CRAN Package Check Results for Package COMBIA

Last updated on 2018-05-09 22:48:15 CEST.

Flavor Version Tinstall Tcheck Ttotal Status Flags
r-devel-linux-x86_64-debian-clang 1.0.5 4.25 50.72 54.97 ERROR
r-devel-linux-x86_64-debian-gcc 1.0.5 4.15 39.53 43.68 ERROR
r-devel-linux-x86_64-fedora-clang 1.0.5 70.66 OK
r-devel-linux-x86_64-fedora-gcc 1.0.5 68.53 OK
r-devel-windows-ix86+x86_64 1.0.5 11.00 84.00 95.00 OK
r-patched-linux-x86_64 1.0.5 3.00 44.80 47.80 ERROR
r-patched-solaris-x86 1.0.5 92.00 OK
r-release-linux-x86_64 1.0.5 4.41 44.48 48.89 ERROR
r-release-windows-ix86+x86_64 1.0.5 11.00 84.00 95.00 OK
r-release-osx-x86_64 1.0.5 OK
r-oldrel-windows-ix86+x86_64 1.0.5 8.00 65.00 73.00 OK
r-oldrel-osx-x86_64 1.0.5 OK

Check Details

Version: 1.0.5
Check: examples
Result: ERROR
    Running examples in ‘COMBIA-Ex.R’ failed
    The error most likely occurred in:
    
    > base::assign(".ptime", proc.time(), pos = "CheckExEnv")
    > ### Name: analyzeCOMBO
    > ### Title: This function calculates significant synergy/antagonism
    > ### according to Bliss or Loewe model and saves scientific publication
    > ### ready graphs.
    > ### Aliases: analyzeCOMBO
    >
    > ### ** Examples
    >
    > fl <- system.file("extdata", "testData.csv", package="COMBIA")
    > wellR <- list(c("l3:l10","m3:m10","b3:k10", "l13:l20","m13:m20","b13:k20",
    + "l23:l30","m23:m30","b23:k30", "l33:l40","m33:m40","b33:k40") )
    > mdl <- "bliss"
    > xConc <- c(0.00, 0.20, 0.39, 0.78, 1.56, 3.12, 6.25, 12.50, 25.00, 50)
    > yConc <- c(128, 64, 32, 16, 8, 4, 2, 0)
    > xDrug <- "A"
    > yDrug <- "B"
    > cellLine <-"Cell"
    > analyzeCOMBO(filename = c(fl), model = "bliss", inputFormates = "macsynergy",
    + wells = wellR, yConcentration = yConc, xConcentration = xConc,
    + xDrug = xDrug, yDrug=yDrug, cellLine = cellLine, nBoot=500)
    [1] "Ratio between empty and control 215.34756097561"
    [1] "CV for control: 1 : 2.30698484671909"
    [1] "Ratio between empty and control 216.431571815718"
    [1] "CV for control: 2 : 3.97477131010254"
    [1] "Ratio between empty and control 212.255570117955"
    [1] "CV for control: 3 : 6.4008999376604"
    [1] "Ratio between empty and control 191.453473132372"
    [1] "CV for control: 4 : 5.87005801002331"
    [1] "Number of the variable datapoints before data removal= 22"
     [,1] [,2] [,3] [,4] [,5] [,6] [,7]
    [1,] 0.4959273 0.4544325 0.4527889 0.5141335 0.7657826 0.8754745 0.9742680
    [2,] 0.5282520 0.4508880 0.4907902 0.5426933 0.7353865 0.9182928 0.9180664
    [3,] 0.4939636 0.4681056 0.5032695 0.5585093 0.7629166 0.8590776 0.9670757
    [4,] 0.5893432 0.5392455 0.5748920 0.6414779 0.8667800 0.9914462 1.0411311
     [,8] [,9] [,10] [,11] [,12] [,13] [,14]
    [1,] 0.9653167 0.3883595 0.4311439 0.5377761 0.5499641 0.7446938 0.8205780
    [2,] 0.8856867 0.4417552 0.5078481 0.5198489 0.6046601 0.7495008 0.8080710
    [3,] 1.0026615 0.3025846 0.4016490 0.5368700 0.5787590 0.7088183 0.8592761
    [4,] 0.9958504 0.4488219 0.5907471 0.5606334 0.6452214 0.7078161 0.8624584
     [,15] [,16] [,17] [,18] [,19] [,20] [,21]
    [1,] 0.9662776 0.9516621 0.3719992 0.4589335 0.5391416 0.5714069 0.6952844
    [2,] 0.8874478 0.8987191 0.4345346 0.5168550 0.5483290 0.5782179 0.6729921
    [3,] 0.9738752 0.9966561 0.3164069 0.4027905 0.5139402 0.5712646 0.7147492
    [4,] 0.9743249 0.8783960 0.4989471 0.5837279 0.5916279 0.6235858 0.7095227
     [,22] [,23] [,24] [,25] [,26] [,27] [,28]
    [1,] 0.8367865 0.9272861 0.9249851 0.14439735 0.2005835 0.3076203 0.5062694
    [2,] 0.8237954 0.8538857 0.8311670 0.08167886 0.2314255 0.0000000 0.3672844
    [3,] 0.8314577 0.9330037 0.9559334 0.06050699 0.0000000 0.1937179 0.4452006
    [4,] 0.8354551 0.8611646 0.8680737 0.05142586 0.0000000 0.1851207 0.6040147
     [,29] [,30] [,31] [,32] [,33] [,34] [,35]
