Merge pull request #1303 from DavisVaughan/rc/1.2.0

RC 1.2.0
tidyverse · Feb 2, 2022 · 6152aae · 6152aae
2 parents d46d22a + 7258599
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diff --git a/DESCRIPTION b/DESCRIPTION
@@ -1,6 +1,6 @@
 Package: tidyr
 Title: Tidy Messy Data
-Version: 1.1.4.9000
+Version: 1.2.0
 Authors@R: c(
     person("Hadley", "Wickham", , "[email protected]", role = c("aut", "cre")),
     person("Maximilian", "Girlich", role = "aut"),

diff --git a/NEWS.md b/NEWS.md
@@ -1,4 +1,4 @@
-# tidyr (development version)
+# tidyr 1.2.0
 
 ## Pivoting
 

diff --git a/_pkgdown.yml b/_pkgdown.yml
@@ -115,6 +115,8 @@ articles:
 
 news:
   releases:
+  - text: "Version 1.2.0"
+    href: https://www.tidyverse.org/blog/2022/02/tidyr-1-2-0/
   - text: "Version 1.1.0"
     href: https://www.tidyverse.org/blog/2020/05/tidyr-1.1.0/
   - text: "Version 1.0.0"

diff --git a/cran-comments.md b/cran-comments.md
@@ -1,50 +1,40 @@
 ## revdepcheck results
 
-We checked 1210 reverse dependencies, comparing R CMD check results across CRAN and dev versions of this package.
+We checked 1451 reverse dependencies (1441 from CRAN + 10 from Bioconductor), comparing R CMD check results across CRAN and dev versions of this package.
 
- * We saw 0 new problems
- * We failed to check 39 packages
+ * We saw 7 new problems
+ * We failed to check 3 packages
 
 Issues with CRAN packages are summarised below.
 
+### New problems
+(This reports the first line of each new failure)
+
+* covidregionaldata
+  checking tests ... ERROR
+  checking re-building of vignette outputs ... WARNING
+
+* emayili
+  checking examples ... ERROR
+  checking tests ... ERROR
+
+* simpr
+  checking S3 generic/method consistency ... WARNING
+
+* skater
+  checking re-building of vignette outputs ... WARNING
+
+* sparklyr
+  checking S3 generic/method consistency ... WARNING
+
+* SWMPrExtension
+  checking examples ... ERROR
+
+* xml2relational
+  checking examples ... ERROR
+
 ### Failed to check
 
-* airt         (NA)
-* andurinha    (NA)
-* biscale      (NA)
-* cat2cat      (NA)
-* CB2          (NA)
-* comperes     (NA)
-* coxed        (NA)
-* cpr          (NA)
-* datawizard   (NA)
-* dexterMST    (NA)
-* dimRed       (NA)
-* diseq        (NA)
-* eechidna     (NA)
-* eurostat     (NA)
-* explor       (NA)
-* fitzRoy      (NA)
-* fixerapi     (NA)
-* fmriqa       (NA)
-* ftExtra      (NA)
-* geofi        (NA)
-* metagam      (NA)
-* OncoBayes2   (NA)
-* PupilPre     (NA)
-* rabhit       (NA)
-* Radviz       (NA)
-* RavenR       (NA)
-* raw          (NA)
-* Rilostat     (NA)
-* RKorAPClient (NA)
-* rmdcev       (NA)
-* RtutoR       (NA)
-* scoper       (NA)
-* SCORPIUS     (NA)
-* SimBIID      (NA)
-* tigger       (NA)
-* tinyarray    (NA)
-* vivid        (NA)
-* wrswoR       (NA)
-* XPolaris     (NA)
+* loon.ggplot (NA)
+* PLNmodels   (NA)
+* vivid       (NA)
diff --git a/revdep/README.md b/revdep/README.md
@@ -2,35 +2,31 @@
 
