Last updated on 2020-01-20 01:50:14 CET.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 1.0.1 | 3.33 | 327.27 | 330.60 | OK | |
| r-devel-linux-x86_64-debian-gcc | 1.0.1 | 2.94 | 253.79 | 256.73 | OK | |
| r-devel-linux-x86_64-fedora-clang | 1.0.1 | 392.71 | OK | |||
| r-devel-linux-x86_64-fedora-gcc | 1.0.1 | 395.70 | OK | |||
| r-devel-windows-ix86+x86_64 | 1.0.1 | 15.00 | 138.00 | 153.00 | ERROR | |
| r-devel-windows-ix86+x86_64-gcc8 | 1.0.1 | 8.00 | 109.00 | 117.00 | ERROR | |
| r-patched-linux-x86_64 | 1.0.1 | 3.27 | 300.71 | 303.98 | OK | |
| r-patched-solaris-x86 | 1.0.1 | 703.50 | OK | |||
| r-release-linux-x86_64 | 1.0.1 | 3.05 | 307.72 | 310.77 | OK | |
| r-release-windows-ix86+x86_64 | 1.0.1 | 12.00 | 418.00 | 430.00 | OK | |
| r-release-osx-x86_64 | 1.0.1 | ERROR | ||||
| r-oldrel-windows-ix86+x86_64 | 1.0.1 | 3.00 | 327.00 | 330.00 | OK | |
| r-oldrel-osx-x86_64 | 1.0.1 | ERROR |
Version: 1.0.1
Check: tests
Result: ERROR
Running 'testthat.R' [47s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
> library(testthat)
> library(ActiveDriverWGS)
>
> test_check("ActiveDriverWGS")
-- 1. Error: (unknown) (@test_ADWGS_test.R#7) ---------------------------------
trying to get slot "className" from an object of a basic class ("character") with no slots
Backtrace:
1. GenomicRanges::GRanges(...)
2. S4Vectors::DataFrame(..., check.names = FALSE)
3. methods::is(listData[[1L]], getClass("Annotated"))
-- 2. Error: (unknown) (@test_ActiveDriverWGS.R#7) ----------------------------
trying to get slot "className" from an object of a basic class ("character") with no slots
Backtrace:
1. GenomicRanges::GRanges(...)
2. S4Vectors::DataFrame(..., check.names = FALSE)
3. methods::is(listData[[1L]], getClass("Annotated"))
reversing 0 positions
Removing 0 invalid SNVs & indels
reversing 0 positions
Removing 0 invalid SNVs
28 remove hypermut, n= 58256 , 100 %
hypermuted samples: 001-0002-03TD 003-0005-09TD 012-02-1TD 125 128 137 141 151 178 192 26 277 282 294 306 308 318 342 343 367 393 467 473 477 519 523 564 CLL4-ARTICLE
0 remove hypermut, n= 0 , 0 %
hypermuted samples:
0 remove hypermut, n= 0 , 0 %
hypermuted samples:
reversing 0 positions
0 remove hypermut, n= 0 , 0 %
hypermuted samples:
reversing 0 positions
Removing 0 invalid SNVs & indels
-- 3. Failure: elements are formatted properly (@test_input_format.R#112) -----
`ActiveDriverWGS(elements = as.matrix(cancer_genes), mutations = cll_mutations)` threw an error with unexpected message.
Expected match: "elements must be a data frame"
Actual message: "trying to get slot \"className\" from an object of a basic class (\"character\") with no slots"
Backtrace:
1. testthat::expect_error(...)
6. ActiveDriverWGS::ActiveDriverWGS(...)
7. GenomicRanges::GRanges(...)
8. S4Vectors::DataFrame(..., check.names = FALSE)
9. methods::is(listData[[1L]], getClass("Annotated"))
0 remove hypermut, n= 0 , 0 %
hypermuted samples:
reversing 0 positions
Removing 0 invalid SNVs & indels
-- 4. Failure: elements are formatted properly (@test_input_format.R#117) -----
`ActiveDriverWGS(elements = cancer_genes[, 1:3], mutations = cll_mutations)` threw an error with unexpected message.
