CRAN Package Check Results for Package IncucyteDRC

Last updated on 2020-06-03 01:50:49 CEST.

Flavor Version Tinstall Tcheck Ttotal Status Flags
r-devel-linux-x86_64-debian-clang 0.5.4 6.80 67.85 74.65 ERROR
r-devel-linux-x86_64-debian-gcc 0.5.4 5.20 52.57 57.77 ERROR
r-devel-linux-x86_64-fedora-clang 0.5.4 98.79 ERROR
r-devel-linux-x86_64-fedora-gcc 0.5.4 90.37 ERROR
r-devel-windows-ix86+x86_64 0.5.4 22.00 143.00 165.00 OK
r-patched-linux-x86_64 0.5.4 6.54 67.25 73.79 ERROR
r-patched-solaris-x86 0.5.4 125.50 ERROR
r-release-linux-x86_64 0.5.4 7.40 66.62 74.02 ERROR
r-release-osx-x86_64 0.5.4 OK
r-release-windows-ix86+x86_64 0.5.4 21.00 83.00 104.00 ERROR
r-oldrel-osx-x86_64 0.5.4 OK
r-oldrel-windows-ix86+x86_64 0.5.4 15.00 117.00 132.00 OK

Check Details

Version: 0.5.4
Check: examples
Result: ERROR
    Running examples in 'IncucyteDRC-Ex.R' failed
    The error most likely occurred in:
    
    > base::assign(".ptime", proc.time(), pos = "CheckExEnv")
    > ### Name: calculateEC50
    > ### Title: calculateEC50
    > ### Aliases: calculateEC50
    >
    > ### ** Examples
    >
    > pm_file <- system.file(file='extdata/example.PlateMap', package='IncucyteDRC')
    > test_pm <- importPlatemapXML(pm_file)
    Importing platemap xml from /home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/IncucyteDRC/extdata/example.PlateMap
    Plate map import successful!
    > data_file <- system.file(file='extdata/example_data.txt', package='IncucyteDRC')
    > test_data <- importIncucyteData(data_file, metric='pc')
    Getting pc data for plate example_data.txt from:
    /home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/IncucyteDRC/extdata/example_data.txt
    >
    > test_list <- splitIncucyteDRCPlateData(test_pm, test_data, group_columns='growthcondition')
    >
    > print(test_list)
    ## This is an IncucyteDRCSetList S3 object containing 4 IncucyteDRCSet objects
    ## Access using standard list notation ie my_list[[1]]
    ## Try lapply(my_list, print) to see more information on each object>
    > test_idrc_set <- fitGrowthCurvesGrouped(test_list[[2]])
    > test_idrc_set <- fitGrowthCurvesIndividual(test_idrc_set)
    > test_idrc_set <- calculateDRCData(test_idrc_set, cut_time=100)
    Using cut time provided to function
    > test_idrc_set <- fitDoseResponseCurve(test_idrc_set)
    Error: Problem with `mutate()` input `idx`.
    x could not find function "row_number"
    i Input `idx` is `row_number()`.
    i The error occured in group 1: sampleid = "PDD00017273", conc = 0.3703704.
    Backtrace:
     x
     1. \-IncucyteDRC::fitDoseResponseCurve(test_idrc_set)
     2. \-IncucyteDRC::exportDRCDataToDataFrame(idrc_set, include_control)
     3. \-`%>%`(...)
     4. +-base::withVisible(eval(quote(`_fseq`(`_lhs`)), env, env))
     5. \-base::eval(quote(`_fseq`(`_lhs`)), env, env)
     6. \-base::eval(quote(`_fseq`(`_lhs`)), env, env)
     7. \-IncucyteDRC:::`_fseq`(`_lhs`)
     8. \-magrittr::freduce(value, `_function_list`)
     9. \-function_list[[i]](value)
     10. +-dplyr::mutate(., idx = row_number())
     11. \-dplyr:::mutate.data.frame(., idx = row_number())
     12. \-dplyr:::mutate_cols(.data, ...)
    <parent: error/simpleError>
    Backtrace:
    x
    Execution halted
Flavor: r-devel-linux-x86_64-debian-clang

Version: 0.5.4
Check: re-building of vignette outputs
Result: WARN
    Error(s) in re-building vignettes:
     ...
    --- re-building 'IncucyteZoomExport.Rmd' using rmarkdown
    --- finished re-building 'IncucyteZoomExport.Rmd'
    
    --- re-building 'Overview.Rmd' using rmarkdown
    Warning: `group_indices_()` is deprecated as of dplyr 0.7.0.
    Please use `group_indices()` instead.
    This warning is displayed once every 8 hours.
    Call `lifecycle::last_warnings()` to see where this warning was generated.
    Warning: The `...` argument of `group_keys()` is deprecated as of dplyr 1.0.0.
    Please `group_by()` first
    This warning is displayed once every 8 hours.
    Call `lifecycle::last_warnings()` to see where this warning was generated.
    Warning: `select_()` is deprecated as of dplyr 0.7.0.
    Please use `select()` instead.
    This warning is displayed once every 8 hours.
    Call `lifecycle::last_warnings()` to see where this warning was generated.
    Importing platemap xml from /home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/IncucyteDRC/extdata/example2.PlateMap
    Plate map import successful!
    Getting pc data for plate example_data2.txt from:
    /home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/IncucyteDRC/extdata/example_data2.txt
    Using cut time provided to function
    Quitting from lines 94-99 (Overview.Rmd)
    Error: processing vignette 'Overview.Rmd' failed with diagnostics:
    Problem with `mutate()` input `idx`.
    x could not find function "row_number"
    i Input `idx` is `row_number()`.
    i The error occured in group 1: sampleid = "PDD00014673", conc = 0.01371742.
    --- failed re-building 'Overview.Rmd'
    