 ## Failed to check (13)
 
-|package        |version |error |warning |note |
-|:--------------|:-------|:-----|:-------|:----|
-|brendaDb       |?       |      |        |     |
-|BUSpaRse       |?       |      |        |     |
-|ceRNAnetsim    |?       |      |        |     |
-|COMPASS        |?       |      |        |     |
-|ctDNAtools     |?       |      |        |     |
-|destiny        |?       |      |        |     |
-|dynfrail       |?       |      |        |     |
-|evaluator      |?       |      |        |     |
-|expstudies     |?       |      |        |     |
-|loon.ggplot    |?       |      |        |     |
-|mafs           |?       |      |        |     |
-|MarketMatching |?       |      |        |     |
-|vivid          |?       |      |        |     |
+|package     |version |error |warning |note |
+|:-----------|:-------|:-----|:-------|:----|
+|brendaDb    |?       |      |        |     |
+|BUSpaRse    |?       |      |        |     |
+|ceRNAnetsim |?       |      |        |     |
+|COMPASS     |?       |      |        |     |
+|ctDNAtools  |?       |      |        |     |
+|destiny     |?       |      |        |     |
+|dynfrail    |?       |      |        |     |
+|evaluator   |?       |      |        |     |
+|expstudies  |?       |      |        |     |
+|loon.ggplot |?       |      |        |     |
+|mafs        |?       |      |        |     |
+|PLNmodels   |0.11.5  |1     |        |     |
+|vivid       |?       |      |        |     |
 
-## New problems (11)
+## New problems (7)
 
-|package                                            |version |error  |warning |note |
-|:--------------------------------------------------|:-------|:------|:-------|:----|
-|[covidregionaldata](problems.md#covidregionaldata) |0.9.2   |__+1__ |__+1__  |1    |
-|[crosstable](problems.md#crosstable)               |0.3.2   |__+1__ |        |     |
-|[emayili](problems.md#emayili)                     |0.7.0   |__+2__ |        |     |
-|[iotables](problems.md#iotables)                   |0.4.7   |       |__+1__  |     |
-|[simpr](problems.md#simpr)                         |0.2.1   |       |__+1__  |     |
-|[skater](problems.md#skater)                       |0.1.0   |       |__+1__  |     |
-|[sparklyr](problems.md#sparklyr)                   |1.7.4   |       |__+1__  |2    |
-|[SWMPrExtension](problems.md#swmprextension)       |2.1.0   |__+1__ |        |     |
-|[tidygate](problems.md#tidygate)                   |0.4.8   |__+1__ |        |     |
-|[Tplyr](problems.md#tplyr)                         |0.4.3   |__+2__ |__+1__  |     |
-|[xml2relational](problems.md#xml2relational)       |0.1.0   |__+1__ |        |     |
+|package                                            |version |error  |warning  |note |
+|:--------------------------------------------------|:-------|:------|:--------|:----|
+|[covidregionaldata](problems.md#covidregionaldata) |0.9.2   |__+1__ |__+1__   |1    |
+|[emayili](problems.md#emayili)                     |0.7.0   |__+2__ |         |     |
+|[simpr](problems.md#simpr)                         |0.2.1   |       |__+1__   |     |
+|[skater](problems.md#skater)                       |0.1.0   |       |__+1__   |     |
+|[sparklyr](problems.md#sparklyr)                   |1.7.4   |       |1 __+1__ |1    |
+|[SWMPrExtension](problems.md#swmprextension)       |2.1.0   |__+1__ |         |     |
+|[xml2relational](problems.md#xml2relational)       |0.1.0   |__+1__ |         |     |
 
diff --git a/revdep/cran.md b/revdep/cran.md
@@ -1,8 +1,8 @@
 ## revdepcheck results
 
-We checked 1449 reverse dependencies (1439 from CRAN + 10 from Bioconductor), comparing R CMD check results across CRAN and dev versions of this package.
+We checked 1451 reverse dependencies (1441 from CRAN + 10 from Bioconductor), comparing R CMD check results across CRAN and dev versions of this package.
 