Expected match: "elements must contain the following columns: chr, start, end & id"
Actual message: "trying to get slot \"className\" from an object of a basic class (\"character\") with no slots"
Backtrace:
1. testthat::expect_error(...)
6. ActiveDriverWGS::ActiveDriverWGS(...)
7. GenomicRanges::GRanges(...)
8. S4Vectors::DataFrame(..., check.names = FALSE)
9. methods::is(listData[[1L]], getClass("Annotated"))
0 remove hypermut, n= 0 , 0 %
hypermuted samples:
reversing 0 positions
Removing 0 invalid SNVs & indels
-- 5. Failure: elements are formatted properly (@test_input_format.R#124) -----
`ActiveDriverWGS(elements = this_elements, mutations = cll_mutations)` threw an error with unexpected message.
Expected match: "elements may not contain missing values"
Actual message: "trying to get slot \"className\" from an object of a basic class (\"character\") with no slots"
Backtrace:
1. testthat::expect_error(...)
6. ActiveDriverWGS::ActiveDriverWGS(elements = this_elements, mutations = cll_mutations)
7. GenomicRanges::GRanges(...)
8. S4Vectors::DataFrame(..., check.names = FALSE)
9. methods::is(listData[[1L]], getClass("Annotated"))
0 remove hypermut, n= 0 , 0 %
hypermuted samples:
reversing 0 positions
Removing 0 invalid SNVs & indels
-- 6. Failure: elements are formatted properly (@test_input_format.R#130) -----
`ActiveDriverWGS(elements = this_elements, mutations = cll_mutations)` threw an error with unexpected message.
Expected match: "duplicated elements are present. please review your format"
Actual message: "trying to get slot \"className\" from an object of a basic class (\"character\") with no slots"
Backtrace:
1. testthat::expect_error(...)
6. ActiveDriverWGS::ActiveDriverWGS(elements = this_elements, mutations = cll_mutations)
7. GenomicRanges::GRanges(...)
8. S4Vectors::DataFrame(..., check.names = FALSE)
9. methods::is(listData[[1L]], getClass("Annotated"))
0 remove hypermut, n= 0 , 0 %
hypermuted samples:
reversing 0 positions
Removing 0 invalid SNVs & indels
-- 7. Failure: elements are formatted properly (@test_input_format.R#137) -----
`ActiveDriverWGS(elements = this_elements, mutations = cll_mutations)` threw an error with unexpected message.
Expected match: "start and end must be numeric"
Actual message: "trying to get slot \"className\" from an object of a basic class (\"character\") with no slots"
Backtrace:
1. testthat::expect_error(...)
6. ActiveDriverWGS::ActiveDriverWGS(elements = this_elements, mutations = cll_mutations)
7. GenomicRanges::GRanges(...)
8. S4Vectors::DataFrame(..., check.names = FALSE)
9. methods::is(listData[[1L]], getClass("Annotated"))
0 remove hypermut, n= 0 , 0 %
hypermuted samples:
reversing 0 positions
Removing 0 invalid SNVs & indels
-- 8. Failure: elements are formatted properly (@test_input_format.R#144) -----
`ActiveDriverWGS(elements = this_elements, mutations = cll_mutations)` threw an error with unexpected message.
Expected match: "element identifier must be a string"
Actual message: "trying to get slot \"className\" from an object of a basic class (\"character\") with no slots"
Backtrace:
1. testthat::expect_error(...)