    SUMMARY: processing the following file failed:
     'Overview.Rmd'
    
    Error: Vignette re-building failed.
    Execution halted
Flavor: r-devel-linux-x86_64-debian-clang

Version: 0.5.4
Check: examples
Result: ERROR
    Running examples in ‘IncucyteDRC-Ex.R’ failed
    The error most likely occurred in:
    
    > base::assign(".ptime", proc.time(), pos = "CheckExEnv")
    > ### Name: calculateEC50
    > ### Title: calculateEC50
    > ### Aliases: calculateEC50
    >
    > ### ** Examples
    >
    > pm_file <- system.file(file='extdata/example.PlateMap', package='IncucyteDRC')
    > test_pm <- importPlatemapXML(pm_file)
    Importing platemap xml from /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/IncucyteDRC/extdata/example.PlateMap
    Plate map import successful!
    > data_file <- system.file(file='extdata/example_data.txt', package='IncucyteDRC')
    > test_data <- importIncucyteData(data_file, metric='pc')
    Getting pc data for plate example_data.txt from:
    /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/IncucyteDRC/extdata/example_data.txt
    >
    > test_list <- splitIncucyteDRCPlateData(test_pm, test_data, group_columns='growthcondition')
    >
    > print(test_list)
    ## This is an IncucyteDRCSetList S3 object containing 4 IncucyteDRCSet objects
    ## Access using standard list notation ie my_list[[1]]
    ## Try lapply(my_list, print) to see more information on each object>
    > test_idrc_set <- fitGrowthCurvesGrouped(test_list[[2]])
    > test_idrc_set <- fitGrowthCurvesIndividual(test_idrc_set)
    > test_idrc_set <- calculateDRCData(test_idrc_set, cut_time=100)
    Using cut time provided to function
    > test_idrc_set <- fitDoseResponseCurve(test_idrc_set)
    Error: Problem with `mutate()` input `idx`.
    ✖ could not find function "row_number"
    ℹ Input `idx` is `row_number()`.
    ℹ The error occured in group 1: sampleid = "PDD00017273", conc = 0.3703704.
    Backtrace:
     █
     1. └─IncucyteDRC::fitDoseResponseCurve(test_idrc_set)
     2. └─IncucyteDRC::exportDRCDataToDataFrame(idrc_set, include_control)
     3. └─`%>%`(...)
     4. ├─base::withVisible(eval(quote(`_fseq`(`_lhs`)), env, env))
     5. └─base::eval(quote(`_fseq`(`_lhs`)), env, env)
     6. └─base::eval(quote(`_fseq`(`_lhs`)), env, env)
     7. └─IncucyteDRC:::`_fseq`(`_lhs`)
     8. └─magrittr::freduce(value, `_function_list`)
     9. └─function_list[[i]](value)
     10. ├─dplyr::mutate(., idx = row_number())
     11. └─dplyr:::mutate.data.frame(., idx = row_number())
     12. └─dplyr:::mutate_cols(.data, ...)
    <parent: error/simpleError>
    Backtrace:
    █
    Execution halted
Flavor: r-devel-linux-x86_64-debian-gcc

Version: 0.5.4
Check: re-building of vignette outputs
Result: WARN
    Error(s) in re-building vignettes:
     ...
    --- re-building ‘IncucyteZoomExport.Rmd’ using rmarkdown
    --- finished re-building ‘IncucyteZoomExport.Rmd’
    
    --- re-building ‘Overview.Rmd’ using rmarkdown
    Warning: `group_indices_()` is deprecated as of dplyr 0.7.0.
    Please use `group_indices()` instead.
    This warning is displayed once every 8 hours.
    Call `lifecycle::last_warnings()` to see where this warning was generated.
    Warning: The `...` argument of `group_keys()` is deprecated as of dplyr 1.0.0.
    Please `group_by()` first
    This warning is displayed once every 8 hours.
    Call `lifecycle::last_warnings()` to see where this warning was generated.
    Warning: `select_()` is deprecated as of dplyr 0.7.0.
    Please use `select()` instead.
    This warning is displayed once every 8 hours.
    Call `lifecycle::last_warnings()` to see where this warning was generated.
    Importing platemap xml from /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/IncucyteDRC/extdata/example2.PlateMap
    Plate map import successful!
    Getting pc data for plate example_data2.txt from:
    /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/IncucyteDRC/extdata/example_data2.txt
    Using cut time provided to function
    Quitting from lines 94-99 (Overview.Rmd)
    Error: processing vignette 'Overview.Rmd' failed with diagnostics:
    Problem with `mutate()` input `idx`.
    ✖ could not find function "row_number"
    ℹ Input `idx` is `row_number()`.
    ℹ The error occured in group 1: sampleid = "PDD00014673", conc = 0.01371742.
    --- failed re-building ‘Overview.Rmd’
    
