Listening on http://127.0.0.1:37787 Loading required package: shinydashboard Attaching package: 'shinydashboard' The following object is masked from 'package:graphics': box Loading required package: readr Loading required package: reshape2 Loading required package: lattice Loading required package: rawrr fn has changed to NA fn has changed to NA fn has changed to NA fn has changed to NA input timeRange: 7776000 | timeMin: 2023-11-08 08:44:56.407981 | timeMax: 2023-11-29 08:44:56.408619 | timeDiff: 1814400.00063753 Loading required package: bfabricShiny Attaching package: 'bfabricShiny' The following object is masked from 'package:base': save input timeRange: 7776000 | timeMin: 2023-11-08 07:44:56.408 | timeMax: 2023-11-29 07:44:56.409 | timeDiff: 1814400.00099993 nrow dataFiltered(): 54 nrow dataFiltered(): 104 nrow dataFiltered(): 0 nrow dataFiltered(): 0 fn has changed to NA fn has changed to NA fn has changed to NA fn has changed to NA input timeRange: 7776000 | timeMin: 2023-11-08 09:22:43.192316 | timeMax: 2023-11-29 09:22:43.19391 | timeDiff: 1814400.00159383 input timeRange: 7776000 | timeMin: 2023-11-08 08:22:43.192 | timeMax: 2023-11-29 08:22:43.194 | timeDiff: 1814400.00200009 New names: • `0` -> `0...6` • `0` -> `0...17` Warning: The following named parsers don't match the column names: Time, Size, Precursors.Identified, Proteins.Identified Warning: Error in : id variables not found in data: Md5, File.Name, time 139: stop 138: melt_check 137: melt.data.frame 135: readFUN 134: 118: data 116: 100: dataVariables 97: renderUI 96: func 83: renderFunc 82: output$autoQC03-DIA-variable 1: runApp Warning: Error in : id variables not found in data: Md5, File.Name, time 200: 199: stop 198: data 191: 189: .func 186: contextFunc 185: env$runWith 178: ctx$run 177: self$.updateValue 175: dataFiltered 168: renderPlot 166: func 126: drawPlot 112: 96: drawReactive 83: renderFunc 82: output$autoQC03-DIA-plot 1: runApp nrow dataFiltered(): 104 nrow dataFiltered(): 650 fn has changed to NA fn has changed to NA fn has changed to NA fn has changed to NA input timeRange: 7776000 | timeMin: 2023-11-08 09:25:21.850027 | timeMax: 2023-11-29 09:25:21.850667 | timeDiff: 1814400.00064015 input timeRange: 7776000 | timeMin: 2023-11-08 08:25:21.85 | timeMax: 2023-11-29 08:25:21.851 | timeDiff: 1814400.00100017 nrow dataFiltered(): 1628 Warning: Removed 30 rows containing missing values (`geom_point()`). nrow dataFiltered(): 54 nrow dataFiltered(): 104 fn has changed to NA fn has changed to NA fn has changed to NA fn has changed to NA input timeRange: 7776000 | timeMin: 2023-11-08 10:55:26.916379 | timeMax: 2023-11-29 10:55:26.917413 | timeDiff: 1814400.00103402 input timeRange: 7776000 | timeMin: 2023-11-08 09:55:26.916 | timeMax: 2023-11-29 09:55:26.917 | timeDiff: 1814400.00100017 nrow dataFiltered(): 1628 Warning: Removed 30 rows containing missing values (`geom_point()`). nrow dataFiltered(): 1628 Warning: Removed 6 rows containing missing values (`geom_point()`). NA nrow dataFiltered(): 162 nrow dataFiltered(): 650 NA nrow dataFiltered(): 162 nrow dataFiltered(): 162 plotClick: fn has changed to /srv/www/htdocs//p33212/Proteomics/FUSION_2/chiawei_20231121/20231121_002_S580219_K562_incl_iRT_3_autoQC03dia.raw