    [1,] 0.4562531 0.6521713 0.6713130 0.7385240 0.05020593 0.05465631 0.06740060
    [2,] 0.4803995 0.5218113 0.6356309 0.6285863 0.03475723 0.05490963 0.06658343
    [3,] 0.4499404 0.6100268 0.6939040 0.8689294 0.02834578 0.04132442 0.06430379
    [4,] 0.4855143 0.5217113 0.6216590 0.6994481 0.03135924 0.05079276 0.13865645
     [,36] [,37] [,38] [,39] [,40] [,41] [,42]
    [1,] 0.12429475 0.1606059 0.2181069 0.2718402 0.3368766 0.02754941 0.04739915
    [2,] 0.08167886 0.1406768 0.2105184 0.2518295 0.3291433 0.03548684 0.04884630
    [3,] 0.08065737 0.1508611 0.1835683 0.2876951 0.3136276 0.03569124 0.04281336
    [4,] 0.13160973 0.2082152 0.2306766 0.3238528 0.3092915 0.05068265 0.04264499
     [,43] [,44] [,45] [,46] [,47] [,48] [,49]
    [1,] 0.06808333 0.08942496 0.1572175 0.1623506 0.2106727 0.2543674 0.01933137
    [2,] 0.07347701 0.11561843 0.1250531 0.1410291 0.2056878 0.2528611 0.03053051
    [3,] 0.08353600 0.08701020 0.1579832 0.2060017 0.3179703 0.2390066 0.02948731
    [4,] 0.11102012 0.08302596 0.1467216 0.1699538 0.2212626 0.2220058 0.04085579
     [,50] [,51] [,52] [,53] [,54] [,55] [,56]
    [1,] 0.03738578 0.06740060 0.09645455 0.1303635 0.1664470 0.1984847 0.2228354
    [2,] 0.04690905 0.06693566 0.07219390 0.1162222 0.1463879 0.1632948 0.1580617
    [3,] 0.05544457 0.08321339 0.11244634 0.1846601 0.1907400 0.2458806 0.2747413
    [4,] 0.05445374 0.08222770 0.12626965 0.1550896 0.2057103 0.2272083 0.2090685
     [,57] [,58] [,59] [,60] [,61] [,62] [,63]
    [1,] 0.01025359 0.01930608 0.04671642 0.04841060 0.10983099 0.1492017 0.1828325
    [2,] 0.03060599 0.03719766 0.05735006 0.04758835 0.10417106 0.1408530 0.1359973
    [3,] 0.01926322 0.05350895 0.05651165 0.08440455 0.09614239 0.1644601 0.1522012
    [4,] 0.02222054 0.04581051 0.04608577 0.06967574 0.11129538 0.1729541 0.1654670
     [,64] [,65] [,66] [,67] [,68] [,69]
    [1,] 0.0000000 -0.0005689415 0.001226385 0.006915800 0.001555107 0.007674388
    [2,] 0.1718489 0.0030316658 0.001496964 0.002729757 0.015233806 0.041273425
    [3,] 0.1958769 0.0100813956 0.008840608 0.015441596 0.042292230 0.029065439
    [4,] 0.1998748 0.0032825016 0.011320157 0.007466487 0.002208979 0.045507721
     [,70] [,71] [,72] [,73] [,74] [,75]
    [1,] 0.005423909 0.03877652 0.00643536 0.000265506 0.0006700866 0.0003160786
    [2,] 0.012994651 0.04655683 0.02595156 0.001673077 0.0009434645 0.0061765474
    [3,] 0.012165918 0.04110107 0.02296077 0.002115542 0.0017184902 0.0017184902
    [4,] 0.019302761 0.02464285 0.09648628 0.001135457 0.0005849321 0.0001720389
     [,76] [,77] [,78] [,79] [,80]
    [1,] -2.149334e-04 0.0003919375 -0.0002402197 0.0016056793 0.0011758124
    [2,] 5.157606e-04 0.0005157606 0.0001383748 0.0020756218 0.0010189416
    [3,] -1.861181e-05 0.0013958855 0.0001799141 0.0007258605 0.0001302827
    [4,] 1.720389e-04 0.0014657711 0.0008601943 0.0012730876 -0.0002959069
    [1] "Number of the variable datapoints after data removal= 19"
    [1] "Applying Bliss model"
    Warning in file(file, ifelse(append, "a", "w")) :
     cannot open file '/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/COMBIAAnalyzedData_A_B_Cell.csv': Read-only file system
    Error in file(file, ifelse(append, "a", "w")) :
     cannot open the connection
    Calls: analyzeCOMBO ... write.csv -> eval.parent -> eval -> eval -> write.table -> file
    Execution halted
Flavor: r-devel-linux-x86_64-debian-clang

Version: 1.0.5
Check: examples
Result: ERROR
    Running examples in ‘COMBIA-Ex.R’ failed
    The error most likely occurred in:
    
    > base::assign(".ptime", proc.time(), pos = "CheckExEnv")
    > ### Name: analyzeCOMBO
    > ### Title: This function calculates significant synergy/antagonism
    > ### according to Bliss or Loewe model and saves scientific publication
    > ### ready graphs.