    SUMMARY: processing the following file failed:
     ‘Overview.Rmd’
    
    Error: Vignette re-building failed.
    Execution halted
Flavor: r-devel-linux-x86_64-debian-gcc

Version: 0.5.4
Check: examples
Result: ERROR
    Running examples in ‘IncucyteDRC-Ex.R’ failed
    The error most likely occurred in:
    
    > ### Name: calculateEC50
    > ### Title: calculateEC50
    > ### Aliases: calculateEC50
    >
    > ### ** Examples
    >
    > pm_file <- system.file(file='extdata/example.PlateMap', package='IncucyteDRC')
    > test_pm <- importPlatemapXML(pm_file)
    Importing platemap xml from /data/gannet/ripley/R/packages/tests-clang/IncucyteDRC.Rcheck/IncucyteDRC/extdata/example.PlateMap
    Plate map import successful!
    > data_file <- system.file(file='extdata/example_data.txt', package='IncucyteDRC')
    > test_data <- importIncucyteData(data_file, metric='pc')
    Getting pc data for plate example_data.txt from:
    /data/gannet/ripley/R/packages/tests-clang/IncucyteDRC.Rcheck/IncucyteDRC/extdata/example_data.txt
    >
    > test_list <- splitIncucyteDRCPlateData(test_pm, test_data, group_columns='growthcondition')
    >
    > print(test_list)
    ## This is an IncucyteDRCSetList S3 object containing 4 IncucyteDRCSet objects
    ## Access using standard list notation ie my_list[[1]]
    ## Try lapply(my_list, print) to see more information on each object>
    > test_idrc_set <- fitGrowthCurvesGrouped(test_list[[2]])
    > test_idrc_set <- fitGrowthCurvesIndividual(test_idrc_set)
    > test_idrc_set <- calculateDRCData(test_idrc_set, cut_time=100)
    Using cut time provided to function
    > test_idrc_set <- fitDoseResponseCurve(test_idrc_set)
    Error: Problem with `mutate()` input `idx`.
    ✖ could not find function "row_number"
    ℹ Input `idx` is `row_number()`.
    ℹ The error occured in group 1: sampleid = "PDD00017273", conc = 0.3703704.
    Backtrace:
     █
     1. └─IncucyteDRC::fitDoseResponseCurve(test_idrc_set)
     2. └─IncucyteDRC::exportDRCDataToDataFrame(idrc_set, include_control)
     3. └─`%>%`(...)
     4. ├─base::withVisible(eval(quote(`_fseq`(`_lhs`)), env, env))
     5. └─base::eval(quote(`_fseq`(`_lhs`)), env, env)
     6. └─base::eval(quote(`_fseq`(`_lhs`)), env, env)
     7. └─IncucyteDRC:::`_fseq`(`_lhs`)
     8. └─magrittr::freduce(value, `_function_list`)
     9. └─function_list[[i]](value)
     10. ├─dplyr::mutate(., idx = row_number())
     11. └─dplyr:::mutate.data.frame(., idx = row_number())
     12. └─dplyr:::mutate_cols(.data, ...)
    <parent: error/simpleError>
    Backtrace:
    █
    Execution halted
Flavor: r-devel-linux-x86_64-fedora-clang

Version: 0.5.4
Check: re-building of vignette outputs
Result: WARN
    Error(s) in re-building vignettes:
    --- re-building ‘IncucyteZoomExport.Rmd’ using rmarkdown
    --- finished re-building ‘IncucyteZoomExport.Rmd’
    
    --- re-building ‘Overview.Rmd’ using rmarkdown
    Warning: `group_indices_()` is deprecated as of dplyr 0.7.0.
    Please use `group_indices()` instead.
    This warning is displayed once every 8 hours.
    Call `lifecycle::last_warnings()` to see where this warning was generated.
    Warning: The `...` argument of `group_keys()` is deprecated as of dplyr 1.0.0.
    Please `group_by()` first
    This warning is displayed once every 8 hours.
    Call `lifecycle::last_warnings()` to see where this warning was generated.
    Warning: `select_()` is deprecated as of dplyr 0.7.0.
    Please use `select()` instead.
    This warning is displayed once every 8 hours.
    Call `lifecycle::last_warnings()` to see where this warning was generated.
    Importing platemap xml from /data/gannet/ripley/R/packages/tests-clang/IncucyteDRC.Rcheck/IncucyteDRC/extdata/example2.PlateMap
    Plate map import successful!
    Getting pc data for plate example_data2.txt from:
    /data/gannet/ripley/R/packages/tests-clang/IncucyteDRC.Rcheck/IncucyteDRC/extdata/example_data2.txt
    Using cut time provided to function
    Quitting from lines 94-99 (Overview.Rmd)
    Error: processing vignette 'Overview.Rmd' failed with diagnostics:
    Problem with `mutate()` input `idx`.
    ✖ could not find function "row_number"
    ℹ Input `idx` is `row_number()`.
    ℹ The error occured in group 1: sampleid = "PDD00014673", conc = 0.01371742.
    --- failed re-building ‘Overview.Rmd’
    
