release version

.Rbuildignore

@@ -9,3 +9,7 @@
 ^doc$
 ^Meta$
 ^CRAN-RELEASE$
+^.github
+^revdep
+^CRAN-SUBMISSION$
+^nullabor.Rcheck

DESCRIPTION

@@ -1,5 +1,5 @@
 Package: nullabor
-Version: 0.3.10
+Version: 0.3.12
 Description: Tools for visual inference. Generate null data sets
  and null plots using permutation and simulation. Calculate distance metrics
  for a lineup, and examine the distributions of metrics.
@@ -12,8 +12,8 @@ Authors@R: c(
  )
 Maintainer: Di Cook <dicook@monash.edu>
 License: GPL (>= 2)
-URL: http://github.com/dicook/nullabor
-BugReports: http://github.com/dicook/nullabor/issues
+URL: https://github.com/dicook/nullabor
+BugReports: https://github.com/dicook/nullabor/issues
 Imports:
  MASS,
  moments,

NEWS.md

@@ -1,3 +1,12 @@
+# nullabor 0.3.12
+
+- CITATION revised to satisfy CRAN check
+- And URLs in vignettes change to DOI because the DOI URL is apparently not valid according to the automated checks
+
+# nullabor 0.3.11
+
+- URLs in DESCRIPTION, CITATION, vignettes were causing an error on CRAN checks!
+
 # nullabor 0.3.10
 
 - removed dependency on reshape2

cran-comments.md

@@ -1,17 +1,17 @@
 ## Overview 
 
-These are small changes, including removing some dependencies. Also fixed issues at https://cran.rstudio.com//web/checks/check_results_nullabor.html. 
+These are small changes, including removing some dependencies. Also fixed issues at https://cran.rstudio.com//web/checks/check_results_nullabor.html. And links flagged by CRAN check.
 
-── R CMD check results ────────────────────── nullabor 0.3.10 ────
-Duration: 1m 24.9s
+── R CMD check results ──────────── nullabor 0.3.12 ────
+Duration: 1m 2.3s
 
 0 errors ✔ | 0 warnings ✔ | 0 notes ✔
 
 ## Test environment
 
 * R version 4.4.1 (2024-06-14) -- "Race for Your Life"
-* https://win-builder.r-project.org/
-* Linux: 
+* https://win-builder.r-project.org/ A Note is produced that says URLs might be invalid. They have all been checked to be correct, and the correct URL, even though several exist.
+* Linux, using R-hub v2. Has an error on compiling vignettes because the build machine doesn't have Rmarkdown. The vignettes build everywhere else. 
 
 ## Reverse dependencies
 

inst/CITATION

@@ -1,26 +1,10 @@
-citHeader("To cite nullabor in publications use this:")
-
-citEntry(entry = "Article",
- title = "Statistical Inference for Exploratory Data
-Analysis and Model Diagnostics",
- author = personList(as.person("Andreas Buja"),
- as.person("Dianne Cook"),
- as.person("Heike Hofmann"),
- as.person("Michael Lawrence"),
- as.person("Eun-kyung Lee"),
- as.person("Deborah F. Swayne"),
- as.person("Hadley Wickham")), 
- journal = "Royal Society Philosophical Transactions A",
- year = "2009",
- volume = "367",
- number = "1906",
- pages = "4361--4383",
- url = "http://rsta.royalsocietypublishing.org/content/367/1906/4361.article-info",
-
- textVersion =
- paste("Buja, A., Cook, D., Hofmann, H., Lawrence, M., Lee, E.-K., Swayne,
-D. F, Wickham, H. (2009)",
- "Statistical Inference for Exploratory Data Analysis and Model Diagnostics",
- "Royal Society Philosophical Transactions A, 367(1906):4361-4383.",
- "URL http://rsta.royalsocietypublishing.org/content/367/1906/4361.article-info")
+bibentry(bibtype = "Article",
+ title = "Statistical Inference for Exploratory Data Analysis and Model Diagnostics",
+ author = "Andreas Buja, Dianne Cook, Heike Hofmann, Michael Lawrence, Eun-kyung Lee, Deborah F. Swayne, Hadley Wickham",
+ journal = "Royal Society Philosophical Transactions A",
+ year = "2009",
+ volume = "367",
+ number = "1906",
+ pages = "4361--4383",
+ doi = "10.1098/rsta.2009.0120"
 )

vignettes/distances.Rmd

@@ -160,4 +160,4 @@ References
 ----------
 
 Roy Chowdhury, N. and Cook, D. and Hofmann, H. and Majumder, M. (2018) Measuring Lineup Difficulty By Matching Distance Metrics With Subject Choices in Crowd-Sourced Data, Journal of Computational and Graphical Statistics, 27(1), 132–145,
-[https://doi.org/10.1080/10618600.2017.1356323](https://doi.org/10.1080/10618600.2017.1356323).
+DOI: 10.1080/10618600.2017.1356323.

