Last updated on 2024-03-28 23:55:18 CET.
Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
---|---|---|---|---|---|---|
r-devel-linux-x86_64-debian-clang | 2.0.0 | 156.26 | 534.18 | 690.44 | ERROR | |
r-devel-linux-x86_64-debian-gcc | 2.0.0 | 121.77 | 386.93 | 508.70 | ERROR | |
r-devel-linux-x86_64-fedora-clang | 2.0.0 | 1038.72 | NOTE | |||
r-devel-linux-x86_64-fedora-gcc | 2.0.0 | 981.86 | NOTE | |||
r-devel-windows-x86_64 | 2.0.0 | 125.00 | 640.00 | 765.00 | NOTE | |
r-patched-linux-x86_64 | 2.0.0 | 126.57 | 503.54 | 630.11 | ERROR | |
r-release-linux-x86_64 | 2.0.0 | 112.23 | 513.33 | 625.56 | ERROR | |
r-release-macos-arm64 | 2.0.0 | 194.00 | ERROR | |||
r-release-macos-x86_64 | 2.0.0 | 380.00 | ERROR | |||
r-release-windows-x86_64 | 2.0.0 | 126.00 | 671.00 | 797.00 | NOTE | |
r-oldrel-macos-arm64 | 2.0.0 | 191.00 | NOTE | |||
r-oldrel-windows-x86_64 | 2.0.0 | 107.00 | 612.00 | 719.00 | NOTE |
Version: 2.0.0
Check: package dependencies
Result: NOTE
Packages suggested but not available for checking:
'DoubletFinder', 'RcppPlanc'
Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-devel-windows-x86_64, r-patched-linux-x86_64, r-release-linux-x86_64, r-release-windows-x86_64, r-oldrel-windows-x86_64
Version: 2.0.0
Check: examples
Result: ERROR
Running examples in ‘rliger-Ex.R’ failed
The error most likely occurred in:
> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: createH5LigerDataset
> ### Title: Create on-disk ligerDataset Object
> ### Aliases: createH5LigerDataset
>
> ### ** Examples
>
> h5Path <- system.file("extdata/ctrl.h5", package = "rliger")
> ld <- createH5LigerDataset(h5Path)
Error in H5File.open(filename, mode, file_create_pl, file_access_pl) :
HDF5-API Errors:
error #000: ../../../src/H5F.c in H5Fopen(): line 412: unable to open file
class: HDF5
major: File accessibility
minor: Unable to open file
error #001: ../../../src/H5Fint.c in H5F_open(): line 1655: unable to open file: time = Tue Mar 26 08:55:16 2024
, name = '/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/rliger/extdata/ctrl.h5', tent_flags = 1
class: HDF5
major: File accessibility
minor: Unable to open file
error #002: ../../../src/H5FD.c in H5FD_open(): line 722: open failed
class: HDF5
major: Virtual File Layer
minor: Unable to initialize object
error #003: ../../../src/H5FDsec2.c in H5FD__sec2_open(): line 351: unable to open file: name = '/home/hornik/tmp/R.check/r-devel-clang/Work/build/Packages/rliger/extdata/ctrl.h5', errno = 30, error message = 'Read-only file system', flags = 1, o_flag class: HDF5
major: File accessibility
Calls: createH5LigerDataset -> <Anonymous> -> initialize -> H5File.open
Execution halted
Flavor: r-devel-linux-x86_64-debian-clang
Version: 2.0.0
Check: examples
Result: ERROR
Running examples in ‘rliger-Ex.R’ failed
The error most likely occurred in:
> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: createH5LigerDataset
> ### Title: Create on-disk ligerDataset Object
> ### Aliases: createH5LigerDataset
>
> ### ** Examples
>
> h5Path <- system.file("extdata/ctrl.h5", package = "rliger")
> ld <- createH5LigerDataset(h5Path)
Error in H5File.open(filename, mode, file_create_pl, file_access_pl) :
HDF5-API Errors:
error #000: ../../../src/H5F.c in H5Fopen(): line 412: unable to open file
class: HDF5