    SUMMARY: processing the following file failed:
     ‘Overview.Rmd’
    
    Error: Vignette re-building failed.
    Execution halted
Flavor: r-devel-linux-x86_64-fedora-clang

Version: 0.5.4
Check: examples
Result: ERROR
    Running examples in ‘IncucyteDRC-Ex.R’ failed
    The error most likely occurred in:
    
    > ### Name: calculateEC50
    > ### Title: calculateEC50
    > ### Aliases: calculateEC50
    >
    > ### ** Examples
    >
    > pm_file <- system.file(file='extdata/example.PlateMap', package='IncucyteDRC')
    > test_pm <- importPlatemapXML(pm_file)
    Importing platemap xml from /data/gannet/ripley/R/packages/tests-devel/IncucyteDRC.Rcheck/IncucyteDRC/extdata/example.PlateMap
    Plate map import successful!
    > data_file <- system.file(file='extdata/example_data.txt', package='IncucyteDRC')
    > test_data <- importIncucyteData(data_file, metric='pc')
    Getting pc data for plate example_data.txt from:
    /data/gannet/ripley/R/packages/tests-devel/IncucyteDRC.Rcheck/IncucyteDRC/extdata/example_data.txt
    >
    > test_list <- splitIncucyteDRCPlateData(test_pm, test_data, group_columns='growthcondition')
    >
    > print(test_list)
    ## This is an IncucyteDRCSetList S3 object containing 4 IncucyteDRCSet objects
    ## Access using standard list notation ie my_list[[1]]
    ## Try lapply(my_list, print) to see more information on each object>
    > test_idrc_set <- fitGrowthCurvesGrouped(test_list[[2]])
    > test_idrc_set <- fitGrowthCurvesIndividual(test_idrc_set)
    > test_idrc_set <- calculateDRCData(test_idrc_set, cut_time=100)
    Using cut time provided to function
    > test_idrc_set <- fitDoseResponseCurve(test_idrc_set)
    Error: Problem with `mutate()` input `idx`.
    ✖ could not find function "row_number"
    ℹ Input `idx` is `row_number()`.
    ℹ The error occured in group 1: sampleid = "PDD00017273", conc = 0.3703704.
    Backtrace:
     █
     1. └─IncucyteDRC::fitDoseResponseCurve(test_idrc_set)
     2. └─IncucyteDRC::exportDRCDataToDataFrame(idrc_set, include_control)
     3. └─`%>%`(...)
     4. ├─base::withVisible(eval(quote(`_fseq`(`_lhs`)), env, env))
     5. └─base::eval(quote(`_fseq`(`_lhs`)), env, env)
     6. └─base::eval(quote(`_fseq`(`_lhs`)), env, env)
     7. └─IncucyteDRC:::`_fseq`(`_lhs`)
     8. └─magrittr::freduce(value, `_function_list`)
     9. └─function_list[[i]](value)
     10. ├─dplyr::mutate(., idx = row_number())
     11. └─dplyr:::mutate.data.frame(., idx = row_number())
     12. └─dplyr:::mutate_cols(.data, ...)
    <parent: error/simpleError>
    Backtrace:
    █
    Execution halted
Flavor: r-devel-linux-x86_64-fedora-gcc

Version: 0.5.4
Check: re-building of vignette outputs
Result: WARN
    Error(s) in re-building vignettes:
    --- re-building ‘IncucyteZoomExport.Rmd’ using rmarkdown
    --- finished re-building ‘IncucyteZoomExport.Rmd’
    
    --- re-building ‘Overview.Rmd’ using rmarkdown
    Warning: `group_indices_()` is deprecated as of dplyr 0.7.0.
    Please use `group_indices()` instead.
    This warning is displayed once every 8 hours.
    Call `lifecycle::last_warnings()` to see where this warning was generated.
    Warning: The `...` argument of `group_keys()` is deprecated as of dplyr 1.0.0.
    Please `group_by()` first
    This warning is displayed once every 8 hours.
    Call `lifecycle::last_warnings()` to see where this warning was generated.
    Warning: `select_()` is deprecated as of dplyr 0.7.0.
    Please use `select()` instead.
    This warning is displayed once every 8 hours.
    Call `lifecycle::last_warnings()` to see where this warning was generated.
    Importing platemap xml from /data/gannet/ripley/R/packages/tests-devel/IncucyteDRC.Rcheck/IncucyteDRC/extdata/example2.PlateMap
    Plate map import successful!
    Getting pc data for plate example_data2.txt from:
    /data/gannet/ripley/R/packages/tests-devel/IncucyteDRC.Rcheck/IncucyteDRC/extdata/example_data2.txt
    Using cut time provided to function
    Quitting from lines 94-99 (Overview.Rmd)
    Error: processing vignette 'Overview.Rmd' failed with diagnostics:
    Problem with `mutate()` input `idx`.
    ✖ could not find function "row_number"
    ℹ Input `idx` is `row_number()`.
    ℹ The error occured in group 1: sampleid = "PDD00014673", conc = 0.01371742.
    --- failed re-building ‘Overview.Rmd’
    