    > ### Aliases: analyzeCOMBO
    >
    > ### ** Examples
    >
    > fl <- system.file("extdata", "testData.csv", package="COMBIA")
    > wellR <- list(c("l3:l10","m3:m10","b3:k10", "l13:l20","m13:m20","b13:k20",
    + "l23:l30","m23:m30","b23:k30", "l33:l40","m33:m40","b33:k40") )
    > mdl <- "bliss"
    > xConc <- c(0.00, 0.20, 0.39, 0.78, 1.56, 3.12, 6.25, 12.50, 25.00, 50)
    > yConc <- c(128, 64, 32, 16, 8, 4, 2, 0)
    > xDrug <- "A"
    > yDrug <- "B"
    > cellLine <-"Cell"
    > analyzeCOMBO(filename = c(fl), model = "bliss", inputFormates = "macsynergy",
    + wells = wellR, yConcentration = yConc, xConcentration = xConc,
    + xDrug = xDrug, yDrug=yDrug, cellLine = cellLine, nBoot=500)
    [1] "Ratio between empty and control 215.34756097561"
    [1] "CV for control: 1 : 2.30698484671909"
    [1] "Ratio between empty and control 216.431571815718"
    [1] "CV for control: 2 : 3.97477131010254"
    [1] "Ratio between empty and control 212.255570117955"
    [1] "CV for control: 3 : 6.4008999376604"
    [1] "Ratio between empty and control 191.453473132372"
    [1] "CV for control: 4 : 5.87005801002331"
    [1] "Number of the variable datapoints before data removal= 22"
     [,1] [,2] [,3] [,4] [,5] [,6] [,7]
    [1,] 0.4959273 0.4544325 0.4527889 0.5141335 0.7657826 0.8754745 0.9742680
    [2,] 0.5282520 0.4508880 0.4907902 0.5426933 0.7353865 0.9182928 0.9180664
    [3,] 0.4939636 0.4681056 0.5032695 0.5585093 0.7629166 0.8590776 0.9670757
    [4,] 0.5893432 0.5392455 0.5748920 0.6414779 0.8667800 0.9914462 1.0411311
     [,8] [,9] [,10] [,11] [,12] [,13] [,14]
    [1,] 0.9653167 0.3883595 0.4311439 0.5377761 0.5499641 0.7446938 0.8205780
    [2,] 0.8856867 0.4417552 0.5078481 0.5198489 0.6046601 0.7495008 0.8080710
    [3,] 1.0026615 0.3025846 0.4016490 0.5368700 0.5787590 0.7088183 0.8592761
    [4,] 0.9958504 0.4488219 0.5907471 0.5606334 0.6452214 0.7078161 0.8624584
     [,15] [,16] [,17] [,18] [,19] [,20] [,21]
    [1,] 0.9662776 0.9516621 0.3719992 0.4589335 0.5391416 0.5714069 0.6952844
    [2,] 0.8874478 0.8987191 0.4345346 0.5168550 0.5483290 0.5782179 0.6729921
    [3,] 0.9738752 0.9966561 0.3164069 0.4027905 0.5139402 0.5712646 0.7147492
    [4,] 0.9743249 0.8783960 0.4989471 0.5837279 0.5916279 0.6235858 0.7095227
     [,22] [,23] [,24] [,25] [,26] [,27] [,28]
    [1,] 0.8367865 0.9272861 0.9249851 0.14439735 0.2005835 0.3076203 0.5062694
    [2,] 0.8237954 0.8538857 0.8311670 0.08167886 0.2314255 0.0000000 0.3672844
    [3,] 0.8314577 0.9330037 0.9559334 0.06050699 0.0000000 0.1937179 0.4452006
    [4,] 0.8354551 0.8611646 0.8680737 0.05142586 0.0000000 0.1851207 0.6040147
     [,29] [,30] [,31] [,32] [,33] [,34] [,35]
    [1,] 0.4562531 0.6521713 0.6713130 0.7385240 0.05020593 0.05465631 0.06740060
    [2,] 0.4803995 0.5218113 0.6356309 0.6285863 0.03475723 0.05490963 0.06658343
    [3,] 0.4499404 0.6100268 0.6939040 0.8689294 0.02834578 0.04132442 0.06430379
    [4,] 0.4855143 0.5217113 0.6216590 0.6994481 0.03135924 0.05079276 0.13865645
     [,36] [,37] [,38] [,39] [,40] [,41] [,42]
    [1,] 0.12429475 0.1606059 0.2181069 0.2718402 0.3368766 0.02754941 0.04739915
    [2,] 0.08167886 0.1406768 0.2105184 0.2518295 0.3291433 0.03548684 0.04884630
