0.6.0 release

sigven · Sep 30, 2021 · edbf927 · edbf927
1 parent 7147def
commit edbf927
Show file tree

Hide file tree

Showing 16 changed files with 47 additions and 36 deletions.
diff --git a/DESCRIPTION b/DESCRIPTION
@@ -1,8 +1,8 @@
 Package: oncoPharmaDB
 Type: Package
 Title: Dataset with targeted and non-targeted anticancer drugs
-Version: 0.5.4
-Date: 2021-09-29
+Version: 0.6.0
+Date: 2021-09-30
 Authors@R: 
     c(person(given = "Sigve",
              family = "Nakken",

diff --git a/NEWS.md b/NEWS.md
@@ -1,3 +1,7 @@
+# Version 0.6.0 (September 30th 2021)
+
+* Data update: Open Targets Platform (2021.09)
+
 # Version 0.5.4 (September 29th 2021)
 
 ## Fixed

diff --git a/R/op_db_utilities.R b/R/op_db_utilities.R
@@ -690,7 +690,7 @@ get_chembl_drug_targets <- function(datestamp = pharmamine_datestamp,
 ### TARGETED ANTICANCER COMPOUNDS FROM OPEN TARGETS
 get_opentargets_cancer_drugs <-
   function(path_data_raw = NULL,
-           ot_version = "2021.06",
+           ot_version = "2021.09",
            uniprot_release = "2021_03"){
 
   phenotype_cancer_efo <- oncoPhenoMap::auxiliary_maps$umls$concept %>%

diff --git a/README.md b/README.md
@@ -23,9 +23,9 @@ Anti-cancer drugs are currently provided with the following tentative drug categ
 * Topoisomerase inhibitors
 * Tubulin inhibitors
 
-Currently (as of September 29th 2021), the following versions are used to create the mapping:
+Currently (as of September 30th 2021), the following versions are used to create the mapping:
 
- - Open Targets Platform (2021.06)
+ - Open Targets Platform (2021.09)
  - ChEMBL (v29)
  - NCI Thesaurus (21.09d)
 

diff --git a/data/oncopharma_synonyms.rda b/data/oncopharma_synonyms.rda
diff --git a/data/oncopharmadb.rda b/data/oncopharmadb.rda
diff --git a/docs/404.html b/docs/404.html
diff --git a/docs/CODE_OF_CONDUCT.html b/docs/CODE_OF_CONDUCT.html
diff --git a/docs/LICENSE-text.html b/docs/LICENSE-text.html
diff --git a/docs/authors.html b/docs/authors.html
diff --git a/docs/index.html b/docs/index.html
diff --git a/docs/news/index.html b/docs/news/index.html
diff --git a/docs/pkgdown.yml b/docs/pkgdown.yml
@@ -2,5 +2,5 @@ pandoc: 2.11.4
 pkgdown: 1.6.1
 pkgdown_sha: ~
 articles: {}
-last_built: 2021-09-29T11:04Z
+last_built: 2021-09-30T15:46Z
 
diff --git a/docs/reference/get_onco_drugs.html b/docs/reference/get_onco_drugs.html
diff --git a/docs/reference/index.html b/docs/reference/index.html
diff --git a/renv.lock b/renv.lock
@@ -278,10 +278,10 @@
     },
     "data.table": {
       "Package": "data.table",
-      "Version": "1.14.0",
+      "Version": "1.14.2",
       "Source": "Repository",
       "Repository": "CRAN",
-      "Hash": "d1b8b1a821ee564a3515fa6c6d5c52dc"
+      "Hash": "36b67b5adf57b292923f5659f5f0c853"
     },
     "dbplyr": {
       "Package": "dbplyr",
@@ -306,10 +306,10 @@
     },
     "digest": {
       "Package": "digest",
-      "Version": "0.6.27",
+      "Version": "0.6.28",
       "Source": "Repository",
       "Repository": "CRAN",
-      "Hash": "a0cbe758a531d054b537d16dff4d58a1"
+      "Hash": "49b5c6e230bfec487b8917d5a0c77cca"
     },
     "downlit": {
       "Package": "downlit",
@@ -509,10 +509,10 @@
     },
     "hms": {
       "Package": "hms",
-      "Version": "1.1.0",
+      "Version": "1.1.1",
       "Source": "Repository",
       "Repository": "CRAN",
-      "Hash": "e4bf161ccb74a2c1c0e8ac63bbe332b4"
+      "Hash": "5b8a2dd0fdbe2ab4f6081e6c7be6dfca"
     },
     "htmlTable": {
       "Package": "htmlTable",
@@ -607,10 +607,10 @@
     },
     "knitr": {
       "Package": "knitr",
-      "Version": "1.34",
+      "Version": "1.36",
       "Source": "Repository",
       "Repository": "CRAN",
-      "Hash": "aa958054ac6f0360926bb952ea302f0f"
+      "Hash": "46344b93f8854714cdf476433a59ed10"
     },
     "labeling": {
       "Package": "labeling",
@@ -635,10 +635,10 @@
     },
     "lifecycle": {
       "Package": "lifecycle",
-      "Version": "1.0.0",
+      "Version": "1.0.1",
       "Source": "Repository",
       "Repository": "CRAN",
-      "Hash": "3471fb65971f1a7b2d4ae7848cf2db8d"
+      "Hash": "a6b6d352e3ed897373ab19d8395c98d0"
     },
     "lubridate": {
       "Package": "lubridate",
@@ -670,10 +670,10 @@
     },
     "mime": {
       "Package": "mime",
-      "Version": "0.11",
+      "Version": "0.12",
       "Source": "Repository",
       "Repository": "CRAN",
-      "Hash": "8974a907200fc9948d636fe7d85ca9fb"
+      "Hash": "18e9c28c1d3ca1560ce30658b22ce104"
     },
     "modelr": {
       "Package": "modelr",
@@ -738,10 +738,10 @@
     },
     "pillar": {
       "Package": "pillar",
-      "Version": "1.6.2",
+      "Version": "1.6.3",
       "Source": "Repository",
       "Repository": "CRAN",
-      "Hash": "43f228eb4b49093d1c8a5c93cae9efe9"
+      "Hash": "3323bc1a0988d63b5c65771ba0d3935d"
     },
     "pkgconfig": {
       "Package": "pkgconfig",
@@ -829,10 +829,10 @@
     },
     "readr": {
       "Package": "readr",
-      "Version": "2.0.1",
+      "Version": "2.0.2",
       "Source": "Repository",
       "Repository": "CRAN",
-      "Hash": "34807ea4fb5900386ddef904eef8bdb8"
+      "Hash": "7cb2c3ecfbc2c6786221d2c0c1f6ed68"
     },
     "readxl": {
       "Package": "readxl",
@@ -1016,10 +1016,10 @@
     },
     "tidyr": {
       "Package": "tidyr",
-      "Version": "1.1.3",
+      "Version": "1.1.4",
       "Source": "Repository",
       "Repository": "CRAN",
-      "Hash": "450d7dfaedde58e28586b854eeece4fa"
+      "Hash": "c8fbdbd9fcac223d6c6fe8e406f368e1"
     },
     "tidyselect": {
       "Package": "tidyselect",
@@ -1044,10 +1044,10 @@
     },
     "tinytex": {
       "Package": "tinytex",
-      "Version": "0.33",
+      "Version": "0.34",
       "Source": "Repository",
       "Repository": "CRAN",
-      "Hash": "6e0ad90ac5669e35d5456cb61b295acb"
+      "Hash": "043daa786f4d254f0031534150e28d42"
     },
     "tokenizers": {
       "Package": "tokenizers",