From 77ba5ffb25754e51105afa3632376c8bc60b14da Mon Sep 17 00:00:00 2001 From: Nan Xiao Date: Sun, 1 Sep 2024 15:56:58 -0400 Subject: [PATCH 1/2] Update news for v0.2.0 --- DESCRIPTION | 4 ++-- NEWS.md | 21 +++++++++++++++++++-- 2 files changed, 21 insertions(+), 4 deletions(-) diff --git a/DESCRIPTION b/DESCRIPTION index f265d0c..eab7d90 100644 --- a/DESCRIPTION +++ b/DESCRIPTION @@ -1,8 +1,8 @@ Package: ssw Title: Striped Smith-Waterman Algorithm for Sequence Alignment using SIMD -Version: 0.1.1 +Version: 0.2.0 Authors@R: c( - person("Nan", "Xiao", email = "me@nanx.me", role = c("aut", "cre"), + person("Nan", "Xiao", email = "me@nanx.me", role = c("aut", "cre", "cph"), comment = c(ORCID = "0000-0002-0250-5673")) ) Description: Provides an R interface for 'SSW' (Striped Smith-Waterman) diff --git a/NEWS.md b/NEWS.md index bed9fed..e70765a 100644 --- a/NEWS.md +++ b/NEWS.md @@ -1,7 +1,24 @@ +# ssw 0.2.0 + +## Improvements + +- Add helper function `install_ssw_py()` for easy installation of Python + package dependency following best practices (#9). +- Use consistent symbol name `ssw_py` for the imported Python package (#10). +- Update reticulate wrapper to work with ssw-py >= 1.0.0 (#11). +- Qualify namespaces explicitly when calling external functions (#15). + +## Documentation + +- Run code examples and vignette code chunks conditionally (#5). +- Use GitHub Actions workflows to run `R CMD check` and to build pkgdown site (#6). +- Update installation sections in `README.md` (#12). +- Rewrite function reference documentation to improve clarity (#14). + # ssw 0.1.1 -Added two arguments `match_score` and `mismatch_penalty` for scoring the matches and mismatches ([#1](https://github.com/nanxstats/ssw-r/issues/1)). +- Added two arguments `match_score` and `mismatch_penalty` for scoring the matches and mismatches ([#1](https://github.com/nanxstats/ssw-r/issues/1)). # ssw 0.1.0 -First version. Implements `align()` and `force_align()`. +- First version. Implements `align()` and `force_align()`. From 5ab40f7b892be2eb76aeada9c5008d7a2258e13b Mon Sep 17 00:00:00 2001 From: Nan Xiao Date: Sun, 1 Sep 2024 15:58:41 -0400 Subject: [PATCH 2/2] Remove unnecessary links --- NEWS.md | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/NEWS.md b/NEWS.md index e70765a..e7b4e12 100644 --- a/NEWS.md +++ b/NEWS.md @@ -17,7 +17,7 @@ # ssw 0.1.1 -- Added two arguments `match_score` and `mismatch_penalty` for scoring the matches and mismatches ([#1](https://github.com/nanxstats/ssw-r/issues/1)). +- Added two arguments `match_score` and `mismatch_penalty` for scoring the matches and mismatches (#1). # ssw 0.1.0