CHANGES IN VERSION 1.29
-----------------------
NEW FEATURES
o (1.29.10) Check for `Sys.setenv` and `suppressWarnings`/`suppressMessages`
o (1.29.8) Check for `sessionInfo` / `session_info` in vignette code.
o (1.29.5) Check for installation calls in vignette code.
o (1.29.1) Check for `install()` function calls in R code.
BUG FIXES
o (1.29.14) Various internal improvements to the codebase.
o (1.29.12) Checks on class membership code now include `is() ==` grammar.
o (1.29.6) Use appropriate input (`pkgdir`) to internal checking functions.
o (1.29.3) Add unit tests for legacy function searches.
o (1.29.2) rename internal function from checkIsPackageAlreadyInRepo to
checkIsPackageNameAlreadyInUse
CHANGES IN VERSION 1.27
-----------------------
BUG FIX
o (1.27.17) Update support site watched tags. tags are case insensitive
o (1.27.15) Reporting checking of vignette despite package type
(@lshep, #136)
o (1.27.9) Allow portability of child Rmd documents via parseFile
o (1.27.3) Correct check for if package already exists in CRAN/Bioc
o (1.27.3) Correct check for single colon use
o (1.27.2) Correct path to R license database file by calling
R.home('share').
NEW FEATURES
o (1.27.16) Check vignettes for all package types (@lshep, #136)
o (1.27.12) Check for `LazyData: TRUE` in the DESCRIPTION (@lshep, #128)
o (1.27.11) R version dependency check in the 'DESCRIPTION' is now a
'NOTE' (@lshep, #126)
o (1.27.10) Check for 'error' and other keywords in signaler functions,
'message', 'warning', and 'stop' etc. (@hpages, #125)
o (1.27.8) Check for 'tests' entry in '.Rbuildignore'
o (1.27.7) Removed BiocCheck and BiocCheckGitClone installation scripts;
recommended usage is `BiocCheck()`
o (1.27.6) Check that a user has the package name in watched tags of
support site
o (1.27.5) Check for 'paste' / 'paste0' in signaler functions, 'message',
'warning', and 'stop' (@LiNk-NY, #64)
o (1.27.4) Check for downloads from external resources (github, gitlab,
bitbucket, dropbox; @LiNk-NY, #75)
o (1.27.1) Check that licenses do not exclude classes of users,
e.g., non-academic users.
CHANGES IN VERSION 1.25
-----------------------
DEPRECATION ANNOUNCEMENT
o (1.25.11) R CMD BiocCheck and R CMD BiocCheckGitClone are deprecated. The
recommended way to run the functions is within R.
NEW FEATURES
o (1.25.1) Check for warning/notes on too-brief a Description: field
(@federicomarini, #65)
o (1.25.4) Check for single colon typos when using qualified imports
pkg::foo()
o (1.25.8) Validate ORCID IDs (if any) in the DESCRIPTION file
(@LiNk-NY, #97)
o (1.25.10) Add check for properly formatted CITATION file
o (1.25.12) Add NOTE to change dontrun to donttest
BUG FIXES
o (1.25.14) The ORCID ID check now accepts IDs with a X at the end.
o (1.25.9) All packages including infrastructure require a vignette
o Usage of donttest and dontrun in manual pages tagged with the keyword
'internal' will no longer trigger a NOTE (@grimbough, #59)
o (1.25.7) Adding the sessionInfo at the end of the vignette (@llrs)
USER SIGNIFICANT CHANGES
o (1.25.3) Require Aurhors@R format over Author/Maintainer fields in the
DESCRIPTION file. This has been upgraded to an ERROR.
o (1.25.2) Suggest styler over formatR for automatic code re-formatting
(@lcolladotor, #57).
o (1.25.5) Add warning to new package versions with non-zero x version
(@mtmorgan, #101)
CHANGES IN VERSION 1.23
-----------------------
BUG FIX
o (1.23.4) Update locations for NEWS
o (1.23.1) Fix False Positive class == check
CHANGES IN VERSION 1.19
-----------------------
NEW FEATURES
o (1.19.33) Add Authors@R vs Author/Maintainer check
o (1.19.29) Add non evaluated code chunks that have not been executed
because of invalid syntax (```, ```R, ```r). Valid syntax for an evaluated
code chunk takes the form ```{r} or ```{R}.
o (1.19.28) Check that vignette metadata set correctly
o (1.19.27) Check for Author@R or Author/Maintainer but not both
o (1.19.25) Check for use of remotes: in Description
o (1.19.18) Check for use of dontrun/donttest
o (1.19.15) Check vignetteEngine/vignetteBuilder minimially declared in
Suggests
o (1.19.9) Check usage of donttest and dontrun in man page documentation
o (1.19.9) Update deprecated check to check for Bioconductor release and
devel deprecated packages as specified in biocViews
o (1.19.7) More helpful ERROR when using a non valid command line option.
o (1.19.4) All checks module. Ability to turn on/off with flag options. See
'R CMD BiocCheck --help'
o (1.19.1) New Check options to turn off if in CRAN (--no-check-CRAN) and
Bioconductor mailing list and support site (--no-check-bioc-help)
USER SIGNIFICANT CHANGES
o (1.19.8) Updated Documentation in vignette for flag/option controls and
reorganization of code/checks. Grouped similar checks together and changed
order of checks.
o (1.19.3) Remove Native Routine Registrations (use flag in R CMD check
instead _R_CHECK_NATIVE_ROUTINE_REGISTRATION_)
o (1.19.2) Match CRAN standards of package size <= 5MB (updated from 4MB)
BUG FIXES
o (1.19.26) Fix NEWS check to recognize NEWS.md
o (1.19.26) Check all repos for existing package not just software
o (1.19.23) Informative message if no biocViews term found
o (1.19.22) Fix output of system2 usage check
o (1.19.19) Test only closures for T/F
o (1.19.14) Fix ERROR when more than one VignetteEngine found
o (1.19.10) Add suggestion of FormatR package to formatting notes
o (1.19.10) Fix function lengths to be a NOTE and only display if functions
are greater than 50 lines long.
o (1.19.6) Replace use of devtools::create with usethis::create_package as
function was deprecated.
o (1.19.5) Fix length > 1 logical comparison in if statement
CHANGES IN VERSION 1.17
-----------------------
NEW FEATURES
o (1.17.21) Added quit-with-status option to both BiocCheck and
BiocCheckGitClone for compatibility with travis
o (1.17.18) Update devel to use BiocManager instructions instead of
BiocInstaller
o (1.17.17) Add a new function that can be run interactive or command line
BiocCheckGitClone which is only run on a source directory not a
tarball. This will check for bad system files
o (1.17.17) BiocCheck addition: Checks vignette directory for intermediate
and end files that should not be included.
o (1.17.16) Checks for Bioconductor package size requirement if checking
tarball
BUG FIXES
o (1.17.19) Updated internal functions to use BiocManger instead of
BiocInstaller
CHANGES IN VERSION 1.16
-----------------------
BUG FIXES
o handle interactive BiocCheck() arguments correctly
CHANGES IN VERSION 1.14
-----------------------
NEW FEATURES
o NOTE when maintainer subscription to bioc-devel mailing list
cannot be checked (checking requires mailing list admin
password).
BUG FIXES
o Use shell quotes to allow spaces in package paths