    SUMMARY: processing the following file failed:
     ‘Overview.Rmd’
    
    Error: Vignette re-building failed.
    Execution halted
Flavor: r-devel-linux-x86_64-fedora-gcc

Version: 0.5.4
Check: examples
Result: ERROR
    Running examples in ‘IncucyteDRC-Ex.R’ failed
    The error most likely occurred in:
    
    > base::assign(".ptime", proc.time(), pos = "CheckExEnv")
    > ### Name: calculateEC50
    > ### Title: calculateEC50
    > ### Aliases: calculateEC50
    >
    > ### ** Examples
    >
    > pm_file <- system.file(file='extdata/example.PlateMap', package='IncucyteDRC')
    > test_pm <- importPlatemapXML(pm_file)
    Importing platemap xml from /home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/IncucyteDRC/extdata/example.PlateMap
    Plate map import successful!
    > data_file <- system.file(file='extdata/example_data.txt', package='IncucyteDRC')
    > test_data <- importIncucyteData(data_file, metric='pc')
    Getting pc data for plate example_data.txt from:
    /home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/IncucyteDRC/extdata/example_data.txt
    >
    > test_list <- splitIncucyteDRCPlateData(test_pm, test_data, group_columns='growthcondition')
    >
    > print(test_list)
    ## This is an IncucyteDRCSetList S3 object containing 4 IncucyteDRCSet objects
    ## Access using standard list notation ie my_list[[1]]
    ## Try lapply(my_list, print) to see more information on each object>
    > test_idrc_set <- fitGrowthCurvesGrouped(test_list[[2]])
    > test_idrc_set <- fitGrowthCurvesIndividual(test_idrc_set)
    > test_idrc_set <- calculateDRCData(test_idrc_set, cut_time=100)
    Using cut time provided to function
    > test_idrc_set <- fitDoseResponseCurve(test_idrc_set)
    Error: Problem with `mutate()` input `idx`.
    ✖ could not find function "row_number"
    ℹ Input `idx` is `row_number()`.
    ℹ The error occured in group 1: sampleid = "PDD00017273", conc = 0.3703704.
    Backtrace:
     █
     1. └─IncucyteDRC::fitDoseResponseCurve(test_idrc_set)
     2. └─IncucyteDRC::exportDRCDataToDataFrame(idrc_set, include_control)
     3. └─`%>%`(...)
     4. ├─base::withVisible(eval(quote(`_fseq`(`_lhs`)), env, env))
     5. └─base::eval(quote(`_fseq`(`_lhs`)), env, env)
     6. └─base::eval(quote(`_fseq`(`_lhs`)), env, env)
     7. └─IncucyteDRC:::`_fseq`(`_lhs`)
     8. └─magrittr::freduce(value, `_function_list`)
     9. └─function_list[[i]](value)
     10. ├─dplyr::mutate(., idx = row_number())
     11. └─dplyr:::mutate.data.frame(., idx = row_number())
     12. └─dplyr:::mutate_cols(.data, ...)
    <parent: error/simpleError>
    Backtrace:
    █
    Execution halted
Flavor: r-patched-linux-x86_64

Version: 0.5.4
Check: re-building of vignette outputs
Result: WARN
    Error(s) in re-building vignettes:
     ...
    --- re-building ‘IncucyteZoomExport.Rmd’ using rmarkdown
    --- finished re-building ‘IncucyteZoomExport.Rmd’
    
    --- re-building ‘Overview.Rmd’ using rmarkdown
    Warning: `group_indices_()` is deprecated as of dplyr 0.7.0.
    Please use `group_indices()` instead.
    This warning is displayed once every 8 hours.
    Call `lifecycle::last_warnings()` to see where this warning was generated.
    Warning: The `...` argument of `group_keys()` is deprecated as of dplyr 1.0.0.
    Please `group_by()` first
    This warning is displayed once every 8 hours.
    Call `lifecycle::last_warnings()` to see where this warning was generated.
    Warning: `select_()` is deprecated as of dplyr 0.7.0.
    Please use `select()` instead.
    This warning is displayed once every 8 hours.
    Call `lifecycle::last_warnings()` to see where this warning was generated.
    Importing platemap xml from /home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/IncucyteDRC/extdata/example2.PlateMap
    Plate map import successful!
    Getting pc data for plate example_data2.txt from:
    /home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/IncucyteDRC/extdata/example_data2.txt
    Using cut time provided to function
    Quitting from lines 94-99 (Overview.Rmd)
    Error: processing vignette 'Overview.Rmd' failed with diagnostics:
    Problem with `mutate()` input `idx`.
    ✖ could not find function "row_number"
    ℹ Input `idx` is `row_number()`.
    ℹ The error occured in group 1: sampleid = "PDD00014673", conc = 0.01371742.
    --- failed re-building ‘Overview.Rmd’
    