6. ActiveDriverWGS::ActiveDriverWGS(elements = this_elements, mutations = cll_mutations)
7. GenomicRanges::GRanges(...)
8. S4Vectors::DataFrame(..., check.names = FALSE)
9. methods::is(listData[[1L]], getClass("Annotated"))
0 remove hypermut, n= 0 , 0 %
hypermuted samples:
reversing 0 positions
Removing 0 invalid SNVs & indels
-- 9. Failure: sites are formatted properly (@test_input_format.R#152) --------
`ActiveDriverWGS(...)` threw an error with unexpected message.
Expected match: "sites must be a data frame"
Actual message: "trying to get slot \"className\" from an object of a basic class (\"character\") with no slots"
Backtrace:
1. testthat::expect_error(...)
6. ActiveDriverWGS::ActiveDriverWGS(...)
7. GenomicRanges::GRanges(...)
8. S4Vectors::DataFrame(..., check.names = FALSE)
9. methods::is(listData[[1L]], getClass("Annotated"))
0 remove hypermut, n= 0 , 0 %
hypermuted samples:
reversing 0 positions
Removing 0 invalid SNVs & indels
-- 10. Failure: sites are formatted properly (@test_input_format.R#158) -------
`ActiveDriverWGS(...)` threw an error with unexpected message.
Expected match: "sites must contain the following columns: chr, start, end & id"
Actual message: "trying to get slot \"className\" from an object of a basic class (\"character\") with no slots"
Backtrace:
1. testthat::expect_error(...)
6. ActiveDriverWGS::ActiveDriverWGS(...)
7. GenomicRanges::GRanges(...)
8. S4Vectors::DataFrame(..., check.names = FALSE)
9. methods::is(listData[[1L]], getClass("Annotated"))
0 remove hypermut, n= 0 , 0 %
hypermuted samples:
reversing 0 positions
Removing 0 invalid SNVs & indels
-- 11. Failure: sites are formatted properly (@test_input_format.R#167) -------
`ActiveDriverWGS(...)` threw an error with unexpected message.
Expected match: "sites may not contain missing values"
Actual message: "trying to get slot \"className\" from an object of a basic class (\"character\") with no slots"
Backtrace:
1. testthat::expect_error(...)
6. ActiveDriverWGS::ActiveDriverWGS(...)
7. GenomicRanges::GRanges(...)
8. S4Vectors::DataFrame(..., check.names = FALSE)
9. methods::is(listData[[1L]], getClass("Annotated"))
0 remove hypermut, n= 0 , 0 %
hypermuted samples:
reversing 0 positions
Removing 0 invalid SNVs & indels
-- 12. Failure: sites are formatted properly (@test_input_format.R#174) -------
`ActiveDriverWGS(...)` threw an error with unexpected message.
Expected match: "duplicated sites are present. please review your format"
Actual message: "trying to get slot \"className\" from an object of a basic class (\"character\") with no slots"
Backtrace:
1. testthat::expect_error(...)
6. ActiveDriverWGS::ActiveDriverWGS(...)
7. GenomicRanges::GRanges(...)
8. S4Vectors::DataFrame(..., check.names = FALSE)
9. methods::is(listData[[1L]], getClass("Annotated"))
0 remove hypermut, n= 0 , 0 %
hypermuted samples:
reversing 0 positions
Removing 0 invalid SNVs & indels
-- 13. Failure: sites are formatted properly (@test_input_format.R#182) -------
`ActiveDriverWGS(...)` threw an error with unexpected message.
Expected match: "start and end must be numeric"
Actual message: "trying to get slot \"className\" from an object of a basic class (\"character\") with no slots"
Backtrace:
1. testthat::expect_error(...)
6. ActiveDriverWGS::ActiveDriverWGS(...)
7. GenomicRanges::GRanges(...)
8. S4Vectors::DataFrame(..., check.names = FALSE)
9. methods::is(listData[[1L]], getClass("Annotated"))
0 remove hypermut, n= 0 , 0 %
hypermuted samples:
reversing 0 positions
Removing 0 invalid SNVs & indels
-- 14. Failure: sites are formatted properly (@test_input_format.R#190) -------
`ActiveDriverWGS(...)` threw an error with unexpected message.
