update name

stemangiola · stemangiola · commit 7fa5854c9220 · 2023-01-24T19:03:52.000+11:00
diff --git a/.gitignore b/.gitignore
@@ -5,7 +5,7 @@
 human_cell_atlas.Rproj
 local_file.rds
 slurm.status.*
-CuratedAtlasQuery.Rproj
+CuratedAtlasQueryR.Rproj
 split_files.makeflow
 ._*
 .DS_Store
diff --git a/DESCRIPTION b/DESCRIPTION
@@ -1,5 +1,5 @@
 Type: Package
-Package: CuratedAtlasQuery
+Package: CuratedAtlasQueryR
 Title: Queries the Human Cell Atlas
 Version: 0.1.0
 Authors@R: c(person("Stefano", "Mangiola", email = "mangiolastefano@gmail.com",
@@ -66,6 +66,6 @@ biocViews:
 Encoding: UTF-8
 RoxygenNote: 7.2.3
 LazyDataCompression: xz
-URL: https://github.com/stemangiola/CuratedAtlasQuery
-BugReports: https://github.com/stemangiola/CuratedAtlasQuery/issues
+URL: https://github.com/stemangiola/CuratedAtlasQueryR
+BugReports: https://github.com/stemangiola/CuratedAtlasQueryR/issues
 VignetteBuilder: knitr
diff --git a/NEWS.md b/NEWS.md
@@ -1,3 +1,3 @@
-# CuratedAtlasQuery 0.1.0
+# CuratedAtlasQueryR 0.1.0
 
 * Added a `NEWS.md` file to track changes to the package.
diff --git a/dev/.gitignore b/dev/.gitignore
@@ -7,3 +7,4 @@ ERROR-1.output
 core.26183
 curated_annotation.rds
 metadata.sqlite
+latex_equations.html
diff --git a/readme.md b/readme.md
@@ -4,7 +4,7 @@ HCA Harmonised
 Load the package
 
 ``` r
-library(CuratedAtlasQuery)
+library(CuratedAtlasQueryR)
 library(dplyr)
 ```
 
@@ -191,7 +191,7 @@ sessionInfo()
 #> [1] stats     graphics  grDevices utils     datasets  methods   base     
 #> 
 #> other attached packages:
-#> [1] stringr_1.5.0   dplyr_1.0.10    CuratedAtlasQuery_0.1.0  testthat_3.1.6  RPostgres_1.4.4
+#> [1] stringr_1.5.0   dplyr_1.0.10    CuratedAtlasQueryR_0.1.0  testthat_3.1.6  RPostgres_1.4.4
 #> 
 #> loaded via a namespace (and not attached):
 #>   [1] plyr_1.8.8                  igraph_1.3.5                lazyeval_0.2.2              sp_1.5-1                    splines_4.2.1               listenv_0.9.0              
diff --git a/tests/testthat.R b/tests/testthat.R
@@ -1,4 +1,4 @@
 library(testthat)
-library(CuratedAtlasQuery)
+library(CuratedAtlasQueryR)
 
-test_check("CuratedAtlasQuery")
+test_check("CuratedAtlasQueryR")
diff --git a/tests/testthat/test-query.R b/tests/testthat/test-query.R
@@ -1,4 +1,4 @@
-library(CuratedAtlasQuery)
+library(CuratedAtlasQueryR)
 
 test_that("get_SingleCellExperiment() correctly handles duplicate cell IDs", {
     meta <- get_metadata() |>
diff --git a/vignettes/readme.Rmd b/vignettes/readme.Rmd
@@ -20,7 +20,7 @@ knitr::opts_chunk$set(
 Load the package
 
 ```{r, message=FALSE, warning=FALSE}
-library(CuratedAtlasQuery)
+library(CuratedAtlasQueryR)
 library(dplyr)
 ```
 

Original file line number	Diff line number	Diff line change
`@@ -1,3 +1,3 @@`
`1`		`-# CuratedAtlasQuery 0.1.0`
	`1`	`+# CuratedAtlasQueryR 0.1.0`
`2`	`2`
`3`	`3`	* Added a `NEWS.md` file to track changes to the package.
Original file line number	Diff line number	Diff line change
`@@ -1,4 +1,4 @@`
`1`		`-library(CuratedAtlasQuery)`
	`1`	`+library(CuratedAtlasQueryR)`
`2`	`2`
`3`	`3`	`test_that("get_SingleCellExperiment() correctly handles duplicate cell IDs", {`
`4`	`4`	`meta <- get_metadata() \|>`