Last updated: 2018-07-17
workflowr checks: (Click a bullet for more information)wflow_publish
to commit the R Markdown file and build the HTML.
Great job! The global environment was empty. Objects defined in the global environment can affect the analysis in your R Markdown file in unknown ways. For reproduciblity it’s best to always run the code in an empty environment.
set.seed(20180716)
The command set.seed(20180716)
was run prior to running the code in the R Markdown file. Setting a seed ensures that any results that rely on randomness, e.g. subsampling or permutations, are reproducible.
Great job! Recording the operating system, R version, and package versions is critical for reproducibility.
wflow_publish
or wflow_git_commit
). workflowr only checks the R Markdown file, but you know if there are other scripts or data files that it depends on. Below is the status of the Git repository when the results were generated:
Ignored files:
Ignored: .DS_Store
Ignored: .Rproj.user/
Ignored: analysis/.DS_Store
Ignored: code/.DS_Store
Ignored: data/.DS_Store
Ignored: docs/.DS_Store
Ignored: figures/
Untracked files:
Untracked: .drake/
Untracked: analysis/model_functions.Rmd
Untracked: analysis/plot_model.Rmd
Untracked: analysis/run_model.Rmd
Untracked: data/mating_type_tables/
Untracked: data/sim_results/
Untracked: manuscript/
Untracked: output/my_manuscript.pdf
Untracked: output/supplementary_material.pdf
Untracked: run.R
Untracked: sex_shredder.Rproj
Untracked: sim_results/
Unstaged changes:
Modified: analysis/_site.yml
Modified: analysis/index.Rmd
Deleted: myproject.Rproj
Note that any generated files, e.g. HTML, png, CSS, etc., are not included in this status report because it is ok for generated content to have uncommitted changes.
Attaching package: 'dplyr'
The following objects are masked from 'package:stats':
filter, lag
The following objects are masked from 'package:base':
intersect, setdiff, setequal, union
Attaching package: 'reshape2'
The following object is masked from 'package:tidyr':
smiths
sessionInfo()
R version 3.5.1 (2018-07-02)
Platform: x86_64-apple-darwin15.6.0 (64-bit)
Running under: macOS High Sierra 10.13.4
Matrix products: default
BLAS: /Library/Frameworks/R.framework/Versions/3.5/Resources/lib/libRblas.0.dylib
LAPACK: /Library/Frameworks/R.framework/Versions/3.5/Resources/lib/libRlapack.dylib
locale:
[1] en_US.UTF-8/en_US.UTF-8/en_US.UTF-8/C/en_US.UTF-8/en_US.UTF-8
attached base packages:
[1] parallel stats graphics grDevices utils datasets methods
[8] base
other attached packages:
[1] reshape2_1.4.3 stringr_1.3.1 tidyr_0.8.1 purrr_0.2.5
[5] dplyr_0.7.6
loaded via a namespace (and not attached):
[1] Rcpp_0.12.17 rstudioapi_0.7 knitr_1.20
[4] bindr_0.1.1 whisker_0.3-2 magrittr_1.5
[7] workflowr_1.1.1 tidyselect_0.2.4 R6_2.2.2
[10] rlang_0.2.1 plyr_1.8.4 tools_3.5.1
[13] R.oo_1.22.0 git2r_0.22.1 htmltools_0.3.6
[16] yaml_2.1.19 rprojroot_1.3-2 digest_0.6.15
[19] assertthat_0.2.0 tibble_1.4.2 crayon_1.3.4
[22] bindrcpp_0.2.2 R.utils_2.6.0 glue_1.2.0
[25] evaluate_0.10.1 rmarkdown_1.10 stringi_1.2.3
[28] pillar_1.3.0 compiler_3.5.1 backports_1.1.2
[31] R.methodsS3_1.7.1 pkgconfig_2.0.1
This reproducible R Markdown analysis was created with workflowr 1.1.1