From 9bca7e918dbc63d40289807662f121359530c018 Mon Sep 17 00:00:00 2001
From: TomKellyGenetics <tomkellygenetics@gmail.com>
Date: Mon, 9 May 2022 15:21:09 +0900
Subject: [PATCH] release 0.4.2

---
 DESCRIPTION      | 5 +++--
 NEWS.md          | 5 ++++-
 cran-comments.md | 5 +++++
 3 files changed, 12 insertions(+), 3 deletions(-)

diff --git a/DESCRIPTION b/DESCRIPTION
index d25ceff..9fb4162 100644
--- a/DESCRIPTION
+++ b/DESCRIPTION
@@ -1,8 +1,8 @@
 Package: leiden
 Type: Package
 Title: R Implementation of Leiden Clustering Algorithm
-Version: 0.4.2.9001
-Date: 2022-05-01
+Version: 0.4.2
+Date: 2022-05-09
 Authors@R: c(person("S. Thomas", "Kelly", email = "tomkellygenetics@gmail.com", role = c("aut", "cre", "trl")),
            person("Vincent A.", "Traag", email = "v.a.traag@cwts.leidenuniv.nl", role = c("com")))
 Description: Implements the 'Python leidenalg' module to be called in R.
@@ -31,6 +31,7 @@ Suggests:
     multiplex,
     multinet,
     network,
+    qpdf,
     RColorBrewer,
     remotes,
     rmarkdown,
diff --git a/NEWS.md b/NEWS.md
index a3592ee..b9c4088 100644
--- a/NEWS.md
+++ b/NEWS.md
@@ -6,6 +6,8 @@
 
 * automatically calls native R version of leiden rather than Python to improve performance
 
+* updates vignettes and unit tests to ensure consistent results with past versions
+
 # leiden 0.4.1
 
 * migrates changes to retain on CRAN to leiden 0.4.0 (alpha)
@@ -14,6 +16,8 @@
 
 * migrate to calling community_leiden in igraph
 
+* updates the benchmarking vignette to compare performance to legacy versions using reticulate
+
 # leiden 0.3.10
 
 * removes limitation on number of cells (disables scientific notation within function call): resolves #12
@@ -29,7 +33,6 @@
 # leiden 0.3.9
 
 Updates maintainer contact details.
->>>>>>> master
 
 # leiden 0.3.8
 
diff --git a/cran-comments.md b/cran-comments.md
index 57a0695..309b78a 100644
--- a/cran-comments.md
+++ b/cran-comments.md
@@ -5,6 +5,7 @@
 * rhub (release) Ubuntu Linux 16.04 LTS, R-release, GCC
 * Fedora (devel) Linux, R-devel, clang, gfortran
 * MacOS 10.14.6 R 3.6.1 
+* Red Hat Enterprise Linux 8.5 R 4.1.2
 * MacOS 10.15.7 R 4.2.0
 
 ## R CMD check results
@@ -21,6 +22,10 @@ Breaking changes are possible with the new implementation.
 A legacy mode with setting the random seed is supported 
 to reproduce previous results.
 
+All vignettes and unit tests from the previous version run without errors
+or changes in results. Performance is significantly improved as
+demonstrated in the vignettes.
+
 ## Python integration
 
 Python is a soft dependency which is still required for some functions but is not essential for core functionality any longer. It is retained for backwards compatibility.