    SUMMARY: processing the following file failed:
     ‘Overview.Rmd’
    
    Error: Vignette re-building failed.
    Execution halted
Flavor: r-patched-linux-x86_64

Version: 0.5.4
Check: examples
Result: ERROR
    Running examples in ‘IncucyteDRC-Ex.R’ failed
    The error most likely occurred in:
    
    > ### Name: calculateEC50
    > ### Title: calculateEC50
    > ### Aliases: calculateEC50
    >
    > ### ** Examples
    >
    > pm_file <- system.file(file='extdata/example.PlateMap', package='IncucyteDRC')
    > test_pm <- importPlatemapXML(pm_file)
    Importing platemap xml from /home/ripley/R/Lib32/IncucyteDRC/extdata/example.PlateMap
    Plate map import successful!
    > data_file <- system.file(file='extdata/example_data.txt', package='IncucyteDRC')
    > test_data <- importIncucyteData(data_file, metric='pc')
    Getting pc data for plate example_data.txt from:
    /home/ripley/R/Lib32/IncucyteDRC/extdata/example_data.txt
    >
    > test_list <- splitIncucyteDRCPlateData(test_pm, test_data, group_columns='growthcondition')
    >
    > print(test_list)
    ## This is an IncucyteDRCSetList S3 object containing 4 IncucyteDRCSet objects
    ## Access using standard list notation ie my_list[[1]]
    ## Try lapply(my_list, print) to see more information on each object>
    > test_idrc_set <- fitGrowthCurvesGrouped(test_list[[2]])
    > test_idrc_set <- fitGrowthCurvesIndividual(test_idrc_set)
    > test_idrc_set <- calculateDRCData(test_idrc_set, cut_time=100)
    Using cut time provided to function
    > test_idrc_set <- fitDoseResponseCurve(test_idrc_set)
    Error: Problem with `mutate()` input `idx`.
    ✖ could not find function "row_number"
    ℹ Input `idx` is `row_number()`.
    ℹ The error occured in group 1: sampleid = "PDD00017273", conc = 0.3703704.
    Backtrace:
     █
     1. └─IncucyteDRC::fitDoseResponseCurve(test_idrc_set)
     2. └─IncucyteDRC::exportDRCDataToDataFrame(idrc_set, include_control)
     3. └─`%>%`(...)
     4. ├─base::withVisible(eval(quote(`_fseq`(`_lhs`)), env, env))
     5. └─base::eval(quote(`_fseq`(`_lhs`)), env, env)
     6. └─base::eval(quote(`_fseq`(`_lhs`)), env, env)
     7. └─IncucyteDRC:::`_fseq`(`_lhs`)
     8. └─magrittr::freduce(value, `_function_list`)
     9. └─function_list[[i]](value)
     10. ├─dplyr::mutate(., idx = row_number())
     11. └─dplyr:::mutate.data.frame(., idx = row_number())
     12. └─dplyr:::mutate_cols(.data, ...)
    <parent: error/simpleError>
    Backtrace:
    █
    Execution halted
Flavor: r-patched-solaris-x86

Version: 0.5.4
Check: re-building of vignette outputs
Result: WARN
    Error(s) in re-building vignettes:
     ...
    --- re-building ‘IncucyteZoomExport.Rmd’ using rmarkdown
    Warning in engine$weave(file, quiet = quiet, encoding = enc) :
     Pandoc (>= 1.12.3) and/or pandoc-citeproc not available. Falling back to R Markdown v1.
    --- finished re-building ‘IncucyteZoomExport.Rmd’
    
    --- re-building ‘Overview.Rmd’ using rmarkdown
    Warning in engine$weave(file, quiet = quiet, encoding = enc) :
     Pandoc (>= 1.12.3) and/or pandoc-citeproc not available. Falling back to R Markdown v1.
    Warning: `group_indices_()` is deprecated as of dplyr 0.7.0.
    Please use `group_indices()` instead.
    This warning is displayed once every 8 hours.
    Call `lifecycle::last_warnings()` to see where this warning was generated.
    Warning: The `...` argument of `group_keys()` is deprecated as of dplyr 1.0.0.
    Please `group_by()` first
    This warning is displayed once every 8 hours.
    Call `lifecycle::last_warnings()` to see where this warning was generated.
    Warning: `select_()` is deprecated as of dplyr 0.7.0.
    Please use `select()` instead.
    This warning is displayed once every 8 hours.
    Call `lifecycle::last_warnings()` to see where this warning was generated.
    Importing platemap xml from /home/ripley/R/Lib32/IncucyteDRC/extdata/example2.PlateMap
    Plate map import successful!
    Getting pc data for plate example_data2.txt from:
    /home/ripley/R/Lib32/IncucyteDRC/extdata/example_data2.txt
    Using cut time provided to function
    Quitting from lines 94-99 (Overview.Rmd)
    Error: processing vignette 'Overview.Rmd' failed with diagnostics:
    Problem with `mutate()` input `idx`.
    ✖ could not find function "row_number"
    ℹ Input `idx` is `row_number()`.
    ℹ The error occured in group 1: sampleid = "PDD00014673", conc = 0.01371742.
    --- failed re-building ‘Overview.Rmd’
    