- * We saw 11 new problems
+ * We saw 7 new problems
  * We failed to check 3 packages
 
 Issues with CRAN packages are summarised below.
@@ -14,16 +14,10 @@ Issues with CRAN packages are summarised below.
   checking tests ... ERROR
   checking re-building of vignette outputs ... WARNING
 
-* crosstable
-  checking tests ... ERROR
-
 * emayili
   checking examples ... ERROR
   checking tests ... ERROR
 
-* iotables
-  checking re-building of vignette outputs ... WARNING
-
 * simpr
   checking S3 generic/method consistency ... WARNING
 
@@ -36,19 +30,11 @@ Issues with CRAN packages are summarised below.
 * SWMPrExtension
   checking examples ... ERROR
 
-* tidygate
-  checking examples ... ERROR
-
-* Tplyr
-  checking examples ... ERROR
-  checking tests ... ERROR
-  checking re-building of vignette outputs ... WARNING
-
 * xml2relational
   checking examples ... ERROR
 
 ### Failed to check
 
-* loon.ggplot    (NA)
-* MarketMatching (NA)
-* vivid          (NA)
+* loon.ggplot (NA)
+* PLNmodels   (NA)
+* vivid       (NA)
diff --git a/revdep/failures.md b/revdep/failures.md
@@ -180,7 +180,7 @@ Run `cloud_details(, "ctDNAtools")` for more info
 * Version: NA
 * GitHub: NA
 * Source code: https://github.com/cran/destiny
-* Number of recursive dependencies: 149
+* Number of recursive dependencies: 122
 
 Run `cloud_details(, "destiny")` for more info
 
@@ -215,7 +215,7 @@ Run `cloud_details(, "destiny")` for more info
 * Version: NA
 * GitHub: NA
 * Source code: https://github.com/cran/dynfrail
-* Number of recursive dependencies: 92
+* Number of recursive dependencies: 61
 
