diff --git a/.DS_Store b/.DS_Store index 64e4768..ee60853 100644 Binary files a/.DS_Store and b/.DS_Store differ diff --git a/.github/workflows/bioc-check.yaml b/.github/workflows/bioc-check.yaml index b6e7d7c..163fbf1 100644 --- a/.github/workflows/bioc-check.yaml +++ b/.github/workflows/bioc-check.yaml @@ -27,16 +27,14 @@ jobs: install.packages("BiocManager") BiocManager::install("BiocCheck") shell: Rscript {0} - - name: Run BiocCheck + - name: Run BiocCheck & BiocCheckGitClone run: | bc_res <- BiocCheck::BiocCheck() - print(paste0("Errors: ", length(bc_res$error))) - print(paste0("Warnings: ", length(bc_res$warning))) - print(paste0("Notes: ", length(bc_res$note))) - n_errors <- length(bc_res$error) - Sys.setenv("BC_ERRORS" = n_errors) + bc_gc_res <- BiocCheck::BiocCheckGitClone() + n_errors <- length(bc_res$error) + length(bc_gc_res$error) + Sys.setenv("BC_ERRORS_TOTAL" = n_errors) shell: Rscript {0} - name: Check BiocCheck results run: | - if [[ $BC_ERRORS -gt 0 ]]; then exit 1; else echo "BiocCheck passed!"; fi + if [[ $BC_ERRORS_TOTAL -gt 0 ]]; then exit 1; else echo "BiocCheck passed!"; fi shell: bash diff --git a/.gitignore b/.gitignore index 48fd75c..9e95317 100644 --- a/.gitignore +++ b/.gitignore @@ -7,3 +7,7 @@ inst/doc codecov.yml /doc/ /Meta/ +R/.DS_Store +.Rproj +src/*.o +src/*.so diff --git a/inst/CITATION b/inst/CITATION index 5d4b98c..68919f7 100644 --- a/inst/CITATION +++ b/inst/CITATION @@ -5,7 +5,7 @@ citEntry( title = "Single Cell Linear Adaptive Expression Testing (scLANE)", journal = "Zenodo", author = c(person(given = c("Jack", "R."), family = "Leary"), - person(given = "Rhonda", family = "Bacher")) + person(given = "Rhonda", family = "Bacher")), year = "2023", note = "R package version 0.7.7", url = "https://doi.org/10.5281/zenodo.10182497",