    SUMMARY: processing the following file failed:
     ‘Overview.Rmd’
    
    Error: Vignette re-building failed.
    Execution halted
Flavor: r-patched-solaris-x86

Version: 0.5.4
Check: examples
Result: ERROR
    Running examples in ‘IncucyteDRC-Ex.R’ failed
    The error most likely occurred in:
    
    > base::assign(".ptime", proc.time(), pos = "CheckExEnv")
    > ### Name: calculateEC50
    > ### Title: calculateEC50
    > ### Aliases: calculateEC50
    >
    > ### ** Examples
    >
    > pm_file <- system.file(file='extdata/example.PlateMap', package='IncucyteDRC')
    > test_pm <- importPlatemapXML(pm_file)
    Importing platemap xml from /home/hornik/tmp/R.check/r-release-gcc/Work/build/Packages/IncucyteDRC/extdata/example.PlateMap
    Plate map import successful!
    > data_file <- system.file(file='extdata/example_data.txt', package='IncucyteDRC')
    > test_data <- importIncucyteData(data_file, metric='pc')
    Getting pc data for plate example_data.txt from:
    /home/hornik/tmp/R.check/r-release-gcc/Work/build/Packages/IncucyteDRC/extdata/example_data.txt
    >
    > test_list <- splitIncucyteDRCPlateData(test_pm, test_data, group_columns='growthcondition')
    >
    > print(test_list)
    ## This is an IncucyteDRCSetList S3 object containing 4 IncucyteDRCSet objects
    ## Access using standard list notation ie my_list[[1]]
    ## Try lapply(my_list, print) to see more information on each object>
    > test_idrc_set <- fitGrowthCurvesGrouped(test_list[[2]])
    > test_idrc_set <- fitGrowthCurvesIndividual(test_idrc_set)
    > test_idrc_set <- calculateDRCData(test_idrc_set, cut_time=100)
    Using cut time provided to function
    > test_idrc_set <- fitDoseResponseCurve(test_idrc_set)
    Error: Problem with `mutate()` input `idx`.
    ✖ could not find function "row_number"
    ℹ Input `idx` is `row_number()`.
    ℹ The error occured in group 1: sampleid = "PDD00017273", conc = 0.3703704.
    Backtrace:
     █
     1. └─IncucyteDRC::fitDoseResponseCurve(test_idrc_set)
     2. └─IncucyteDRC::exportDRCDataToDataFrame(idrc_set, include_control)
     3. └─`%>%`(...)
     4. ├─base::withVisible(eval(quote(`_fseq`(`_lhs`)), env, env))
     5. └─base::eval(quote(`_fseq`(`_lhs`)), env, env)
     6. └─base::eval(quote(`_fseq`(`_lhs`)), env, env)
     7. └─IncucyteDRC:::`_fseq`(`_lhs`)
     8. └─magrittr::freduce(value, `_function_list`)
     9. └─function_list[[i]](value)
     10. ├─dplyr::mutate(., idx = row_number())
     11. └─dplyr:::mutate.data.frame(., idx = row_number())
     12. └─dplyr:::mutate_cols(.data, ...)
    <parent: error/simpleError>
    Backtrace:
    █
    Execution halted
Flavor: r-release-linux-x86_64

Version: 0.5.4
Check: re-building of vignette outputs
Result: WARN
    Error(s) in re-building vignettes:
     ...
    --- re-building ‘IncucyteZoomExport.Rmd’ using rmarkdown
    --- finished re-building ‘IncucyteZoomExport.Rmd’
    
    --- re-building ‘Overview.Rmd’ using rmarkdown
    Warning: `group_indices_()` is deprecated as of dplyr 0.7.0.
    Please use `group_indices()` instead.
    This warning is displayed once every 8 hours.
    Call `lifecycle::last_warnings()` to see where this warning was generated.
    Warning: The `...` argument of `group_keys()` is deprecated as of dplyr 1.0.0.
    Please `group_by()` first
    This warning is displayed once every 8 hours.
    Call `lifecycle::last_warnings()` to see where this warning was generated.
    Warning: `select_()` is deprecated as of dplyr 0.7.0.
    Please use `select()` instead.
    This warning is displayed once every 8 hours.
    Call `lifecycle::last_warnings()` to see where this warning was generated.
    Importing platemap xml from /home/hornik/tmp/R.check/r-release-gcc/Work/build/Packages/IncucyteDRC/extdata/example2.PlateMap
    Plate map import successful!
    Getting pc data for plate example_data2.txt from:
    /home/hornik/tmp/R.check/r-release-gcc/Work/build/Packages/IncucyteDRC/extdata/example_data2.txt
    Using cut time provided to function
    Quitting from lines 94-99 (Overview.Rmd)
    Error: processing vignette 'Overview.Rmd' failed with diagnostics:
    Problem with `mutate()` input `idx`.
    ✖ could not find function "row_number"
    ℹ Input `idx` is `row_number()`.
    ℹ The error occured in group 1: sampleid = "PDD00014673", conc = 0.01371742.
    --- failed re-building ‘Overview.Rmd’
    