Expected match: "site identifier must be a string"
Actual message: "trying to get slot \"className\" from an object of a basic class (\"character\") with no slots"
Backtrace:
1. testthat::expect_error(...)
6. ActiveDriverWGS::ActiveDriverWGS(...)
7. GenomicRanges::GRanges(...)
8. S4Vectors::DataFrame(..., check.names = FALSE)
9. methods::is(listData[[1L]], getClass("Annotated"))
1189 Rows :: Processing row 100 200 300 400 500 600 700 800 900 1000 1100
Preparing Elements Complete
RM 0 lines
5 Rows :: Processing row
5 Rows :: Processing row
5 Rows :: Processing row == testthat results ===========================================================
[ OK: 48 | SKIPPED: 0 | WARNINGS: 0 | FAILED: 14 ]
1. Error: (unknown) (@test_ADWGS_test.R#7)
2. Error: (unknown) (@test_ActiveDriverWGS.R#7)
3. Failure: elements are formatted properly (@test_input_format.R#112)
4. Failure: elements are formatted properly (@test_input_format.R#117)
5. Failure: elements are formatted properly (@test_input_format.R#124)
6. Failure: elements are formatted properly (@test_input_format.R#130)
7. Failure: elements are formatted properly (@test_input_format.R#137)
8. Failure: elements are formatted properly (@test_input_format.R#144)
9. Failure: sites are formatted properly (@test_input_format.R#152)
1. ...
Error: testthat unit tests failed
Execution halted
Flavor: r-devel-windows-ix86+x86_64
Version: 1.0.1
Check: re-building of vignette outputs
Result: WARN
Error(s) in re-building vignettes:
--- re-building 'ActiveDriverWGSR.Rmd' using rmarkdown
Quitting from lines 109-116 (ActiveDriverWGSR.Rmd)
Error: processing vignette 'ActiveDriverWGSR.Rmd' failed with diagnostics:
trying to get slot "className" from an object of a basic class ("character") with no slots
--- failed re-building 'ActiveDriverWGSR.Rmd'
SUMMARY: processing the following file failed:
'ActiveDriverWGSR.Rmd'
Error: Vignette re-building failed.
Execution halted
Flavor: r-devel-windows-ix86+x86_64
Version: 1.0.1
Check: tests
Result: ERROR
Running 'testthat.R' [38s]
Running the tests in 'tests/testthat.R' failed.
Complete output:
> library(testthat)
> library(ActiveDriverWGS)
>
> test_check("ActiveDriverWGS")
-- 1. Error: (unknown) (@test_ADWGS_test.R#7) ---------------------------------
trying to get slot "className" from an object of a basic class ("character") with no slots
Backtrace:
1. GenomicRanges::GRanges(...)
2. S4Vectors::DataFrame(..., check.names = FALSE)
3. methods::is(listData[[1L]], getClass("Annotated"))
-- 2. Error: (unknown) (@test_ActiveDriverWGS.R#7) ----------------------------
trying to get slot "className" from an object of a basic class ("character") with no slots
Backtrace:
1. GenomicRanges::GRanges(...)
2. S4Vectors::DataFrame(..., check.names = FALSE)
3. methods::is(listData[[1L]], getClass("Annotated"))
reversing 0 positions
Removing 0 invalid SNVs & indels
reversing 0 positions
Removing 0 invalid SNVs
28 remove hypermut, n= 58256 , 100 %
hypermuted samples: 001-0002-03TD 003-0005-09TD 012-02-1TD 125 128 137 141 151 178 192 26 277 282 294 306 308 318 342 343 367 393 467 473 477 519 523 564 CLL4-ARTICLE
0 remove hypermut, n= 0 , 0 %
hypermuted samples:
0 remove hypermut, n= 0 , 0 %
hypermuted samples:
reversing 0 positions
0 remove hypermut, n= 0 , 0 %
hypermuted samples:
reversing 0 positions
Removing 0 invalid SNVs & indels
-- 3. Failure: elements are formatted properly (@test_input_format.R#112) -----
`ActiveDriverWGS(elements = as.matrix(cancer_genes), mutations = cll_mutations)` threw an error with unexpected message.