major: File accessibility
minor: Unable to open file
error #001: ../../../src/H5Fint.c in H5F_open(): line 1655: unable to open file: time = Thu Mar 28 02:59:47 2024
, name = '/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/rliger/extdata/ctrl.h5', tent_flags = 1
class: HDF5
major: File accessibility
minor: Unable to open file
error #002: ../../../src/H5FD.c in H5FD_open(): line 722: open failed
class: HDF5
major: Virtual File Layer
minor: Unable to initialize object
error #003: ../../../src/H5FDsec2.c in H5FD__sec2_open(): line 351: unable to open file: name = '/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/rliger/extdata/ctrl.h5', errno = 30, error message = 'Read-only file system', flags = 1, o_flags class: HDF5
major: File accessibility
mi
Calls: createH5LigerDataset -> <Anonymous> -> initialize -> H5File.open
Execution halted
Flavor: r-devel-linux-x86_64-debian-gcc
Version: 2.0.0
Check: Rd cross-references
Result: NOTE
Undeclared package ‘viridisLite’ in Rd xrefs
Flavor: r-devel-linux-x86_64-fedora-clang
Version: 2.0.0
Check: examples
Result: ERROR
Running examples in ‘rliger-Ex.R’ failed
The error most likely occurred in:
> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: createH5LigerDataset
> ### Title: Create on-disk ligerDataset Object
> ### Aliases: createH5LigerDataset
>
> ### ** Examples
>
> h5Path <- system.file("extdata/ctrl.h5", package = "rliger")
> ld <- createH5LigerDataset(h5Path)
Error in H5File.open(filename, mode, file_create_pl, file_access_pl) :
HDF5-API Errors:
error #000: ../../../src/H5F.c in H5Fopen(): line 412: unable to open file
class: HDF5
major: File accessibility
minor: Unable to open file
error #001: ../../../src/H5Fint.c in H5F_open(): line 1655: unable to open file: time = Thu Mar 28 04:25:20 2024
, name = '/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/rliger/extdata/ctrl.h5', tent_flags = 1
class: HDF5
major: File accessibility
minor: Unable to open file
error #002: ../../../src/H5FD.c in H5FD_open(): line 722: open failed
class: HDF5
major: Virtual File Layer
minor: Unable to initialize object
error #003: ../../../src/H5FDsec2.c in H5FD__sec2_open(): line 351: unable to open file: name = '/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/rliger/extdata/ctrl.h5', errno = 30, error message = 'Read-only file system', flags = 1, o_flag class: HDF5
major: File accessibility
Calls: createH5LigerDataset -> <Anonymous> -> initialize -> H5File.open
Execution halted
Flavor: r-patched-linux-x86_64
Version: 2.0.0
Check: examples
Result: ERROR
Running examples in ‘rliger-Ex.R’ failed
The error most likely occurred in:
> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: createH5LigerDataset
> ### Title: Create on-disk ligerDataset Object
> ### Aliases: createH5LigerDataset
>
> ### ** Examples
>
> h5Path <- system.file("extdata/ctrl.h5", package = "rliger")
> ld <- createH5LigerDataset(h5Path)
Error in H5File.open(filename, mode, file_create_pl, file_access_pl) :
HDF5-API Errors:
error #000: ../../../src/H5F.c in H5Fopen(): line 412: unable to open file
class: HDF5
major: File accessibility
minor: Unable to open file
error #001: ../../../src/H5Fint.c in H5F_open(): line 1655: unable to open file: time = Sun Mar 24 15:48:34 2024
, name = '/home/hornik/tmp/R.check/r-release-gcc/Work/build/Packages/rliger/extdata/ctrl.h5', tent_flags = 1