vignettes/nullabor.Rmd

@@ -140,15 +140,15 @@ visual_power(turk_results)
 References
 ----------
 
-Buja, A., Cook, D., Hofmann, H., Lawrence, M., Lee, E.-K., Swayne, D. F, Wickham, H. (2009) Statistical Inference for Exploratory Data Analysis and Model Diagnostics, Royal Society Philosophical Transactions A, 367:4361--4383, [https://doi.org/10.1098/rsta.2009.0120](https://doi.org/10.1098/rsta.2009.0120).
+Buja, A., Cook, D., Hofmann, H., Lawrence, M., Lee, E.-K., Swayne, D. F, Wickham, H. (2009) Statistical Inference for Exploratory Data Analysis and Model Diagnostics, Royal Society Philosophical Transactions A, 367:4361--4383, DOI: 10.1098/rsta.2009.0120.
 
-Wickham, H., Cook, D., Hofmann, H. and Buja, A. (2010) Graphical Inference for Infovis, IEEE Transactions on Visualization and Computer Graphics, 16(6):973--979, [https://doi.ieeecomputersociety.org/10.1109/TVCG.2010.161](https://doi.ieeecomputersociety.org/10.1109/TVCG.2010.161). Best paper award.
+Wickham, H., Cook, D., Hofmann, H. and Buja, A. (2010) Graphical Inference for Infovis, IEEE Transactions on Visualization and Computer Graphics, 16(6):973--979, Best paper award, DOI: 10.1109/TVCG.2010.161. 
 
-Hofmann, H., Follett, L., Majumder, M. and Cook, D. (2012) Graphical Tests for Power Comparison of Competing Designs, IEEE Transactions on Visualization and Computer Graphics, 18(12):2441--2448, [https://doi.ieeecomputersociety.org/10.1109/TVCG.2012.230](https://doi.ieeecomputersociety.org/10.1109/TVCG.2012.230).
+Hofmann, H., Follett, L., Majumder, M. and Cook, D. (2012) Graphical Tests for Power Comparison of Competing Designs, IEEE Transactions on Visualization and Computer Graphics, 18(12):2441--2448, DOI: 10.1109/TVCG.2012.230.
 
-Majumder, M., Hofmann, H. and Cook, D. (2013) Validation of Visual Statistical Inference, Applied to Linear Models, Journal of the American Statistical Association, 108(503):942--956. Featured Article [https://doi.org/10.1080/01621459.2013.808157](https://doi.org/10.1080/01621459.2013.808157).
+Majumder, M., Hofmann, H. and Cook, D. (2013) Validation of Visual Statistical Inference, Applied to Linear Models, Journal of the American Statistical Association, 108(503):942--956, Featured Article, DOI: 10.1080/01621459.2013.808157.
 
-Roy Chowdhury, N., Cook, D., Hofmann, H., Majumder, M., Lee, E. K., & Toth, A. L. (2014). Using visual statistical inference to better understand random class separations in high dimension, low sample size data. Computational Statistics, 30(2), 293-316. [https://doi.org/10.1007/s00180-014-0534-x](https://doi.org/10.1007/s00180-014-0534-x)
+Roy Chowdhury, N., Cook, D., Hofmann, H., Majumder, M., Lee, E. K., & Toth, A. L. (2014). Using visual statistical inference to better understand random class separations in high dimension, low sample size data. Computational Statistics, 30(2), 293-316, DOI: 10.1007/s00180-014-0534-x.
 
 Majumder, M. and Hofmann, H. and Cook, D. (2014) Human Factors Influencing Visual Statistical Inference,
-[https://doi.org/10.48550/arXiv.1408.1974](https://doi.org/10.48550/arXiv.1408.1974).
+DOI: 10.48550/arXiv.1408.1974.