Expected match: "elements must be a data frame"
Actual message: "trying to get slot \"className\" from an object of a basic class (\"character\") with no slots"
Backtrace:
1. testthat::expect_error(...)
6. ActiveDriverWGS::ActiveDriverWGS(...)
7. GenomicRanges::GRanges(...)
8. S4Vectors::DataFrame(..., check.names = FALSE)
9. methods::is(listData[[1L]], getClass("Annotated"))
0 remove hypermut, n= 0 , 0 %
hypermuted samples:
reversing 0 positions
Removing 0 invalid SNVs & indels
-- 4. Failure: elements are formatted properly (@test_input_format.R#117) -----
`ActiveDriverWGS(elements = cancer_genes[, 1:3], mutations = cll_mutations)` threw an error with unexpected message.
Expected match: "elements must contain the following columns: chr, start, end & id"
Actual message: "trying to get slot \"className\" from an object of a basic class (\"character\") with no slots"
Backtrace:
1. testthat::expect_error(...)
6. ActiveDriverWGS::ActiveDriverWGS(...)
7. GenomicRanges::GRanges(...)
8. S4Vectors::DataFrame(..., check.names = FALSE)
9. methods::is(listData[[1L]], getClass("Annotated"))
0 remove hypermut, n= 0 , 0 %
hypermuted samples:
reversing 0 positions
Removing 0 invalid SNVs & indels
-- 5. Failure: elements are formatted properly (@test_input_format.R#124) -----
`ActiveDriverWGS(elements = this_elements, mutations = cll_mutations)` threw an error with unexpected message.
Expected match: "elements may not contain missing values"
Actual message: "trying to get slot \"className\" from an object of a basic class (\"character\") with no slots"
Backtrace:
1. testthat::expect_error(...)
6. ActiveDriverWGS::ActiveDriverWGS(elements = this_elements, mutations = cll_mutations)
7. GenomicRanges::GRanges(...)
8. S4Vectors::DataFrame(..., check.names = FALSE)
9. methods::is(listData[[1L]], getClass("Annotated"))
0 remove hypermut, n= 0 , 0 %
hypermuted samples:
reversing 0 positions
Removing 0 invalid SNVs & indels
-- 6. Failure: elements are formatted properly (@test_input_format.R#130) -----
`ActiveDriverWGS(elements = this_elements, mutations = cll_mutations)` threw an error with unexpected message.
Expected match: "duplicated elements are present. please review your format"
Actual message: "trying to get slot \"className\" from an object of a basic class (\"character\") with no slots"
Backtrace:
1. testthat::expect_error(...)
6. ActiveDriverWGS::ActiveDriverWGS(elements = this_elements, mutations = cll_mutations)
7. GenomicRanges::GRanges(...)
8. S4Vectors::DataFrame(..., check.names = FALSE)
9. methods::is(listData[[1L]], getClass("Annotated"))
0 remove hypermut, n= 0 , 0 %
hypermuted samples:
reversing 0 positions
Removing 0 invalid SNVs & indels
-- 7. Failure: elements are formatted properly (@test_input_format.R#137) -----
`ActiveDriverWGS(elements = this_elements, mutations = cll_mutations)` threw an error with unexpected message.
Expected match: "start and end must be numeric"
Actual message: "trying to get slot \"className\" from an object of a basic class (\"character\") with no slots"
Backtrace:
1. testthat::expect_error(...)