    [3,] 0.08065737 0.1508611 0.1835683 0.2876951 0.3136276 0.03569124 0.04281336
    [4,] 0.13160973 0.2082152 0.2306766 0.3238528 0.3092915 0.05068265 0.04264499
     [,43] [,44] [,45] [,46] [,47] [,48] [,49]
    [1,] 0.06808333 0.08942496 0.1572175 0.1623506 0.2106727 0.2543674 0.01933137
    [2,] 0.07347701 0.11561843 0.1250531 0.1410291 0.2056878 0.2528611 0.03053051
    [3,] 0.08353600 0.08701020 0.1579832 0.2060017 0.3179703 0.2390066 0.02948731
    [4,] 0.11102012 0.08302596 0.1467216 0.1699538 0.2212626 0.2220058 0.04085579
     [,50] [,51] [,52] [,53] [,54] [,55] [,56]
    [1,] 0.03738578 0.06740060 0.09645455 0.1303635 0.1664470 0.1984847 0.2228354
    [2,] 0.04690905 0.06693566 0.07219390 0.1162222 0.1463879 0.1632948 0.1580617
    [3,] 0.05544457 0.08321339 0.11244634 0.1846601 0.1907400 0.2458806 0.2747413
    [4,] 0.05445374 0.08222770 0.12626965 0.1550896 0.2057103 0.2272083 0.2090685
     [,57] [,58] [,59] [,60] [,61] [,62] [,63]
    [1,] 0.01025359 0.01930608 0.04671642 0.04841060 0.10983099 0.1492017 0.1828325
    [2,] 0.03060599 0.03719766 0.05735006 0.04758835 0.10417106 0.1408530 0.1359973
    [3,] 0.01926322 0.05350895 0.05651165 0.08440455 0.09614239 0.1644601 0.1522012
    [4,] 0.02222054 0.04581051 0.04608577 0.06967574 0.11129538 0.1729541 0.1654670
     [,64] [,65] [,66] [,67] [,68] [,69]
    [1,] 0.0000000 -0.0005689415 0.001226385 0.006915800 0.001555107 0.007674388
    [2,] 0.1718489 0.0030316658 0.001496964 0.002729757 0.015233806 0.041273425
    [3,] 0.1958769 0.0100813956 0.008840608 0.015441596 0.042292230 0.029065439
    [4,] 0.1998748 0.0032825016 0.011320157 0.007466487 0.002208979 0.045507721
     [,70] [,71] [,72] [,73] [,74] [,75]
    [1,] 0.005423909 0.03877652 0.00643536 0.000265506 0.0006700866 0.0003160786
    [2,] 0.012994651 0.04655683 0.02595156 0.001673077 0.0009434645 0.0061765474
    [3,] 0.012165918 0.04110107 0.02296077 0.002115542 0.0017184902 0.0017184902
    [4,] 0.019302761 0.02464285 0.09648628 0.001135457 0.0005849321 0.0001720389
     [,76] [,77] [,78] [,79] [,80]
    [1,] -2.149334e-04 0.0003919375 -0.0002402197 0.0016056793 0.0011758124
    [2,] 5.157606e-04 0.0005157606 0.0001383748 0.0020756218 0.0010189416
    [3,] -1.861181e-05 0.0013958855 0.0001799141 0.0007258605 0.0001302827
    [4,] 1.720389e-04 0.0014657711 0.0008601943 0.0012730876 -0.0002959069
    [1] "Number of the variable datapoints after data removal= 19"
    [1] "Applying Bliss model"
    Warning in file(file, ifelse(append, "a", "w")) :
     cannot open file '/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/COMBIAAnalyzedData_A_B_Cell.csv': Read-only file system
    Error in file(file, ifelse(append, "a", "w")) :
     cannot open the connection
    Calls: analyzeCOMBO ... write.csv -> eval.parent -> eval -> eval -> write.table -> file
    Execution halted
Flavor: r-devel-linux-x86_64-debian-gcc

Version: 1.0.5
Check: examples
Result: ERROR
    Running examples in ‘COMBIA-Ex.R’ failed
    The error most likely occurred in:
    
    > base::assign(".ptime", proc.time(), pos = "CheckExEnv")
    > ### Name: analyzeCOMBO
    > ### Title: This function calculates significant synergy/antagonism
    > ### according to Bliss or Loewe model and saves scientific publication
    > ### ready graphs.
