revdep/problems.md

In HenrikBengtsson/doFuture: Use Foreach to Parallelize via the Future Framework

envi

• Version: 0.1.17
• GitHub: https://github.com/lance-waller-lab/envi
• Source code: https://github.com/cran/envi
• Date/Publication: 2023-02-02 00:40:02 UTC
• Number of recursive dependencies: 110

Run revdep_details(, "envi") for more info

In both

• checking whether package ‘envi’ can be installed ... WARNING Found the following significant warnings: Warning: no DISPLAY variable so Tk is not available See ‘/wynton/home/cbi/hb/repositories/doFuture/revdep/checks/envi/new/envi.Rcheck/00install.out’ for details.

• checking package dependencies ... NOTE Package suggested but not available for checking: ‘RStoolbox’

hwep

• Version: 2.0.2
• GitHub: https://github.com/dcgerard/hwep
• Source code: https://github.com/cran/hwep
• Date/Publication: 2023-05-16 17:40:02 UTC
• Number of recursive dependencies: 110

Run revdep_details(, "hwep") for more info

In both

• checking installed package size ... NOTE installed size is 28.1Mb sub-directories of 1Mb or more: libs 27.7Mb

• checking for GNU extensions in Makefiles ... NOTE GNU make is a SystemRequirements.

ldsr

• Version: 0.0.2
• GitHub: https://github.com/ntthung/ldsr
• Source code: https://github.com/cran/ldsr
• Date/Publication: 2020-05-04 14:40:09 UTC
• Number of recursive dependencies: 80

Run revdep_details(, "ldsr") for more info

In both

• checking C++ specification ... NOTE Specified C++11: please drop specification unless essential

multilevelcoda

• Version: 1.2.1
• GitHub: https://github.com/florale/multilevelcoda
• Source code: https://github.com/cran/multilevelcoda
• Date/Publication: 2023-08-13 12:40:07 UTC
• Number of recursive dependencies: 155

Run revdep_details(, "multilevelcoda") for more info

In both

• checking package dependencies ... NOTE Package suggested but not available for checking: ‘cmdstanr’

nebula

• Version: 1.4.2
• GitHub: NA
• Source code: https://github.com/cran/nebula
• Date/Publication: 2023-07-05 23:20:07 UTC
• Number of recursive dependencies: 74

Run revdep_details(, "nebula") for more info

In both

• checking installed package size ... NOTE installed size is 9.5Mb sub-directories of 1Mb or more: libs 9.3Mb

oncomsm

• Version: 0.1.4
• GitHub: https://github.com/Boehringer-Ingelheim/oncomsm
• Source code: https://github.com/cran/oncomsm
• Date/Publication: 2023-04-17 07:00:02 UTC
• Number of recursive dependencies: 125

Run revdep_details(, "oncomsm") for more info

In both

• checking installed package size ... NOTE installed size is 19.9Mb sub-directories of 1Mb or more: libs 19.6Mb

• checking for GNU extensions in Makefiles ... NOTE GNU make is a SystemRequirements.

pareg

• Version: 1.6.0
• GitHub: https://github.com/cbg-ethz/pareg
• Source code: https://github.com/cran/pareg
• Date/Publication: 2023-10-24
• Number of recursive dependencies: 320

Run revdep_details(, "pareg") for more info

In both

• checking examples ... ERROR ``` Running examples in ‘pareg-Ex.R’ failed The error most likely occurred in:

  Name: as.data.frame.pareg

  Title: as.data.frame for an object of class 'pareg'.

  Aliases: as.data.frame.pareg

  ** Examples

  df_genes <- data.frame( ... xorg-renderproto conda-forge/linux-64::xorg-renderproto-0.11.1-h7f98852_1002 xorg-xextproto conda-forge/linux-64::xorg-xextproto-7.3.0-h0b41bf4_1003 xorg-xproto conda-forge/linux-64::xorg-xproto-7.0.31-h7f98852_1007 xz conda-forge/linux-64::xz-5.2.6-h166bdaf_0 zlib conda-forge/linux-64::zlib-1.2.13-hd590300_5 zstd conda-forge/linux-64::zstd-1.5.5-hfc55251_0

