184000.00063634 nFacets: 4 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 1136 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). input timeRange: 7776000 | timeMin: 2023-12-11 22:56:00.205 | timeMax: 2024-02-09 22:56:00.205 | timeDiff: 5184000 nFacets: 4 nrow dataFiltered(): 1136 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). nFacets: 4 nrow dataFiltered(): 1648 using 'ggh4x' package ... Warning: Removed 1 rows containing missing values (`geom_point()`). p34007/Proteomics/LUMOS_1/roschi_20240123_YEAST_DIA/20240123_014_autoQC01.raw NA p34007/Proteomics/LUMOS_1/roschi_20240131_YEAST_DIA_FASP/20240208_029_autoQC01.raw plotClick: fn has changed to /srv/www/htdocs//p34007/Proteomics/LUMOS_1/roschi_20240131_YEAST_DIA_FASP/20240208_029_autoQC01.raw NA vals$rawrr: TRUE Reading raw file: /srv/www/htdocs//p34007/Proteomics/LUMOS_1/roschi_20240131_YEAST_DIA_FASP/20240208_029_autoQC01.raw Plotting chromatograms ... Read 22032 items p34007/Proteomics/LUMOS_1/roschi_20240131_YEAST_DIA_FASP/20240208_029_autoQC01.raw plotClick: Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1707519357132148000.json': Permission denied 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 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$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-13 07:30:00.42928 | timeMax: 2024-02-11 07:30:00.429881 | timeDiff: 5184000.00060177 nFacets: 4 Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1707632997403385000.json': Permission denied Warning: Error in file: cannot open the connection 34: file 33: writeLines 32: jsonlite::write_json 31: write_logs_json 30: write_logs 29: callback 1: runApp fn has changed to NA fn has changed to NA fn has changed to NA fn has changed to NA nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-14 08:38:44.427185 | timeMax: 2024-02-12 08:38:44.427756 | timeDiff: 5184000.00057077 nFacets: 4 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 1024 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). input timeRange: 7776000 | timeMin: 2023-12-14 07:38:44.427 | timeMax: 2024-02-12 07:38:44.428 | timeDiff: 5184000.00099993 nFacets: 4 nrow dataFiltered(): 1024 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). 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$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-14 10:20:00.216552 | timeMax: 2024-02-12 10:20:00.217121 | timeDiff: 5184000.00056911 nFacets: 4 nFacets: 1 reading /scratch/DIAQC/qc/dump/autoQC03-diann.txt Warning: One or more parsing issues, call `problems()` on your data frame for details, e.g.: dat <- vroom(...) problems(dat) nFacets: 1 vals$rawrr: FALSE vals$rawDiag: FALSE vals$rawrr: FALSE vals$rawDiag: FALSE vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 324 using 'ggh4x' package ... nrow dataFiltered(): 143 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2023-12-14 09:20:00.21655 | timeMax: 2024-02-12 09:20:00.21712 | timeDiff: 5184000.00057006 nFacets: 1 nrow dataFiltered(): 143 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 324 using 'ggh4x' package ... input timeRange: 7776000 | timeMin: 2023-12-14 09:20:00.217 | timeMax: 2024-02-12 09:20:00.217 | timeDiff: 5184000 nFacets: 1 nrow dataFiltered(): 143 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 324 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 338 using 'ggh4x' package ... nFacets: 1 nrow dataFiltered(): 0 NA Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1707723521409666000.json': Permission denied Warning: Error in file: cannot open the connection 34: file 33: writeLines 32: jsonlite::write_json 31: write_logs_json 30: write_logs 29: callback 1: runApp fn has changed to NA fn has changed to NA fn has changed to NA fn has changed to NA nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-14 12:36:34.575239 | timeMax: 2024-02-12 12:36:34.575807 | timeDiff: 5184000.00056767 nFacets: 4 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 1136 using 'ggh4x' package ... Warning: Removed 40 rows containing missing values (`geom_point()`). Warning: Removed 14 rows containing missing values (`geom_line()`). input timeRange: 7776000 | timeMin: 2023-12-14 11:36:34.575 | timeMax: 2024-02-12 11:36:34.576 | timeDiff: 5184000.00099993 nFacets: 4 nrow dataFiltered(): 1136 using 'ggh4x' package ... Warning: Removed 40 rows containing missing values (`geom_point()`). Warning: Removed 14 rows containing missing values (`geom_line()`). Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1707729597188472000.json': Permission denied 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 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$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-14 12:40:02.125301 | timeMax: 2024-02-12 12:40:02.125918 | timeDiff: 5184000.00061727 nFacets: 4 vals$rawrr: FALSE vals$rawDiag: FALSE input timeRange: 7776000 | timeMin: 2023-12-14 11:40:02.125 | timeMax: 2024-02-12 11:40:02.126 | timeDiff: 5184000.00099993 nFacets: 4 nrow dataFiltered(): 1136 using 'ggh4x' package ... Warning: Removed 40 rows containing missing values (`geom_point()`). Warning: Removed 14 rows containing missing values (`geom_line()`). Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1707737791537064000.json': Permission denied Warning: Error in file: cannot open the connection 34: file 33: writeLines 32: jsonlite::write_json 31: write_logs_json 30: write_logs 29: callback 1: runApp Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1707737999115916000.json': Permission denied Warning: Error in file: cannot open the connection 34: file 33: writeLines 32: jsonlite::write_json 31: write_logs_json 30: write_logs 29: callback 1: runApp fn has changed to NA fn has changed to NA fn has changed to NA fn has changed to NA nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-14 12:43:19.960699 | timeMax: 2024-02-12 12:43:19.961268 | timeDiff: 5184000.00056863 nFacets: 4 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$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-14 12:43:29.504606 | timeMax: 2024-02-12 12:43:29.505176 | timeDiff: 5184000.00056958 nFacets: 4 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 1024 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). input timeRange: 7776000 | timeMin: 2023-12-14 11:43:29.505 | timeMax: 2024-02-12 11:43:29.505 | timeDiff: 5184000 nFacets: 4 nrow dataFiltered(): 1024 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). nFacets: 4 nrow dataFiltered(): 1424 using 'ggh4x' package ... Warning: Removed 8 rows containing missing values (`geom_point()`). Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1707738196978004000.json': Permission denied Warning: Error in file: cannot open the connection 34: file 33: writeLines 32: jsonlite::write_json 31: write_logs_json 30: write_logs 29: callback 1: runApp NA p33678/Proteomics/LUMOS_2/analytic_20231214/20231214_C33678_001_autoQC01.raw NA p33678/Proteomics/LUMOS_2/analytic_20231214/20231214_C33678_001_autoQC01.raw NA nFacets: 3 reading /scratch/DIAQC/qc/dump/autoQC03-diann.txt Warning: One or more parsing issues, call `problems()` on your data frame for details, e.g.: dat <- vroom(...) problems(dat) nFacets: 1 vals$rawrr: FALSE vals$rawDiag: FALSE vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 198 using 'ggh4x' package ... nrow dataFiltered(): 533 using 'ggh4x' package ... `geom_line()`: Each group consists of only one observation. ℹ Do you need to adjust the group aesthetic? autoQC01 module APEX wide nrow: 260117 autoQC01 module APEX long nrow: 1068 LGGNEQVTR, TPVISGGPYEYR, LFLQFGAQGSPFLK APEXAUC.lg2 Warning: Removed 30 rows containing missing values (`geom_point()`). Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1707738206462743000.json': Permission denied Warning: Error in file: cannot open the connection 34: file 33: writeLines 32: jsonlite::write_json 31: write_logs_json 30: write_logs 29: callback 1: runApp fn has changed to NA fn has changed to NA fn has changed to NA fn has changed to NA nFacets: 4 Warning: Error in if: argument is of length zero 97: renderUI 96: func 83: renderFunc 82: output$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-14 12:45:23.492852 | timeMax: 2024-02-12 12:45:23.493516 | timeDiff: 5184000.00066376 nFacets: 4 nFacets: 4 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 1136 using 'ggh4x' package ... Warning: Removed 40 rows containing missing values (`geom_point()`). Warning: Removed 14 rows containing missing values (`geom_line()`). input timeRange: 7776000 | timeMin: 2023-12-14 11:45:23.493 | timeMax: 2024-02-12 11:45:23.494 | timeDiff: 5184000.00099993 nFacets: 4 nrow dataFiltered(): 1136 using 'ggh4x' package ... Warning: Removed 40 rows containing missing values (`geom_point()`). Warning: Removed 14 rows containing missing values (`geom_line()`). nFacets: 1 reading /scratch/DIAQC/qc/dump/autoQC03-diann.txt Warning: One or more parsing issues, call `problems()` on your data frame for details, e.g.: dat <- vroom(...) problems(dat) nFacets: 1 vals$rawrr: FALSE vals$rawDiag: FALSE vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 0 nrow dataFiltered(): 338 using 'ggh4x' package ... NA p33996/Proteomics/QEXACTIVE_1/analytic_20240118/20240118_C33996_009_autoQC03dda.raw NA Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1707738320406454000.json': Permission denied 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 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$__autoQC01__-ui 1: runApp input timeRange: 7776000 | timeMin: 2023-12-14 18:00:56.445232 | timeMax: 2024-02-12 18:00:56.445806 | timeDiff: 5184000.00057364 nFacets: 4 vals$rawrr: FALSE vals$rawDiag: FALSE nrow dataFiltered(): 1008 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). input timeRange: 7776000 | timeMin: 2023-12-14 17:00:56.445 | timeMax: 2024-02-12 17:00:56.446 | timeDiff: 5184000.00100017 nFacets: 4 nrow dataFiltered(): 1008 using 'ggh4x' package ... Warning: Removed 10 rows containing missing values (`geom_point()`). nFacets: 4 nrow dataFiltered(): 1616 using 'ggh4x' package ... Warning: Removed 1 rows containing missing values (`geom_point()`). vals$rawrr: TRUE 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(): 162 using 'ggh4x' package ... nrow dataFiltered(): 988 using 'ggh4x' package ... p3000/Proteomics/LUMOS_1/pgehrig_20240206_Dimethylation/20240207_33_autoQC03dda.raw plotClick: fn has changed to /srv/www/htdocs//p3000/Proteomics/LUMOS_1/pgehrig_20240206_Dimethylation/20240207_33_autoQC03dda.raw Warning in file(con, "w") : cannot open file '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1707757253409348000.json': Permission denied 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 '/usr/local/lib/R/site-library/fgczqcms/shiny/fgczqcms-dashboard/logs-qc/shinylogs_fgczqcms-dashboard_1707313604794985000.json': Permission denied 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 Execution halted