    > ### Aliases: analyzeCOMBO
    >
    > ### ** Examples
    >
    > fl <- system.file("extdata", "testData.csv", package="COMBIA")
    > wellR <- list(c("l3:l10","m3:m10","b3:k10", "l13:l20","m13:m20","b13:k20",
    + "l23:l30","m23:m30","b23:k30", "l33:l40","m33:m40","b33:k40") )
    > mdl <- "bliss"
    > xConc <- c(0.00, 0.20, 0.39, 0.78, 1.56, 3.12, 6.25, 12.50, 25.00, 50)
    > yConc <- c(128, 64, 32, 16, 8, 4, 2, 0)
    > xDrug <- "A"
    > yDrug <- "B"
    > cellLine <-"Cell"
    > analyzeCOMBO(filename = c(fl), model = "bliss", inputFormates = "macsynergy",
    + wells = wellR, yConcentration = yConc, xConcentration = xConc,
    + xDrug = xDrug, yDrug=yDrug, cellLine = cellLine, nBoot=500)
    [1] "Ratio between empty and control 215.34756097561"
    [1] "CV for control: 1 : 2.30698484671909"
    [1] "Ratio between empty and control 216.431571815718"
    [1] "CV for control: 2 : 3.97477131010254"
    [1] "Ratio between empty and control 212.255570117955"
    [1] "CV for control: 3 : 6.4008999376604"
    [1] "Ratio between empty and control 191.453473132372"
    [1] "CV for control: 4 : 5.87005801002331"
    [1] "Number of the variable datapoints before data removal= 22"
     [,1] [,2] [,3] [,4] [,5] [,6] [,7]
    [1,] 0.4959273 0.4544325 0.4527889 0.5141335 0.7657826 0.8754745 0.9742680
    [2,] 0.5282520 0.4508880 0.4907902 0.5426933 0.7353865 0.9182928 0.9180664
    [3,] 0.4939636 0.4681056 0.5032695 0.5585093 0.7629166 0.8590776 0.9670757
    [4,] 0.5893432 0.5392455 0.5748920 0.6414779 0.8667800 0.9914462 1.0411311
     [,8] [,9] [,10] [,11] [,12] [,13] [,14]
    [1,] 0.9653167 0.3883595 0.4311439 0.5377761 0.5499641 0.7446938 0.8205780
    [2,] 0.8856867 0.4417552 0.5078481 0.5198489 0.6046601 0.7495008 0.8080710
    [3,] 1.0026615 0.3025846 0.4016490 0.5368700 0.5787590 0.7088183 0.8592761
    [4,] 0.9958504 0.4488219 0.5907471 0.5606334 0.6452214 0.7078161 0.8624584
     [,15] [,16] [,17] [,18] [,19] [,20] [,21]
    [1,] 0.9662776 0.9516621 0.3719992 0.4589335 0.5391416 0.5714069 0.6952844
    [2,] 0.8874478 0.8987191 0.4345346 0.5168550 0.5483290 0.5782179 0.6729921
    [3,] 0.9738752 0.9966561 0.3164069 0.4027905 0.5139402 0.5712646 0.7147492
    [4,] 0.9743249 0.8783960 0.4989471 0.5837279 0.5916279 0.6235858 0.7095227
     [,22] [,23] [,24] [,25] [,26] [,27] [,28]
    [1,] 0.8367865 0.9272861 0.9249851 0.14439735 0.2005835 0.3076203 0.5062694
    [2,] 0.8237954 0.8538857 0.8311670 0.08167886 0.2314255 0.0000000 0.3672844
    [3,] 0.8314577 0.9330037 0.9559334 0.06050699 0.0000000 0.1937179 0.4452006
    [4,] 0.8354551 0.8611646 0.8680737 0.05142586 0.0000000 0.1851207 0.6040147
     [,29] [,30] [,31] [,32] [,33] [,34] [,35]
    [1,] 0.4562531 0.6521713 0.6713130 0.7385240 0.05020593 0.05465631 0.06740060
    [2,] 0.4803995 0.5218113 0.6356309 0.6285863 0.03475723 0.05490963 0.06658343
    [3,] 0.4499404 0.6100268 0.6939040 0.8689294 0.02834578 0.04132442 0.06430379
    [4,] 0.4855143 0.5217113 0.6216590 0.6994481 0.03135924 0.05079276 0.13865645
     [,36] [,37] [,38] [,39] [,40] [,41] [,42]
    [1,] 0.12429475 0.1606059 0.2181069 0.2718402 0.3368766 0.02754941 0.04739915
    [2,] 0.08167886 0.1406768 0.2105184 0.2518295 0.3291433 0.03548684 0.04884630