6. ActiveDriverWGS::ActiveDriverWGS(elements = this_elements, mutations = cll_mutations)
7. GenomicRanges::GRanges(...)
8. S4Vectors::DataFrame(..., check.names = FALSE)
9. methods::is(listData[[1L]], getClass("Annotated"))
0 remove hypermut, n= 0 , 0 %
hypermuted samples:
reversing 0 positions
Removing 0 invalid SNVs & indels
-- 8. Failure: elements are formatted properly (@test_input_format.R#144) -----
`ActiveDriverWGS(elements = this_elements, mutations = cll_mutations)` threw an error with unexpected message.
Expected match: "element identifier must be a string"
Actual message: "trying to get slot \"className\" from an object of a basic class (\"character\") with no slots"
Backtrace:
1. testthat::expect_error(...)
6. ActiveDriverWGS::ActiveDriverWGS(elements = this_elements, mutations = cll_mutations)
7. GenomicRanges::GRanges(...)
8. S4Vectors::DataFrame(..., check.names = FALSE)
9. methods::is(listData[[1L]], getClass("Annotated"))
0 remove hypermut, n= 0 , 0 %
hypermuted samples:
reversing 0 positions
Removing 0 invalid SNVs & indels
-- 9. Failure: sites are formatted properly (@test_input_format.R#152) --------
`ActiveDriverWGS(...)` threw an error with unexpected message.
Expected match: "sites must be a data frame"
Actual message: "trying to get slot \"className\" from an object of a basic class (\"character\") with no slots"
Backtrace:
1. testthat::expect_error(...)
6. ActiveDriverWGS::ActiveDriverWGS(...)
7. GenomicRanges::GRanges(...)
8. S4Vectors::DataFrame(..., check.names = FALSE)
9. methods::is(listData[[1L]], getClass("Annotated"))
0 remove hypermut, n= 0 , 0 %
hypermuted samples:
reversing 0 positions
Removing 0 invalid SNVs & indels
-- 10. Failure: sites are formatted properly (@test_input_format.R#158) -------
`ActiveDriverWGS(...)` threw an error with unexpected message.
Expected match: "sites must contain the following columns: chr, start, end & id"
Actual message: "trying to get slot \"className\" from an object of a basic class (\"character\") with no slots"
Backtrace:
1. testthat::expect_error(...)
6. ActiveDriverWGS::ActiveDriverWGS(...)
7. GenomicRanges::GRanges(...)
8. S4Vectors::DataFrame(..., check.names = FALSE)
9. methods::is(listData[[1L]], getClass("Annotated"))
0 remove hypermut, n= 0 , 0 %
hypermuted samples:
reversing 0 positions
Removing 0 invalid SNVs & indels
-- 11. Failure: sites are formatted properly (@test_input_format.R#167) -------
`ActiveDriverWGS(...)` threw an error with unexpected message.
Expected match: "sites may not contain missing values"
Actual message: "trying to get slot \"className\" from an object of a basic class (\"character\") with no slots"
Backtrace:
1. testthat::expect_error(...)
6. ActiveDriverWGS::ActiveDriverWGS(...)
7. GenomicRanges::GRanges(...)
8. S4Vectors::DataFrame(..., check.names = FALSE)
9. methods::is(listData[[1L]], getClass("Annotated"))
0 remove hypermut, n= 0 , 0 %
hypermuted samples:
reversing 0 positions
Removing 0 invalid SNVs & indels
-- 12. Failure: sites are formatted properly (@test_input_format.R#174) -------
`ActiveDriverWGS(...)` threw an error with unexpected message.
Expected match: "duplicated sites are present. please review your format"
Actual message: "trying to get slot \"className\" from an object of a basic class (\"character\") with no slots"
Backtrace:
1. testthat::expect_error(...)
6. ActiveDriverWGS::ActiveDriverWGS(...)
7. GenomicRanges::GRanges(...)
8. S4Vectors::DataFrame(..., check.names = FALSE)
9. methods::is(listData[[1L]], getClass("Annotated"))
0 remove hypermut, n= 0 , 0 %
hypermuted samples:
reversing 0 positions
Removing 0 invalid SNVs & indels
-- 13. Failure: sites are formatted properly (@test_input_format.R#182) -------
`ActiveDriverWGS(...)` threw an error with unexpected message.