 Run `cloud_details(, "dynfrail")` for more info
 
@@ -420,69 +420,81 @@ Run `cloud_details(, "mafs")` for more info
 
 
 ```
-# MarketMatching
+# PLNmodels
 
 <details>
 
-* Version: 1.2.0
-* GitHub: NA
-* Source code: https://github.com/cran/MarketMatching
-* Date/Publication: 2021-01-08 20:10:02 UTC
-* Number of recursive dependencies: 67
+* Version: 0.11.5
+* GitHub: https://github.com/pln-team/PLNmodels
+* Source code: https://github.com/cran/PLNmodels
+* Date/Publication: 2022-01-20 22:42:49 UTC
+* Number of recursive dependencies: 173
 
-Run `cloud_details(, "MarketMatching")` for more info
+Run `cloud_details(, "PLNmodels")` for more info
 
 </details>
 
-## Error before installation
-
-### Devel
-
-```
-* using log directory ‘/tmp/workdir/MarketMatching/new/MarketMatching.Rcheck’
-* using R version 4.1.1 (2021-08-10)
-* using platform: x86_64-pc-linux-gnu (64-bit)
-* using session charset: UTF-8
-* using option ‘--no-manual’
-* checking for file ‘MarketMatching/DESCRIPTION’ ... OK
-* checking extension type ... Package
-* this is package ‘MarketMatching’ version ‘1.2.0’
-* checking package namespace information ... OK
-* checking package dependencies ... ERROR
-Packages required but not available: 'CausalImpact', 'bsts', 'Boom'
+## In both
 
-See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
-manual.
-* DONE
-Status: 1 ERROR
+*   checking whether package ‘PLNmodels’ can be installed ... ERROR
+    ```
+    Installation failed.
+    See ‘/tmp/workdir/PLNmodels/new/PLNmodels.Rcheck/00install.out’ for details.
+    ```
 
+## Installation
 
+### Devel
 
+```
+* installing *source* package ‘PLNmodels’ ...
+** package ‘PLNmodels’ successfully unpacked and MD5 sums checked
+** using staged installation
+** libs
+g++ -std=gnu++11 -I"/opt/R/4.1.1/lib/R/include" -DNDEBUG  -I'/opt/R/4.1.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.1.1/lib/R/site-library/RcppArmadillo/include' -I'/opt/R/4.1.1/lib/R/site-library/nloptr/include' -I/usr/local/include   -fpic  -g -O2  -c RcppExports.cpp -o RcppExports.o
+g++ -std=gnu++11 -I"/opt/R/4.1.1/lib/R/include" -DNDEBUG  -I'/opt/R/4.1.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.1.1/lib/R/site-library/RcppArmadillo/include' -I'/opt/R/4.1.1/lib/R/site-library/nloptr/include' -I/usr/local/include   -fpic  -g -O2  -c nlopt_wrapper.cpp -o nlopt_wrapper.o
+g++ -std=gnu++11 -I"/opt/R/4.1.1/lib/R/include" -DNDEBUG  -I'/opt/R/4.1.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.1.1/lib/R/site-library/RcppArmadillo/include' -I'/opt/R/4.1.1/lib/R/site-library/nloptr/include' -I/usr/local/include   -fpic  -g -O2  -c optim_diag_cov.cpp -o optim_diag_cov.o
+g++ -std=gnu++11 -I"/opt/R/4.1.1/lib/R/include" -DNDEBUG  -I'/opt/R/4.1.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.1.1/lib/R/site-library/RcppArmadillo/include' -I'/opt/R/4.1.1/lib/R/site-library/nloptr/include' -I/usr/local/include   -fpic  -g -O2  -c optim_full_cov.cpp -o optim_full_cov.o
+g++ -std=gnu++11 -I"/opt/R/4.1.1/lib/R/include" -DNDEBUG  -I'/opt/R/4.1.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.1.1/lib/R/site-library/RcppArmadillo/include' -I'/opt/R/4.1.1/lib/R/site-library/nloptr/include' -I/usr/local/include   -fpic  -g -O2  -c optim_genet_cov.cpp -o optim_genet_cov.o
+g++ -std=gnu++11 -I"/opt/R/4.1.1/lib/R/include" -DNDEBUG  -I'/opt/R/4.1.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.1.1/lib/R/site-library/RcppArmadillo/include' -I'/opt/R/4.1.1/lib/R/site-library/nloptr/include' -I/usr/local/include   -fpic  -g -O2  -c optim_rank_cov.cpp -o optim_rank_cov.o
+...
+** building package indices
+** installing vignettes
+** testing if installed package can be loaded from temporary location