    [3,] 0.08065737 0.1508611 0.1835683 0.2876951 0.3136276 0.03569124 0.04281336
    [4,] 0.13160973 0.2082152 0.2306766 0.3238528 0.3092915 0.05068265 0.04264499
     [,43] [,44] [,45] [,46] [,47] [,48] [,49]
    [1,] 0.06808333 0.08942496 0.1572175 0.1623506 0.2106727 0.2543674 0.01933137
    [2,] 0.07347701 0.11561843 0.1250531 0.1410291 0.2056878 0.2528611 0.03053051
    [3,] 0.08353600 0.08701020 0.1579832 0.2060017 0.3179703 0.2390066 0.02948731
    [4,] 0.11102012 0.08302596 0.1467216 0.1699538 0.2212626 0.2220058 0.04085579
     [,50] [,51] [,52] [,53] [,54] [,55] [,56]
    [1,] 0.03738578 0.06740060 0.09645455 0.1303635 0.1664470 0.1984847 0.2228354
    [2,] 0.04690905 0.06693566 0.07219390 0.1162222 0.1463879 0.1632948 0.1580617
    [3,] 0.05544457 0.08321339 0.11244634 0.1846601 0.1907400 0.2458806 0.2747413
    [4,] 0.05445374 0.08222770 0.12626965 0.1550896 0.2057103 0.2272083 0.2090685
     [,57] [,58] [,59] [,60] [,61] [,62] [,63]
    [1,] 0.01025359 0.01930608 0.04671642 0.04841060 0.10983099 0.1492017 0.1828325
    [2,] 0.03060599 0.03719766 0.05735006 0.04758835 0.10417106 0.1408530 0.1359973
    [3,] 0.01926322 0.05350895 0.05651165 0.08440455 0.09614239 0.1644601 0.1522012
    [4,] 0.02222054 0.04581051 0.04608577 0.06967574 0.11129538 0.1729541 0.1654670
     [,64] [,65] [,66] [,67] [,68] [,69]
    [1,] 0.0000000 -0.0005689415 0.001226385 0.006915800 0.001555107 0.007674388
    [2,] 0.1718489 0.0030316658 0.001496964 0.002729757 0.015233806 0.041273425
    [3,] 0.1958769 0.0100813956 0.008840608 0.015441596 0.042292230 0.029065439
    [4,] 0.1998748 0.0032825016 0.011320157 0.007466487 0.002208979 0.045507721
     [,70] [,71] [,72] [,73] [,74] [,75]
    [1,] 0.005423909 0.03877652 0.00643536 0.000265506 0.0006700866 0.0003160786
    [2,] 0.012994651 0.04655683 0.02595156 0.001673077 0.0009434645 0.0061765474
    [3,] 0.012165918 0.04110107 0.02296077 0.002115542 0.0017184902 0.0017184902
    [4,] 0.019302761 0.02464285 0.09648628 0.001135457 0.0005849321 0.0001720389
     [,76] [,77] [,78] [,79] [,80]
    [1,] -2.149334e-04 0.0003919375 -0.0002402197 0.0016056793 0.0011758124
    [2,] 5.157606e-04 0.0005157606 0.0001383748 0.0020756218 0.0010189416
    [3,] -1.861181e-05 0.0013958855 0.0001799141 0.0007258605 0.0001302827
    [4,] 1.720389e-04 0.0014657711 0.0008601943 0.0012730876 -0.0002959069
    [1] "Number of the variable datapoints after data removal= 19"
    [1] "Applying Bliss model"
    Warning in file(file, ifelse(append, "a", "w")) :
     cannot open file '/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/COMBIAAnalyzedData_A_B_Cell.csv': Read-only file system
    Error in file(file, ifelse(append, "a", "w")) :
     cannot open the connection
    Calls: analyzeCOMBO ... write.csv -> eval.parent -> eval -> eval -> write.table -> file
    Execution halted
Flavor: r-patched-linux-x86_64

Version: 1.0.5
Check: examples
Result: ERROR
    Running examples in ‘COMBIA-Ex.R’ failed
    The error most likely occurred in:
    
    > base::assign(".ptime", proc.time(), pos = "CheckExEnv")
    > ### Name: analyzeCOMBO
    > ### Title: This function calculates significant synergy/antagonism
    > ### according to Bliss or Loewe model and saves scientific publication
    > ### ready graphs.
