Last updated: 2022-11-05
Checks: 6 1
Knit directory: dgrp-starve/
This reproducible R Markdown analysis was created with workflowr (version 1.7.0). The Checks tab describes the reproducibility checks that were applied when the results were created. The Past versions tab lists the development history.
The R Markdown file has unstaged changes. To know which version of the R Markdown file created these results, you’ll want to first commit it to the Git repo. If you’re still working on the analysis, you can ignore this warning. When you’re finished, you can run 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.
The command set.seed(20221101) 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.
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Great! You are using Git for version control. Tracking code development and connecting the code version to the results is critical for reproducibility.
The results in this page were generated with repository version 1911edb. See the Past versions tab to see a history of the changes made to the R Markdown and HTML files.
Note that you need to be careful to ensure that all relevant files for the analysis have been committed to Git prior to generating the results (you can use 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: analysis/.RData
Ignored: analysis/.Rhistory
Untracked files:
Untracked: analysis/starve.Rmd
Untracked: analysis/starve.md
Untracked: data/sAll.csv
Untracked: sort.R
Unstaged changes:
Modified: analysis/_site.yml
Modified: analysis/about.Rmd
Modified: analysis/code.Rmd
Modified: code/qtl-starve.R
Modified: code/stat-methods.R
Modified: data/starveAll.csv
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.
These are the previous versions of the repository in which changes were made to the R Markdown (analysis/code.Rmd) and HTML (docs/code.html) files. If you’ve configured a remote Git repository (see ?wflow_git_remote), click on the hyperlinks in the table below to view the files as they were in that past version.
| File | Version | Author | Date | Message |
|---|---|---|---|---|
| Rmd | 1911edb | nklimko | 2022-11-04 | wflow_git_commit(all = TRUE) |
| html | 1911edb | nklimko | 2022-11-04 | wflow_git_commit(all = TRUE) |
| Rmd | 3dab5a8 | nklimko | 2022-11-01 | all files for me |
| html | 3dab5a8 | nklimko | 2022-11-01 | all files for me |
insertion of code hyperlinks to go here
SpongeBob: It is after closing, and I’d Like to Die… of anticipation
italy bold
list1 l2 *l3
link: square brackets text with parantheses hyperlink
link text #link is broken in OOD, tried to run out /session/docs
R code is triple backtick with r in brackets as header, code in center
backtick is lowercase tilda, not single apostrophe
’’‘{r} dim(iris) 2 ^ 2 1+8’’’
versus
dim(iris)[1] 150 52 ^ 2[1] 41+8[1] 9eval=FALSE in brackets to prevent code from running, display only echo=FALSE to hide code, results only
sessionInfo()R version 4.0.3 (2020-10-10)
Platform: x86_64-pc-linux-gnu (64-bit)
Running under: CentOS Linux 7 (Core)
Matrix products: default
BLAS/LAPACK: /opt/ohpc/pub/Software/openblas_0.3.10/lib/libopenblas_haswellp-r0.3.10.dev.so
locale:
[1] LC_CTYPE=en_US.UTF-8 LC_NUMERIC=C
[3] LC_TIME=en_US.UTF-8 LC_COLLATE=en_US.UTF-8
[5] LC_MONETARY=en_US.UTF-8 LC_MESSAGES=en_US.UTF-8
[7] LC_PAPER=en_US.UTF-8 LC_NAME=C
[9] LC_ADDRESS=C LC_TELEPHONE=C
[11] LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C
attached base packages:
[1] stats graphics grDevices utils datasets methods base
other attached packages:
[1] workflowr_1.7.0
loaded via a namespace (and not attached):
[1] Rcpp_1.0.8.3 bslib_0.3.1 compiler_4.0.3 pillar_1.7.0
[5] later_1.3.0 git2r_0.30.1 jquerylib_0.1.4 tools_4.0.3
[9] getPass_0.2-2 digest_0.6.29 jsonlite_1.8.0 evaluate_0.15
[13] tibble_3.1.6 lifecycle_1.0.1 pkgconfig_2.0.3 rlang_1.0.4
[17] cli_3.3.0 rstudioapi_0.13 yaml_2.3.5 xfun_0.30
[21] fastmap_1.1.0 httr_1.4.2 stringr_1.4.0 knitr_1.38
[25] sass_0.4.1 fs_1.5.2 vctrs_0.4.1 rprojroot_2.0.3
[29] glue_1.6.2 R6_2.5.1 processx_3.5.3 fansi_1.0.3
[33] rmarkdown_2.16 callr_3.7.0 magrittr_2.0.3 whisker_0.4
[37] ps_1.6.0 promises_1.2.0.1 htmltools_0.5.2 ellipsis_0.3.2
[41] httpuv_1.6.5 utf8_1.2.2 stringi_1.7.6 crayon_1.5.1