+Error: package or namespace load failed for ‘PLNmodels’ in dyn.load(file, DLLpath = DLLpath, ...):
+ unable to load shared object '/tmp/workdir/PLNmodels/new/PLNmodels.Rcheck/00LOCK-PLNmodels/00new/PLNmodels/libs/PLNmodels.so':
+  /tmp/workdir/PLNmodels/new/PLNmodels.Rcheck/00LOCK-PLNmodels/00new/PLNmodels/libs/PLNmodels.so: undefined symbol: nlopt_set_min_objective
+Error: loading failed
+Execution halted
+ERROR: loading failed
+* removing ‘/tmp/workdir/PLNmodels/new/PLNmodels.Rcheck/PLNmodels’
 
 
 ```
 ### CRAN
 
 ```
-* using log directory ‘/tmp/workdir/MarketMatching/old/MarketMatching.Rcheck’
-* using R version 4.1.1 (2021-08-10)
-* using platform: x86_64-pc-linux-gnu (64-bit)
-* using session charset: UTF-8
-* using option ‘--no-manual’
-* checking for file ‘MarketMatching/DESCRIPTION’ ... OK
-* checking extension type ... Package
-* this is package ‘MarketMatching’ version ‘1.2.0’
-* checking package namespace information ... OK
-* checking package dependencies ... ERROR
-Packages required but not available: 'CausalImpact', 'bsts', 'Boom'
-
-See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
-manual.
-* DONE
-Status: 1 ERROR
-
-
-
+* installing *source* package ‘PLNmodels’ ...
+** package ‘PLNmodels’ successfully unpacked and MD5 sums checked
+** using staged installation
+** libs
+g++ -std=gnu++11 -I"/opt/R/4.1.1/lib/R/include" -DNDEBUG  -I'/opt/R/4.1.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.1.1/lib/R/site-library/RcppArmadillo/include' -I'/opt/R/4.1.1/lib/R/site-library/nloptr/include' -I/usr/local/include   -fpic  -g -O2  -c RcppExports.cpp -o RcppExports.o
+g++ -std=gnu++11 -I"/opt/R/4.1.1/lib/R/include" -DNDEBUG  -I'/opt/R/4.1.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.1.1/lib/R/site-library/RcppArmadillo/include' -I'/opt/R/4.1.1/lib/R/site-library/nloptr/include' -I/usr/local/include   -fpic  -g -O2  -c nlopt_wrapper.cpp -o nlopt_wrapper.o
+g++ -std=gnu++11 -I"/opt/R/4.1.1/lib/R/include" -DNDEBUG  -I'/opt/R/4.1.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.1.1/lib/R/site-library/RcppArmadillo/include' -I'/opt/R/4.1.1/lib/R/site-library/nloptr/include' -I/usr/local/include   -fpic  -g -O2  -c optim_diag_cov.cpp -o optim_diag_cov.o
+g++ -std=gnu++11 -I"/opt/R/4.1.1/lib/R/include" -DNDEBUG  -I'/opt/R/4.1.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.1.1/lib/R/site-library/RcppArmadillo/include' -I'/opt/R/4.1.1/lib/R/site-library/nloptr/include' -I/usr/local/include   -fpic  -g -O2  -c optim_full_cov.cpp -o optim_full_cov.o
+g++ -std=gnu++11 -I"/opt/R/4.1.1/lib/R/include" -DNDEBUG  -I'/opt/R/4.1.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.1.1/lib/R/site-library/RcppArmadillo/include' -I'/opt/R/4.1.1/lib/R/site-library/nloptr/include' -I/usr/local/include   -fpic  -g -O2  -c optim_genet_cov.cpp -o optim_genet_cov.o
+g++ -std=gnu++11 -I"/opt/R/4.1.1/lib/R/include" -DNDEBUG  -I'/opt/R/4.1.1/lib/R/site-library/Rcpp/include' -I'/opt/R/4.1.1/lib/R/site-library/RcppArmadillo/include' -I'/opt/R/4.1.1/lib/R/site-library/nloptr/include' -I/usr/local/include   -fpic  -g -O2  -c optim_rank_cov.cpp -o optim_rank_cov.o
+...
+** building package indices
+** installing vignettes
+** testing if installed package can be loaded from temporary location
+Error: package or namespace load failed for ‘PLNmodels’ in dyn.load(file, DLLpath = DLLpath, ...):
+ unable to load shared object '/tmp/workdir/PLNmodels/old/PLNmodels.Rcheck/00LOCK-PLNmodels/00new/PLNmodels/libs/PLNmodels.so':
+  /tmp/workdir/PLNmodels/old/PLNmodels.Rcheck/00LOCK-PLNmodels/00new/PLNmodels/libs/PLNmodels.so: undefined symbol: nlopt_set_min_objective
+Error: loading failed
+Execution halted
+ERROR: loading failed
+* removing ‘/tmp/workdir/PLNmodels/old/PLNmodels.Rcheck/PLNmodels’
 
 
 ```