    > ### Aliases: analyzeCOMBO
    >
    > ### ** Examples
    >
    > fl <- system.file("extdata", "testData.csv", package="COMBIA")
    > wellR <- list(c("l3:l10","m3:m10","b3:k10", "l13:l20","m13:m20","b13:k20",
    + "l23:l30","m23:m30","b23:k30", "l33:l40","m33:m40","b33:k40") )
    > mdl <- "bliss"
    > xConc <- c(0.00, 0.20, 0.39, 0.78, 1.56, 3.12, 6.25, 12.50, 25.00, 50)
    > yConc <- c(128, 64, 32, 16, 8, 4, 2, 0)
    > xDrug <- "A"
    > yDrug <- "B"
    > cellLine <-"Cell"
    > analyzeCOMBO(filename = c(fl), model = "bliss", inputFormates = "macsynergy",
    + wells = wellR, yConcentration = yConc, xConcentration = xConc,
    + xDrug = xDrug, yDrug=yDrug, cellLine = cellLine, nBoot=500)
    [1] "Ratio between empty and control 215.34756097561"
    [1] "CV for control: 1 : 2.30698484671909"
    [1] "Ratio between empty and control 216.431571815718"
    [1] "CV for control: 2 : 3.97477131010254"
    [1] "Ratio between empty and control 212.255570117955"
    [1] "CV for control: 3 : 6.4008999376604"
    [1] "Ratio between empty and control 191.453473132372"
    [1] "CV for control: 4 : 5.87005801002331"
    [1] "Number of the variable datapoints before data removal= 22"
     [,1] [,2] [,3] [,4] [,5] [,6] [,7]
    [1,] 0.4959273 0.4544325 0.4527889 0.5141335 0.7657826 0.8754745 0.9742680
    [2,] 0.5282520 0.4508880 0.4907902 0.5426933 0.7353865 0.9182928 0.9180664
    [3,] 0.4939636 0.4681056 0.5032695 0.5585093 0.7629166 0.8590776 0.9670757
    [4,] 0.5893432 0.5392455 0.5748920 0.6414779 0.8667800 0.9914462 1.0411311
     [,8] [,9] [,10] [,11] [,12] [,13] [,14]
    [1,] 0.9653167 0.3883595 0.4311439 0.5377761 0.5499641 0.7446938 0.8205780
    [2,] 0.8856867 0.4417552 0.5078481 0.5198489 0.6046601 0.7495008 0.8080710
    [3,] 1.0026615 0.3025846 0.4016490 0.5368700 0.5787590 0.7088183 0.8592761
    [4,] 0.9958504 0.4488219 0.5907471 0.5606334 0.6452214 0.7078161 0.8624584
     [,15] [,16] [,17] [,18] [,19] [,20] [,21]
    [1,] 0.9662776 0.9516621 0.3719992 0.4589335 0.5391416 0.5714069 0.6952844
    [2,] 0.8874478 0.8987191 0.4345346 0.5168550 0.5483290 0.5782179 0.6729921
    [3,] 0.9738752 0.9966561 0.3164069 0.4027905 0.5139402 0.5712646 0.7147492
    [4,] 0.9743249 0.8783960 0.4989471 0.5837279 0.5916279 0.6235858 0.7095227
     [,22] [,23] [,24] [,25] [,26] [,27] [,28]
    [1,] 0.8367865 0.9272861 0.9249851 0.14439735 0.2005835 0.3076203 0.5062694
    [2,] 0.8237954 0.8538857 0.8311670 0.08167886 0.2314255 0.0000000 0.3672844
    [3,] 0.8314577 0.9330037 0.9559334 0.06050699 0.0000000 0.1937179 0.4452006
    [4,] 0.8354551 0.8611646 0.8680737 0.05142586 0.0000000 0.1851207 0.6040147
     [,29] [,30] [,31] [,32] [,33] [,34] [,35]
    [1,] 0.4562531 0.6521713 0.6713130 0.7385240 0.05020593 0.05465631 0.06740060
    [2,] 0.4803995 0.5218113 0.6356309 0.6285863 0.03475723 0.05490963 0.06658343
    [3,] 0.4499404 0.6100268 0.6939040 0.8689294 0.02834578 0.04132442 0.06430379
    [4,] 0.4855143 0.5217113 0.6216590 0.6994481 0.03135924 0.05079276 0.13865645
     [,36] [,37] [,38] [,39] [,40] [,41] [,42]
