Fix readme \n. Remove token from rworkflows.yml

neurogenomics · Sep 1, 2023 · e5f7a40 · e5f7a40
1 parent cd89cf7
commit e5f7a40
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Showing 3 changed files with 70 additions and 5 deletions.
diff --git a/.github/workflows/rworkflows.yml b/.github/workflows/rworkflows.yml
@@ -12,6 +12,8 @@ name: rworkflows
     - RELEASE_**
 jobs:
   rworkflows:
+    permissions:
+      content: write
     runs-on: ${{ matrix.config.os }}
     name: ${{ matrix.config.os }} (${{ matrix.config.r }})
     container: ${{ matrix.config.cont }}
@@ -40,8 +42,7 @@ jobs:
         has_testthat: ${{ true }}
         run_covr: ${{ true }}
         run_pkgdown: ${{ true }}
-        has_runit: ${{ false }}
-        GITHUB_TOKEN: ${{ secrets.PAT_GITHUB }}
+        has_runit: ${{ false }} 
         run_docker: ${{ true }}
         docker_user: bschilder
         docker_org: neurogenomicslab

diff --git a/README.Rmd b/README.Rmd
@@ -60,9 +60,9 @@ The [GitHub Actions](https://docs.github.com/en/actions/learn-github-actions/und
 
 *\<---(End of section that can be deleted after forking the template)---\>* 
 
-## ``r pkg``: `r title`
+## ``r pkg``: `r gsub("\n","",title)`
 
-### `r description`
+### `r gsub("\n","",description)`
 
 If you use ``r pkg``, please cite: 
 
@@ -96,3 +96,12 @@ Imperial College London
 [DockerHub](https://hub.docker.com/orgs/neurogenomicslab)  
 
 <br>
+
+## Session Info
+
+<details>
+```{r}
+utils::sessionInfo()
+```
+</details>
+
diff --git a/README.md b/README.md
@@ -15,7 +15,7 @@ status](https://github.com/neurogenomics/templateR/workflows/rworkflows/badge.sv
 Authors: <i>yourGivenName yourFamilyName</i>  
 </h4>
 <h4>  
-README updated: <i>Jul-15-2023</i>  
+README updated: <i>Sep-01-2023</i>  
 </h4>
 
 <!-- To modify Package/Title/Description/Authors fields, edit the DESCRIPTION file -->
@@ -142,3 +142,58 @@ Imperial College London
 [DockerHub](https://hub.docker.com/orgs/neurogenomicslab)
 
 <br>
+
+## Session Info
+
+<details>
+
+``` r
+utils::sessionInfo()
+```
+
+    ## R version 4.2.1 (2022-06-23)
+    ## Platform: x86_64-apple-darwin17.0 (64-bit)
+    ## Running under: macOS Big Sur ... 10.16
+    ## 
+    ## Matrix products: default
+    ## BLAS:   /Library/Frameworks/R.framework/Versions/4.2/Resources/lib/libRblas.0.dylib
+    ## LAPACK: /Library/Frameworks/R.framework/Versions/4.2/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] stats     graphics  grDevices utils     datasets  methods   base     
+    ## 
+    ## loaded via a namespace (and not attached):
+    ##  [1] here_1.0.1          rprojroot_2.0.3     digest_0.6.31      
+    ##  [4] utf8_1.2.3          BiocFileCache_2.6.1 R6_2.5.1           
+    ##  [7] stats4_4.2.1        RSQLite_2.3.1       evaluate_0.21      
+    ## [10] httr_1.4.6          ggplot2_3.4.2       pillar_1.9.0       
+    ## [13] yulab.utils_0.0.6   rworkflows_0.99.13  biocViews_1.66.3   
+    ## [16] rlang_1.1.1         curl_5.0.0          data.table_1.14.8  
+    ## [19] rstudioapi_0.14     whisker_0.4.1       blob_1.2.4         
+    ## [22] DT_0.28             RUnit_0.4.32        rmarkdown_2.22     
+    ## [25] desc_1.4.2          readr_2.1.4         stringr_1.5.0      
+    ## [28] htmlwidgets_1.6.2   dlstats_0.1.7       BiocPkgTools_1.16.1
+    ## [31] igraph_1.5.0.1      RCurl_1.98-1.12     bit_4.0.5          
+    ## [34] munsell_0.5.0       compiler_4.2.1      xfun_0.39          
+    ## [37] pkgconfig_2.0.3     BiocGenerics_0.44.0 rorcid_0.7.0       
+    ## [40] htmltools_0.5.5     tidyselect_1.2.0    tibble_3.2.1       
+    ## [43] httpcode_0.3.0      XML_3.99-0.14       fansi_1.0.4        
+    ## [46] dplyr_1.1.2         tzdb_0.4.0          dbplyr_2.3.2       
+    ## [49] bitops_1.0-7        rappdirs_0.3.3      crul_1.4.0         
+    ## [52] grid_4.2.1          RBGL_1.74.0         jsonlite_1.8.4     
+    ## [55] gtable_0.3.3        lifecycle_1.0.3     DBI_1.1.3          
+    ## [58] magrittr_2.0.3      scales_1.2.1        graph_1.76.0       
+    ## [61] cli_3.6.1           stringi_1.7.12      cachem_1.0.8       
+    ## [64] renv_0.17.3         fauxpas_0.5.2       xml2_1.3.4         
+    ## [67] rvcheck_0.2.1       filelock_1.0.2      generics_0.1.3     
+    ## [70] vctrs_0.6.2         gh_1.4.0            RColorBrewer_1.1-3 
+    ## [73] tools_4.2.1         bit64_4.0.5         Biobase_2.58.0     
+    ## [76] glue_1.6.2          hms_1.1.3           fastmap_1.1.1      
+    ## [79] yaml_2.3.7          colorspace_2.1-0    BiocManager_1.30.20
+    ## [82] rvest_1.0.3         memoise_2.0.1       badger_0.2.3       
+    ## [85] knitr_1.43
+
+</details>