p33212/Proteomics/FUSION_2/chiawei_20231121/20231121_002_S580219_K562_incl_iRT_3_autoQC03dia.raw Reading raw file: /srv/www/htdocs//p33212/Proteomics/FUSION_2/chiawei_20231121/20231121_002_S580219_K562_incl_iRT_3_autoQC03dia.raw Plotting chromatograms ... Read 22032 items fn has changed to NA fn has changed to NA fn has changed to NA fn has changed to NA input timeRange: 7776000 | timeMin: 2023-11-08 10:57:38.371482 | timeMax: 2023-11-29 10:57:38.372142 | timeDiff: 1814400.00065947 input timeRange: 7776000 | timeMin: 2023-11-08 09:57:38.371 | timeMax: 2023-11-29 09:57:38.372 | timeDiff: 1814400.00099993 nrow dataFiltered(): 1628 Warning: Removed 30 rows containing missing values (`geom_point()`). nrow dataFiltered(): 0 NA nrow dataFiltered(): 72 nrow dataFiltered(): 0 input timeRange: 7776000 | timeMin: 2023-09-13 09:57:48.032 | timeMax: 2023-11-29 09:57:38.372 | timeDiff: 6652790.33999991 nrow dataFiltered(): 0 nrow dataFiltered(): 72 p3000/Proteomics/TIMSTOF_1/spfammatter_20231120/zip/20231120_006_autoQC03_diaPASEF.d.zip plotClick: fn has changed to /srv/www/htdocs//p3000/Proteomics/TIMSTOF_1/spfammatter_20231120/zip/20231120_006_autoQC03_diaPASEF.d.zip Reading raw file: /srv/www/htdocs//p3000/Proteomics/TIMSTOF_1/spfammatter_20231120/zip/20231120_006_autoQC03_diaPASEF.d.zip Warning: Error in .rawrrSystem2Source: Rcode file to parse does not exist. '/var/www/.cache/R/rawrr/rawrrassembly/rawrr.exe' failed for an unknown reason. Please check the debug files: /tmp/RtmpSrLWn2/fileb6f8974d2b2ad.stderr /tmp/RtmpSrLWn2/fileb6f8945614244.stdout and the System Requirements 194: stop 193: .rawrrSystem2Source 192: rawrr::readChromatogram 191: 189: .func 186: contextFunc 185: env$runWith 178: ctx$run 177: self$.updateValue 175: peptideProfile 168: renderPlot 166: func 126: drawPlot 112: 96: drawReactive 83: renderFunc 82: output$autoQC03-DIA-rawrr-autoQC03-plotChromatograms 1: runApp Read 22032 items Warning: Error in .rawrrSystem2Source: Rcode file to parse does not exist. '/var/www/.cache/R/rawrr/rawrrassembly/rawrr.exe' failed for an unknown reason. Please check the debug files: /tmp/RtmpSrLWn2/fileb6f8974d2b2ad.stderr /tmp/RtmpSrLWn2/fileb6f8945614244.stdout and the System Requirements 174: 173: stop 172: peptideProfile 168: renderPlot 166: func 126: drawPlot 112: 96: drawReactive 83: renderFunc 82: output$autoQC03-DIA-rawrr-autoQC03-plotTools 1: runApp Warning: Error in .rawrrSystem2Source: Rcode file to parse does not exist. '/var/www/.cache/R/rawrr/rawrrassembly/rawrr.exe' failed for an unknown reason. Please check the debug files: /tmp/RtmpSrLWn2/fileb6f8974d2b2ad.stderr /tmp/RtmpSrLWn2/fileb6f8945614244.stdout and the System Requirements 171: 170: stop 169: peptideProfile 168: renderPlot 166: func 126: drawPlot 112: 96: drawReactive 83: renderFunc 82: output$autoQC03-DIA-rawrr-autoQC03-plotProfiles 1: runApp NA p33383/Proteomics/TIMSTOF_1/spfammatter_20231128_/zip/20231128_001_autoQC03diaPASEF.d.zip p33383/Proteomics/TIMSTOF_1/spfammatter_20231128_/zip/20231128_001_autoQC03diaPASEF.d.zip NA nrow dataFiltered(): 72 nrow dataFiltered(): 72 nrow dataFiltered(): 72 nrow dataFiltered(): 72 Execution halted