  Error: Error creating conda environment 'fallback' [exit code 1] Execution halted ```

• checking tests ... ``` Running ‘testthat.R’ ERROR Running the tests in ‘tests/testthat.R’ failed. Last 50 lines of output: [Errno 2] No such file or directory: '/wynton/home/cbi/hb/.cache/R/basilisk/1.14.1/0/envs/fallback/share/zoneinfo/Antarctica' [Errno 2] No such file or directory: '/wynton/home/cbi/hb/.cache/R/basilisk/1.14.1/0/envs/fallback/share/zoneinfo/America/Kentucky' [Errno 2] No such file or directory: '/wynton/home/cbi/hb/.cache/R/basilisk/1.14.1/0/envs/fallback/share/zoneinfo/America' [Errno 2] No such file or directory: '/wynton/home/cbi/hb/.cache/R/basilisk/1.14.1/0/envs/fallback/x86_64-conda-linux-gnu/include/c++/13.2.0/tr2' [Errno 2] No such file or directory: '/wynton/home/cbi/hb/.cache/R/basilisk/1.14.1/0/envs/fallback/x86_64-conda-linux-gnu/include/c++/13.2.0/pstl' [Errno 2] No such file or directory: '/wynton/home/cbi/hb/.cache/R/basilisk/1.14.1/0/envs/fallback/x86_64-conda-linux-gnu/include/c++/13.2.0/ext/pb_ds/detail/thin_heap_' ... [Errno 2] No such file or directory: '/wynton/home/cbi/hb/.cache/R/basilisk/1.14.1/0/envs/fallback/x86_64-conda-linux-gnu/sysroot/usr/include/drm' [Errno 2] No such file or directory: '/wynton/home/cbi/hb/.cache/R/basilisk/1.14.1/0/envs/fallback/x86_64-conda-linux-gnu/sysroot/usr/include/asm' [Errno 2] No such file or directory: '/wynton/home/cbi/hb/.cache/R/basilisk/1.14.1/0/envs/fallback/x86_64-conda-linux-gnu/sysroot/usr/include/asm-generic' [Errno 2] No such file or directory: '/wynton/home/cbi/hb/.cache/R/basilisk/1.14.1/0/envs/fallback/fonts'

  Error: Error creating conda environment 'fallback' [exit code 1] In addition: Warning message: In check_forbidden_install("Conda Environments") : cannot install Conda Environments during R CMD check Execution halted ```

• checking re-building of vignette outputs ... ERROR ``` Error(s) in re-building vignettes: --- re-building ‘pareg.Rmd’ using rmarkdown The magick package is required to crop "/wynton/home/cbi/hb/repositories/doFuture/revdep/checks/pareg/new/pareg.Rcheck/vign_test/pareg/vignettes/pareg_files/figure-html/unnamed-chunk-4-1.png" but not available. The magick package is required to crop "/wynton/home/cbi/hb/repositories/doFuture/revdep/checks/pareg/new/pareg.Rcheck/vign_test/pareg/vignettes/pareg_files/figure-html/unnamed-chunk-5-1.png" but not available. 2023-12-19 19:49:12.285320: I tensorflow/core/platform/cpu_feature_guard.cc:193] This TensorFlow binary is optimized with oneAPI Deep Neural Network Library (oneDNN) to use the following CPU instructions in performance-critical operations: SSE4.1 SSE4.2 AVX AVX2 AVX512F AVX512_VNNI FMA To enable them in other operations, rebuild TensorFlow with the appropriate compiler flags. Collecting package metadata (current_repodata.json): ...working... done Solving environment: ...working... failed with repodata from current_repodata.json, will retry with next repodata source. Collecting package metadata (repodata.json): ...working... done Solving environment: ...working... done ... --- re-building ‘pathway_similarities.Rmd’ using rmarkdown The magick package is required to crop "/wynton/home/cbi/hb/repositories/doFuture/revdep/checks/pareg/new/pareg.Rcheck/vign_test/pareg/vignettes/pathway_similarities_files/figure-html/unnamed-chunk-2-1.png" but not available. The magick package is required to crop "/wynton/home/cbi/hb/repositories/doFuture/revdep/checks/pareg/new/pareg.Rcheck/vign_test/pareg/vignettes/pathway_similarities_files/figure-html/unnamed-chunk-3-1.png" but not available. --- finished re-building ‘pathway_similarities.Rmd’