    SUMMARY: processing the following file failed:
     ‘Overview.Rmd’
    
    Error: Vignette re-building failed.
    Execution halted
Flavor: r-release-linux-x86_64

Version: 0.5.4
Check: examples
Result: ERROR
    Running examples in 'IncucyteDRC-Ex.R' failed
    The error most likely occurred in:
    
    > ### Name: calculateEC50
    > ### Title: calculateEC50
    > ### Aliases: calculateEC50
    >
    > ### ** Examples
    >
    > pm_file <- system.file(file='extdata/example.PlateMap', package='IncucyteDRC')
    > test_pm <- importPlatemapXML(pm_file)
    Importing platemap xml from D:/temp/RtmpKw1DWp/RLIBS_2df848376f28/IncucyteDRC/extdata/example.PlateMap
    Plate map import successful!
    > data_file <- system.file(file='extdata/example_data.txt', package='IncucyteDRC')
    > test_data <- importIncucyteData(data_file, metric='pc')
    Getting pc data for plate example_data.txt from:
    D:/temp/RtmpKw1DWp/RLIBS_2df848376f28/IncucyteDRC/extdata/example_data.txt
    >
    > test_list <- splitIncucyteDRCPlateData(test_pm, test_data, group_columns='growthcondition')
    >
    > print(test_list)
    ## This is an IncucyteDRCSetList S3 object containing 4 IncucyteDRCSet objects
    ## Access using standard list notation ie my_list[[1]]
    ## Try lapply(my_list, print) to see more information on each object>
    > test_idrc_set <- fitGrowthCurvesGrouped(test_list[[2]])
    > test_idrc_set <- fitGrowthCurvesIndividual(test_idrc_set)
    > test_idrc_set <- calculateDRCData(test_idrc_set, cut_time=100)
    Using cut time provided to function
    > test_idrc_set <- fitDoseResponseCurve(test_idrc_set)
    Error: Problem with `mutate()` input `idx`.
    x could not find function "row_number"
    i Input `idx` is `row_number()`.
    i The error occured in group 1: sampleid = "PDD00017273", conc = 0.3703704.
    Backtrace:
     x
     1. \-IncucyteDRC::fitDoseResponseCurve(test_idrc_set)
     2. \-IncucyteDRC::exportDRCDataToDataFrame(idrc_set, include_control)
     3. \-`%>%`(...)
     4. +-base::withVisible(eval(quote(`_fseq`(`_lhs`)), env, env))
     5. \-base::eval(quote(`_fseq`(`_lhs`)), env, env)
     6. \-base::eval(quote(`_fseq`(`_lhs`)), env, env)
     7. \-IncucyteDRC:::`_fseq`(`_lhs`)
     8. \-magrittr::freduce(value, `_function_list`)
     9. \-function_list[[i]](value)
     10. +-dplyr::mutate(., idx = row_number())
     11. \-dplyr:::mutate.data.frame(., idx = row_number())
     12. \-dplyr:::mutate_cols(.data, ...)
    <parent: error/simpleError>
    Backtrace:
    x
    Execution halted
Flavor: r-release-windows-ix86+x86_64

Version: 0.5.4
Check: re-building of vignette outputs
Result: WARN
    Error(s) in re-building vignettes:
    --- re-building 'IncucyteZoomExport.Rmd' using rmarkdown
    --- finished re-building 'IncucyteZoomExport.Rmd'
    
    --- re-building 'Overview.Rmd' using rmarkdown
    Warning: `group_indices_()` is deprecated as of dplyr 0.7.0.
    Please use `group_indices()` instead.
    This warning is displayed once every 8 hours.
    Call `lifecycle::last_warnings()` to see where this warning was generated.
    Warning: The `...` argument of `group_keys()` is deprecated as of dplyr 1.0.0.
    Please `group_by()` first
    This warning is displayed once every 8 hours.
    Call `lifecycle::last_warnings()` to see where this warning was generated.
    Warning: `select_()` is deprecated as of dplyr 0.7.0.
    Please use `select()` instead.
    This warning is displayed once every 8 hours.
    Call `lifecycle::last_warnings()` to see where this warning was generated.
    Importing platemap xml from D:/temp/RtmpKw1DWp/RLIBS_2df848376f28/IncucyteDRC/extdata/example2.PlateMap
    Plate map import successful!
    Getting pc data for plate example_data2.txt from:
    D:/temp/RtmpKw1DWp/RLIBS_2df848376f28/IncucyteDRC/extdata/example_data2.txt
    Using cut time provided to function
    Quitting from lines 94-99 (Overview.Rmd)
    Error: processing vignette 'Overview.Rmd' failed with diagnostics:
    Problem with `mutate()` input `idx`.
    x could not find function "row_number"
    i Input `idx` is `row_number()`.
    i The error occured in group 1: sampleid = "PDD00014673", conc = 0.01371742.
    --- failed re-building 'Overview.Rmd'
    
    SUMMARY: processing the following file failed:
     'Overview.Rmd'
    
    Error: Vignette re-building failed.
    Execution halted
Flavor: r-release-windows-ix86+x86_64