galaaz 0.4.6 → 0.5.0

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Files changed (181) hide show
  1. checksums.yaml +5 -5
  2. data/README.md +3575 -118
  3. data/Rakefile +21 -4
  4. data/bin/gknit +152 -6
  5. data/bin/gknit-draft +105 -0
  6. data/bin/gknit-draft.rb +28 -0
  7. data/bin/gknit_Rscript +127 -0
  8. data/bin/grun +27 -1
  9. data/bin/gstudio +47 -4
  10. data/bin/{gstudio.rb → gstudio_irb.rb} +0 -0
  11. data/bin/gstudio_pry.rb +7 -0
  12. data/blogs/galaaz_ggplot/galaaz_ggplot.Rmd +3 -12
  13. data/blogs/galaaz_ggplot/galaaz_ggplot.html +77 -222
  14. data/blogs/galaaz_ggplot/galaaz_ggplot.md +4 -31
  15. data/blogs/galaaz_ggplot/galaaz_ggplot.pdf +0 -0
  16. data/blogs/galaaz_ggplot/galaaz_ggplot_files/figure-html/midwest_rb.png +0 -0
  17. data/blogs/galaaz_ggplot/galaaz_ggplot_files/figure-html/scatter_plot_rb.png +0 -0
  18. data/blogs/galaaz_ggplot/midwest.Rmd +1 -9
  19. data/blogs/gknit/gknit.Rmd +232 -123
  20. data/blogs/{dev/dev.html → gknit/gknit.html} +1897 -33
  21. data/blogs/gknit/gknit.pdf +0 -0
  22. data/blogs/gknit/lst.rds +0 -0
  23. data/blogs/gknit/stats.bib +27 -0
  24. data/blogs/manual/lst.rds +0 -0
  25. data/blogs/manual/manual.Rmd +1893 -47
  26. data/blogs/manual/manual.html +3153 -347
  27. data/blogs/manual/manual.md +3575 -118
  28. data/blogs/manual/manual.pdf +0 -0
  29. data/blogs/manual/manual.tex +4026 -0
  30. data/blogs/manual/manual_files/figure-html/bubble-1.png +0 -0
  31. data/blogs/manual/manual_files/figure-html/diverging_bar.png +0 -0
  32. data/blogs/manual/manual_files/figure-latex/bubble-1.png +0 -0
  33. data/blogs/manual/manual_files/figure-latex/diverging_bar.pdf +0 -0
  34. data/blogs/{dev → manual}/model.rb +0 -0
  35. data/blogs/nse_dplyr/nse_dplyr.Rmd +849 -0
  36. data/blogs/nse_dplyr/nse_dplyr.html +878 -0
  37. data/blogs/nse_dplyr/nse_dplyr.md +1198 -0
  38. data/blogs/nse_dplyr/nse_dplyr.pdf +0 -0
  39. data/blogs/oh_my/oh_my.html +274 -386
  40. data/blogs/oh_my/oh_my.md +208 -205
  41. data/blogs/ruby_plot/ruby_plot.Rmd +64 -84
  42. data/blogs/ruby_plot/ruby_plot.html +235 -208
  43. data/blogs/ruby_plot/ruby_plot.md +239 -34
  44. data/blogs/ruby_plot/ruby_plot.pdf +0 -0
  45. data/blogs/ruby_plot/ruby_plot_files/figure-html/dose_len.png +0 -0
  46. data/blogs/ruby_plot/ruby_plot_files/figure-html/facet_by_delivery.png +0 -0
  47. data/blogs/ruby_plot/ruby_plot_files/figure-html/facet_by_dose.png +0 -0
  48. data/blogs/ruby_plot/ruby_plot_files/figure-html/facets_by_delivery_color.png +0 -0
  49. data/blogs/ruby_plot/ruby_plot_files/figure-html/facets_by_delivery_color2.png +0 -0
  50. data/blogs/ruby_plot/ruby_plot_files/figure-html/facets_with_decorations.png +0 -0
  51. data/blogs/ruby_plot/ruby_plot_files/figure-html/facets_with_jitter.png +0 -0
  52. data/blogs/ruby_plot/ruby_plot_files/figure-html/facets_with_points.png +0 -0
  53. data/blogs/ruby_plot/ruby_plot_files/figure-html/final_box_plot.png +0 -0
  54. data/blogs/ruby_plot/ruby_plot_files/figure-html/final_violin_plot.png +0 -0
  55. data/blogs/ruby_plot/ruby_plot_files/figure-html/violin_with_jitter.png +0 -0