Expected match: "start and end must be numeric"
Actual message: "trying to get slot \"className\" from an object of a basic class (\"character\") with no slots"
Backtrace:
1. testthat::expect_error(...)
6. ActiveDriverWGS::ActiveDriverWGS(...)
7. GenomicRanges::GRanges(...)
8. S4Vectors::DataFrame(..., check.names = FALSE)
9. methods::is(listData[[1L]], getClass("Annotated"))
0 remove hypermut, n= 0 , 0 %
hypermuted samples:
reversing 0 positions
Removing 0 invalid SNVs & indels
-- 14. Failure: sites are formatted properly (@test_input_format.R#190) -------
`ActiveDriverWGS(...)` threw an error with unexpected message.
Expected match: "site identifier must be a string"
Actual message: "trying to get slot \"className\" from an object of a basic class (\"character\") with no slots"
Backtrace:
1. testthat::expect_error(...)
6. ActiveDriverWGS::ActiveDriverWGS(...)
7. GenomicRanges::GRanges(...)
8. S4Vectors::DataFrame(..., check.names = FALSE)
9. methods::is(listData[[1L]], getClass("Annotated"))
1189 Rows :: Processing row 100 200 300 400 500 600 700 800 900 1000 1100
Preparing Elements Complete
RM 0 lines
5 Rows :: Processing row
5 Rows :: Processing row
5 Rows :: Processing row == testthat results ===========================================================
[ OK: 48 | SKIPPED: 0 | WARNINGS: 1 | FAILED: 14 ]
1. Error: (unknown) (@test_ADWGS_test.R#7)
2. Error: (unknown) (@test_ActiveDriverWGS.R#7)
3. Failure: elements are formatted properly (@test_input_format.R#112)
4. Failure: elements are formatted properly (@test_input_format.R#117)
5. Failure: elements are formatted properly (@test_input_format.R#124)
6. Failure: elements are formatted properly (@test_input_format.R#130)
7. Failure: elements are formatted properly (@test_input_format.R#137)
8. Failure: elements are formatted properly (@test_input_format.R#144)
9. Failure: sites are formatted properly (@test_input_format.R#152)
1. ...
Error: testthat unit tests failed
Execution halted
Flavor: r-devel-windows-ix86+x86_64-gcc8
Version: 1.0.1
Check: re-building of vignette outputs
Result: WARN
Error(s) in re-building vignettes:
--- re-building 'ActiveDriverWGSR.Rmd' using rmarkdown
Warning: replacing previous import 'GenomicRanges::.__C__GenomicRanges_OR_GenomicRangesList' by 'rtracklayer::.__C__GenomicRanges_OR_GenomicRangesList' when loading 'BSgenome'
Quitting from lines 109-116 (ActiveDriverWGSR.Rmd)
Error: processing vignette 'ActiveDriverWGSR.Rmd' failed with diagnostics:
trying to get slot "className" from an object of a basic class ("character") with no slots
--- failed re-building 'ActiveDriverWGSR.Rmd'
SUMMARY: processing the following file failed:
'ActiveDriverWGSR.Rmd'
Error: Vignette re-building failed.
Execution halted
Flavor: r-devel-windows-ix86+x86_64-gcc8
Version: 1.0.1
Check: package dependencies
Result: ERROR
Package required but not available: ‘BSgenome.Hsapiens.UCSC.hg19’
See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Flavor: r-release-osx-x86_64
Version: 1.0.1
Check: package dependencies
Result: ERROR
Packages required but not available:
‘BSgenome’ ‘BSgenome.Hsapiens.UCSC.hg19’
See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
Flavor: r-oldrel-osx-x86_64