  SUMMARY: processing the following file failed: ‘pareg.Rmd’

  Error: Vignette re-building failed. Execution halted ```

• checking for portable file names ... NOTE ``` Found the following non-portable file paths: pareg/inst/scripts/synthetic_benchmark/resources/multi_config_workflow/config_ablation_study/config.yaml pareg/inst/scripts/synthetic_benchmark/resources/multi_config_workflow/config_ablation_study/params.csv pareg/inst/scripts/synthetic_benchmark/resources/multi_config_workflow/config_dispersion_fitting/config.yaml pareg/inst/scripts/synthetic_benchmark/resources/multi_config_workflow/config_dispersion_fitting/params.csv pareg/inst/scripts/synthetic_benchmark/resources/multi_config_workflow/config_real_datasets/config.yaml pareg/inst/scripts/synthetic_benchmark/resources/multi_config_workflow/config_real_datasets/params.csv pareg/inst/scripts/synthetic_benchmark/resources/multi_config_workflow/config_regularization_effect/config.yaml pareg/inst/scripts/synthetic_benchmark/resources/multi_config_workflow/config_regularization_effect/params.csv pareg/inst/scripts/synthetic_benchmark/resources/multi_config_workflow/config_regularization_parameter/config.yaml ... pareg/inst/scripts/synthetic_benchmark/resources/multi_config_workflow/config_response_distribution/params.csv pareg/inst/scripts/synthetic_benchmark/resources/multi_config_workflow/config_similarity_measures/config.yaml pareg/inst/scripts/synthetic_benchmark/resources/multi_config_workflow/config_similarity_measures/params.csv pareg/inst/scripts/synthetic_benchmark/resources/multi_config_workflow/workflow/scripts/compare_rocauc_vs_loss.R pareg/inst/scripts/synthetic_benchmark/resources/multi_config_workflow/config_regularization_parameter

  Tarballs are only required to store paths of up to 100 bytes and cannot store those of more than 256 bytes, with restrictions including to 100 bytes for the final component. See section ‘Package structure’ in the ‘Writing R Extensions’ manual. ```

• checking whether package ‘pareg’ can be installed ... NOTE Found the following notes/warnings: Non-staged installation was used See ‘/wynton/home/cbi/hb/repositories/doFuture/revdep/checks/pareg/new/pareg.Rcheck/00install.out’ for details.

projpred

• Version: 2.8.0
• GitHub: https://github.com/stan-dev/projpred
• Source code: https://github.com/cran/projpred
• Date/Publication: 2023-12-15 00:00:02 UTC
• Number of recursive dependencies: 158

Run revdep_details(, "projpred") for more info

In both

• checking package dependencies ... NOTE Package suggested but not available for checking: ‘cmdstanr’

rpm

• Version: 0.7-1
• GitHub: https://github.com/handcock/rpm
• Source code: https://github.com/cran/rpm
• Date/Publication: 2023-04-21 23:30:02 UTC
• Number of recursive dependencies: 66

Run revdep_details(, "rpm") for more info

In both

• checking installed package size ... NOTE installed size is 6.0Mb sub-directories of 1Mb or more: libs 5.6Mb

skpr

• Version: 1.6.1
• GitHub: https://github.com/tylermorganwall/skpr
• Source code: https://github.com/cran/skpr
• Date/Publication: 2023-12-07 16:50:02 UTC
• Number of recursive dependencies: 149

Run revdep_details(, "skpr") for more info

In both

• checking installed package size ... NOTE installed size is 20.4Mb sub-directories of 1Mb or more: libs 20.2Mb

sparrpowR

• Version: 0.2.7
• GitHub: https://github.com/machiela-lab/sparrpowR
• Source code: https://github.com/cran/sparrpowR
• Date/Publication: 2023-02-02 01:00:02 UTC
• Number of recursive dependencies: 130

Run revdep_details(, "sparrpowR") for more info

In both

• checking whether package ‘sparrpowR’ can be installed ... WARNING Found the following significant warnings: Warning: no DISPLAY variable so Tk is not available See ‘/wynton/home/cbi/hb/repositories/doFuture/revdep/checks/sparrpowR/new/sparrpowR.Rcheck/00install.out’ for details.

