Merge branch 'hotfix/v1.4.8'

DESCRIPTION

@@ -1,7 +1,7 @@
 Package: scigenex
 Type: Package
 Title: The scigenex package (Single-Cell Informative GENe Explorer)
-Version: 1.4.7
+Version: 1.4.8
 Date: 2020-07-22
 Author: J. Bavais, Sebastien Nin, Lionel Spinelli and Denis Puthier
 Maintainer: J. Bavais <[email protected]>

Makefile

@@ -1,5 +1,5 @@
 MAKEFILE=Makefile
-VERSION=1.4.7
+VERSION=1.4.8
 
 .PHONY: help
 
@@ -11,7 +11,7 @@ VERSION=1.4.7
 help:
 	@echo ""
 	@echo "- Available targets:"
-	@echo "- Info: make check VERSION=1.4.2 "
+	@echo "- Info: make check VERSION=1.4.8 "
 	@perl -ne 'if(	/^(\w+):/){print "\t",$$1,"\n"}' $(MAKEFILE)
 	@echo ""
 	@echo ""

README.md

@@ -1,6 +1,8 @@
 <!-- README.md is generated from README.Rmd using devtools::build_readme(). Please edit that file -->
 
-<img src="https://github.com/dputhier/scigenex/blob/main/inst/sticker/scigenex_logo.png?raw=true" width="200" align="right"/>
+<img src="https://github.com/dputhier/scigenex/raw/master/inst/sticker/scigenex_logo.png" width="150" height="150" align="right"/>
+
+    ## ✔ Setting active project to '/Users/puthier/Documents/git/project_dev/scigenex'
 
 [![](https://img.shields.io/badge/lifecycle-stable-green.svg)](https://lifecycle.r-lib.org/articles/stages.html#stable)
 [![Project Status: Active - The project has reached a stable, usable
@@ -12,7 +14,7 @@ MIT](https://img.shields.io/badge/license-MIT-blue.svg)](https://cran.r-project.
 
 # SciGeneX repository
 
-## :arrow_double_down: Installation
+## :arrow\_double\_down: Installation
 
 ### System requirements
 
@@ -49,7 +51,7 @@ You may skip this step as the latest versions of SciGeneX will call
 `scigenex::install_mcl()`to install MCL in `~/.scigenex` directory if
 this program is not found in the PATH.
 
-#### Installation of MCL using install_mcl()
+#### Installation of MCL using install\_mcl()
 
 The `install_mcl()` has been developed to ease MCL installation. This
 function should be call automatically from within R when calling the
@@ -81,15 +83,15 @@ should be available in your PATH from within R.
 ## Example
 
 The scigenex library contains several datasets including the
-pbmc3k_medium which is a subset from pbmc3k 10X dataset.
+pbmc3k\_medium which is a subset from pbmc3k 10X dataset.
 
     library(Seurat)
     library(scigenex)
     set_verbosity(1)
-
+    
     # Load a dataset
     load_example_dataset("7871581/files/pbmc3k_medium")
-
+    
     # Select informative genes
     res <- select_genes(pbmc3k_medium,
                          distance = "pearson",

changelog.md

@@ -1,6 +1,10 @@
 
 # Changelog
 
+## v1.4.8
+
+* Fix an issue with temp dir.
+
 ## v1.4.7
 
 * Change k_g argument to 's' in `gene_clustering()` function for clarity purpose.

docs/articles/usage.html

@@ -33,7 +33,7 @@
       </button>
       <span class="navbar-brand">
         <a class="navbar-link" href="../index.html">scigenex</a>
-        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="">1.4.7</span>
+        <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="">1.4.8</span>
       </span>
     </div>
 
@@ -193,7 +193,7 @@ <h3 id="extracting-gene-modules-using-scigenex">Extracting gene modules using Sc
 <span><span class="co">##               *  seed  =  123 </span></span>
 <span><span class="co">##               *  keep_nn  =  FALSE </span></span>
 <span><span class="co">##               *  k_mcl_graph  =  5 </span></span>
-<span><span class="co">##               *  output_path  =  /var/folders/zy/wl3dj2_n76zfc8sdvny1q06c0000gn/T//Rtmp6UgYV7 </span></span>
+<span><span class="co">##               *  output_path  =  /var/folders/zy/wl3dj2_n76zfc8sdvny1q06c0000gn/T//RtmpDSTiJs </span></span>
 <span><span class="co">##               *  name  =  s8gZ5uYQ33 </span></span>
 <span><span class="co">##               *  inflation  =  2</span></span></code></pre>
 <p>There are various methods associated with the <code>ClusterSet</code> objects.</p>
@@ -567,7 +567,7 @@ <h3 id="session-info">Session info<a class="anchor" aria-label="anchor" href="#s
 <span><span class="co">## </span></span>
 <span><span class="co">## other attached packages:</span></span>
 <span><span class="co">##  [1] tidyr_1.3.0                dplyr_1.1.3               </span></span>
-<span><span class="co">##  [3] scigenex_1.4.7             stxKidney.SeuratData_0.1.0</span></span>
+<span><span class="co">##  [3] scigenex_1.4.8             stxKidney.SeuratData_0.1.0</span></span>
 <span><span class="co">##  [5] stxBrain.SeuratData_0.1.1  pbmc3k.SeuratData_3.1.4   </span></span>
 <span><span class="co">##  [7] SeuratData_0.2.2           SeuratObject_4.1.3        </span></span>
 <span><span class="co">##  [9] Seurat_4.3.0               patchwork_1.1.2           </span></span>