class: HDF5
major: File accessibility
minor: Unable to open file
error #002: ../../../src/H5FD.c in H5FD_open(): line 722: open failed
class: HDF5
major: Virtual File Layer
minor: Unable to initialize object
error #003: ../../../src/H5FDsec2.c in H5FD__sec2_open(): line 351: unable to open file: name = '/home/hornik/tmp/R.check/r-release-gcc/Work/build/Packages/rliger/extdata/ctrl.h5', errno = 30, error message = 'Read-only file system', flags = 1, o_flag class: HDF5
major: File accessibility
Calls: createH5LigerDataset -> <Anonymous> -> initialize -> H5File.open
Execution halted
Flavor: r-release-linux-x86_64
Version: 2.0.0
Check: package dependencies
Result: NOTE
Packages suggested but not available for checking:
'DoubletFinder', 'EnhancedVolcano', 'RcppPlanc', 'reactome.db'
Flavors: r-release-macos-arm64, r-release-macos-x86_64
Version: 2.0.0
Check: installed package size
Result: NOTE
installed size is 8.2Mb
sub-directories of 1Mb or more:
libs 5.3Mb
Flavors: r-release-macos-arm64, r-release-macos-x86_64, r-oldrel-macos-arm64
Version: 2.0.0
Check: Rd cross-references
Result: NOTE
Package unavailable to check Rd xrefs: ‘EnhancedVolcano’
Flavors: r-release-macos-arm64, r-release-macos-x86_64, r-oldrel-macos-arm64
Version: 2.0.0
Check: tests
Result: ERROR
Running ‘testthat.R’ [23s/30s]
Running the tests in ‘tests/testthat.R’ failed.
Last 13 lines of output:
1. ├─testthat::expect_warning(...) at test_downstream.R:245:9
2. │ └─testthat:::quasi_capture(...)
3. │ ├─testthat (local) .capture(...)
4. │ │ └─base::withCallingHandlers(...)
5. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
6. ├─testthat::expect_is(...) at test_downstream.R:246:13
7. │ └─testthat::quasi_label(enquo(object), label, arg = "object")
8. │ └─rlang::eval_bare(expr, quo_get_env(quo))
9. └─rliger::runGSEA(pbmcPlot, genesets = "Immune System")
10. └─cli::cli_abort("Package {.pkg reactome.db} is needed for this function to work.\n Please install it by command:\n {.code BiocManager::install('reactome.db')}")
11. └─rlang::abort(...)
[ FAIL 1 | WARN 0 | SKIP 16 | PASS 1039 ]
Error: Test failures
Execution halted
Flavor: r-release-macos-arm64
Version: 2.0.0
Check: tests
Result: ERROR
Running ‘testthat.R’ [37s/61s]
Running the tests in ‘tests/testthat.R’ failed.
Last 13 lines of output:
1. ├─testthat::expect_warning(...) at test_downstream.R:245:9
2. │ └─testthat:::quasi_capture(...)
3. │ ├─testthat (local) .capture(...)
4. │ │ └─base::withCallingHandlers(...)
5. │ └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
6. ├─testthat::expect_is(...) at test_downstream.R:246:13
7. │ └─testthat::quasi_label(enquo(object), label, arg = "object")
8. │ └─rlang::eval_bare(expr, quo_get_env(quo))
9. └─rliger::runGSEA(pbmcPlot, genesets = "Immune System")
10. └─cli::cli_abort("Package {.pkg reactome.db} is needed for this function to work.\n Please install it by command:\n {.code BiocManager::install('reactome.db')}")
11. └─rlang::abort(...)
[ FAIL 1 | WARN 0 | SKIP 16 | PASS 1039 ]
Error: Test failures
Execution halted
Flavor: r-release-macos-x86_64
Version: 2.0.0
Check: package dependencies
Result: NOTE
Packages suggested but not available for checking:
'DoubletFinder', 'EnhancedVolcano', 'RcppPlanc'
Flavor: r-oldrel-macos-arm64