version 1.0.5

.circleci/config.yml

@@ -2,7 +2,7 @@ version: 2
 jobs:
   build:
     docker:
-      - image: rocker/verse:4.0.3
+      - image: rocker/verse:4.3
     environment:
             _R_CHECK_FORCE_SUGGESTS_: false
     steps:

CHANGELOG.md

@@ -1,5 +1,10 @@
 # Changelog
 
+## [1.0.5] - Feb 22 2024
+
+- Remove `/usr/lib` linking in Makevars files
+- Also remove `-L"." -lpthread -lstdc++ -lm`. Not necessary.
+
 ## [1.0.4] - July 11 2023
 
 - Added `scale.center` argument to `dotPlot()` to plot more intuitive and correct avg. expression levels. 

DESCRIPTION

@@ -1,6 +1,6 @@
 Package: sccore
 Title: Core Utilities for Single-Cell RNA-Seq
-Version: 1.0.4
+Version: 1.0.5
 Authors@R: c(person("Viktor","Petukhov", email="[email protected]", role="aut"), person("Rasmus","Rydbirk", email="[email protected]", role="aut"), person("Peter", "Kharchenko", email = "[email protected]", role = "aut"), person("Evan","Biederstedt", email="[email protected]", role=c("aut", "cre")))
 Description: Core utilities for single-cell RNA-seq data analysis. Contained within are utility functions for working with differential expression (DE) matrices and count matrices, a collection of functions for manipulating and plotting data via 'ggplot2', and functions to work with cell graphs and cell embeddings. Graph-based methods include embedding kNN cell graphs into a UMAP <doi:10.21105/joss.00861>, collapsing vertices of each cluster in the graph, and propagating graph labels.
 License: GPL-3 

README.md

@@ -28,5 +28,5 @@ If you find `sccore` useful for your publication, please cite:
 ```
 Viktor Petukhov, Rasmus Rydbirk, Peter Kharchenko and Evan Biederstedt
 (2021). sccore: Core Utilities for Single-Cell RNA-Seq. R package
-version 1.0.4. https://github.com/kharchenkolab/sccore
+version 1.0.5. https://github.com/kharchenkolab/sccore
 ```

src/Makevars

@@ -1,2 +1,2 @@
 PKG_CXXFLAGS=-I"../inst/include"
-PKG_LIBS=-L/usr/lib/ -L"." -lpthread -lstdc++ -lm `$(R_HOME)/bin/Rscript -e "Rcpp:::LdFlags()"` $(LAPACK_LIBS) $(BLAS_LIBS) $(FLIBS)
+PKG_LIBS=-lpthread `$(R_HOME)/bin/Rscript -e "Rcpp:::LdFlags()"` $(LAPACK_LIBS) $(BLAS_LIBS) $(FLIBS)

src/Makevars.win

@@ -1,2 +1,2 @@
 PKG_CXXFLAGS=-I"../inst/include"
-PKG_LIBS=-L/usr/lib/ -L"." -lpthread -lstdc++ -lm $(shell "${R_HOME}/bin${R_ARCH_BIN}/Rscript.exe" -e "Rcpp:::LdFlags()") $(LAPACK_LIBS) $(BLAS_LIBS) $(FLIBS)
+PKG_LIBS=-lpthread $(shell "${R_HOME}/bin${R_ARCH_BIN}/Rscript.exe" -e "Rcpp:::LdFlags()") $(LAPACK_LIBS) $(BLAS_LIBS) $(FLIBS)