    [1,] 0.12429475 0.1606059 0.2181069 0.2718402 0.3368766 0.02754941 0.04739915
    [2,] 0.08167886 0.1406768 0.2105184 0.2518295 0.3291433 0.03548684 0.04884630
    [3,] 0.08065737 0.1508611 0.1835683 0.2876951 0.3136276 0.03569124 0.04281336
    [4,] 0.13160973 0.2082152 0.2306766 0.3238528 0.3092915 0.05068265 0.04264499
     [,43] [,44] [,45] [,46] [,47] [,48] [,49]
    [1,] 0.06808333 0.08942496 0.1572175 0.1623506 0.2106727 0.2543674 0.01933137
    [2,] 0.07347701 0.11561843 0.1250531 0.1410291 0.2056878 0.2528611 0.03053051
    [3,] 0.08353600 0.08701020 0.1579832 0.2060017 0.3179703 0.2390066 0.02948731
    [4,] 0.11102012 0.08302596 0.1467216 0.1699538 0.2212626 0.2220058 0.04085579
     [,50] [,51] [,52] [,53] [,54] [,55] [,56]
    [1,] 0.03738578 0.06740060 0.09645455 0.1303635 0.1664470 0.1984847 0.2228354
    [2,] 0.04690905 0.06693566 0.07219390 0.1162222 0.1463879 0.1632948 0.1580617
    [3,] 0.05544457 0.08321339 0.11244634 0.1846601 0.1907400 0.2458806 0.2747413
    [4,] 0.05445374 0.08222770 0.12626965 0.1550896 0.2057103 0.2272083 0.2090685
     [,57] [,58] [,59] [,60] [,61] [,62] [,63]
    [1,] 0.01025359 0.01930608 0.04671642 0.04841060 0.10983099 0.1492017 0.1828325
    [2,] 0.03060599 0.03719766 0.05735006 0.04758835 0.10417106 0.1408530 0.1359973
    [3,] 0.01926322 0.05350895 0.05651165 0.08440455 0.09614239 0.1644601 0.1522012
    [4,] 0.02222054 0.04581051 0.04608577 0.06967574 0.11129538 0.1729541 0.1654670
     [,64] [,65] [,66] [,67] [,68] [,69]
    [1,] 0.0000000 -0.0005689415 0.001226385 0.006915800 0.001555107 0.007674388
    [2,] 0.1718489 0.0030316658 0.001496964 0.002729757 0.015233806 0.041273425
    [3,] 0.1958769 0.0100813956 0.008840608 0.015441596 0.042292230 0.029065439
    [4,] 0.1998748 0.0032825016 0.011320157 0.007466487 0.002208979 0.045507721
     [,70] [,71] [,72] [,73] [,74] [,75]
    [1,] 0.005423909 0.03877652 0.00643536 0.000265506 0.0006700866 0.0003160786
    [2,] 0.012994651 0.04655683 0.02595156 0.001673077 0.0009434645 0.0061765474
    [3,] 0.012165918 0.04110107 0.02296077 0.002115542 0.0017184902 0.0017184902
    [4,] 0.019302761 0.02464285 0.09648628 0.001135457 0.0005849321 0.0001720389
     [,76] [,77] [,78] [,79] [,80]
    [1,] -2.149334e-04 0.0003919375 -0.0002402197 0.0016056793 0.0011758124
    [2,] 5.157606e-04 0.0005157606 0.0001383748 0.0020756218 0.0010189416
    [3,] -1.861181e-05 0.0013958855 0.0001799141 0.0007258605 0.0001302827
    [4,] 1.720389e-04 0.0014657711 0.0008601943 0.0012730876 -0.0002959069
    [1] "Number of the variable datapoints after data removal= 19"
    [1] "Applying Bliss model"
    Warning in file(file, ifelse(append, "a", "w")) :
     cannot open file '/home/hornik/tmp/R.check/r-release-gcc/Work/build/Packages/COMBIAAnalyzedData_A_B_Cell.csv': Read-only file system
    Error in file(file, ifelse(append, "a", "w")) :
     cannot open the connection
    Calls: analyzeCOMBO ... write.csv -> eval.parent -> eval -> eval -> write.table -> file
    Execution halted
Flavor: r-release-linux-x86_64