sphunif

• Version: 1.3.0
• GitHub: https://github.com/egarpor/sphunif
• Source code: https://github.com/cran/sphunif
• Date/Publication: 2023-12-04 19:50:02 UTC
• Number of recursive dependencies: 79

Run revdep_details(, "sphunif") for more info

In both

• checking installed package size ... NOTE installed size is 10.0Mb sub-directories of 1Mb or more: libs 9.8Mb

• checking data for non-ASCII characters ... NOTE Note: found 189 marked UTF-8 strings

sRACIPE

• Version: 1.18.0
• GitHub: https://github.com/vivekkohar/sRACIPE
• Source code: https://github.com/cran/sRACIPE
• Date/Publication: 2023-10-24
• Number of recursive dependencies: 105

Run revdep_details(, "sRACIPE") for more info

In both

• checking C++ specification ... NOTE Specified C++11: please drop specification unless essential

• checking R code for possible problems ... NOTE sracipeSimulate: no visible global function definition for ‘registerDoFuture’ sracipeSimulate: no visible global function definition for ‘plan’ sracipeSimulate: no visible global function definition for ‘%dopar%’ sracipeSimulate: no visible global function definition for ‘foreach’ sracipeSimulate: no visible binding for global variable ‘configurationTmp’ sracipeSimulate: no visible binding for global variable ‘outFileGETmp’ sracipeSimulate: no visible binding for global variable ‘outFileParamsTmp’ sracipeSimulate: no visible binding for global variable ‘outFileICTmp’ Undefined global functions or variables: %dopar% configurationTmp foreach outFileGETmp outFileICTmp outFileParamsTmp plan registerDoFuture

ssdtools

• Version: 1.0.6
• GitHub: https://github.com/bcgov/ssdtools
• Source code: https://github.com/cran/ssdtools
• Date/Publication: 2023-09-07 14:10:02 UTC
• Number of recursive dependencies: 120

Run revdep_details(, "ssdtools") for more info

In both

• checking installed package size ... NOTE installed size is 10.3Mb sub-directories of 1Mb or more: libs 10.0Mb

vmeasur

• Version: 0.1.4
• GitHub: NA
• Source code: https://github.com/cran/vmeasur
• Date/Publication: 2021-11-11 19:00:02 UTC
• Number of recursive dependencies: 119

Run revdep_details(, "vmeasur") for more info

In both

• checking whether package ‘vmeasur’ can be installed ... WARNING Found the following significant warnings: Warning: no DISPLAY variable so Tk is not available See ‘/wynton/home/cbi/hb/repositories/doFuture/revdep/checks/vmeasur/new/vmeasur.Rcheck/00install.out’ for details.

WeightedCluster

• Version: 1.6-4
• GitHub: NA
• Source code: https://github.com/cran/WeightedCluster
• Date/Publication: 2023-07-07 07:50:02 UTC
• Number of recursive dependencies: 43

Run revdep_details(, "WeightedCluster") for more info

In both

• checking re-building of vignette outputs ... WARNING ``` Error(s) in re-building vignettes: --- re-building ‘WeightedCluster.Rnw’ using knitr --- finished re-building ‘WeightedCluster.Rnw’

  --- re-building ‘WeightedClusterFR.Rnw’ using knitr Error: processing vignette 'WeightedClusterFR.Rnw' failed with diagnostics: Running 'texi2dvi' on 'WeightedClusterFR.tex' failed. LaTeX errors: ! Package babel Error: Unknown option `frenchb'. Either you misspelled it (babel) or the language definition file frenchb.ldf was not foun ... l.85 \usepackage {tikz}^^M ! ==> Fatal error occurred, no output PDF file produced! --- failed re-building ‘WeightedClusterPreview.Rnw’

  SUMMARY: processing the following files failed: ‘WeightedClusterFR.Rnw’ ‘WeightedClusterPreview.Rnw’

  Error: Vignette re-building failed. Execution halted ```

HenrikBengtsson/doFuture documentation built on Jan. 31, 2024, 9 a.m.