  56. data/examples/Bibliography/master.bib +50 -0
  57. data/examples/Bibliography/stats.bib +72 -0
  58. data/examples/islr/ch2.spec.rb +1 -1
  59. data/examples/islr/ch3_boston.rb +4 -4
  60. data/examples/islr/x_y_rnorm.jpg +0 -0
  61. data/examples/latex_templates/Test-acm_article/Makefile +16 -0
  62. data/examples/latex_templates/Test-acm_article/Test-acm_article.Rmd +65 -0
  63. data/examples/latex_templates/Test-acm_article/acm_proc_article-sp.cls +1670 -0
  64. data/examples/latex_templates/Test-acm_article/sensys-abstract.cls +703 -0
  65. data/examples/latex_templates/Test-acm_article/sigproc.bib +59 -0
  66. data/examples/latex_templates/Test-acs_article/Test-acs_article.Rmd +260 -0
  67. data/examples/latex_templates/Test-acs_article/Test-acs_article.pdf +0 -0
  68. data/examples/latex_templates/Test-acs_article/acs-Test-acs_article.bib +11 -0
  69. data/examples/latex_templates/Test-acs_article/acs-my_output.bib +11 -0
  70. data/examples/latex_templates/Test-acs_article/acstest.bib +17 -0
  71. data/examples/latex_templates/Test-aea_article/AEA.cls +1414 -0
  72. data/examples/latex_templates/Test-aea_article/BibFile.bib +0 -0
  73. data/examples/latex_templates/Test-aea_article/Test-aea_article.Rmd +108 -0
  74. data/examples/latex_templates/Test-aea_article/Test-aea_article.pdf +0 -0
  75. data/examples/latex_templates/Test-aea_article/aea.bst +1269 -0
  76. data/examples/latex_templates/Test-aea_article/multicol.sty +853 -0
  77. data/examples/latex_templates/Test-aea_article/references.bib +0 -0
  78. data/examples/latex_templates/Test-aea_article/setspace.sty +546 -0
  79. data/examples/latex_templates/Test-amq_article/Test-amq_article.Rmd +256 -0
  80. data/examples/latex_templates/Test-amq_article/Test-amq_article.pdf +0 -0
  81. data/examples/latex_templates/Test-amq_article/Test-amq_article.pdfsync +3397 -0
  82. data/examples/latex_templates/Test-amq_article/pics/Figure2.pdf +0 -0
  83. data/examples/latex_templates/Test-ams_article/Test-ams_article.Rmd +215 -0
  84. data/examples/latex_templates/Test-ams_article/amstest.bib +436 -0
  85. data/examples/latex_templates/Test-asa_article/Test-asa_article.Rmd +153 -0
  86. data/examples/latex_templates/Test-asa_article/Test-asa_article.pdf +0 -0
  87. data/examples/latex_templates/Test-asa_article/agsm.bst +1353 -0
  88. data/examples/latex_templates/Test-asa_article/bibliography.bib +233 -0
  89. data/examples/latex_templates/Test-ieee_article/IEEEtran.bst +2409 -0
  90. data/examples/latex_templates/Test-ieee_article/IEEEtran.cls +6346 -0
  91. data/examples/latex_templates/Test-ieee_article/Test-ieee_article.Rmd +175 -0
  92. data/examples/latex_templates/Test-ieee_article/Test-ieee_article.pdf +0 -0
  93. data/examples/latex_templates/Test-ieee_article/mybibfile.bib +20 -0
  94. data/examples/latex_templates/Test-rjournal_article/RJournal.sty +335 -0
  95. data/examples/latex_templates/Test-rjournal_article/RJreferences.bib +18 -0
  96. data/examples/latex_templates/Test-rjournal_article/RJwrapper.pdf +0 -0
  97. data/examples/latex_templates/Test-rjournal_article/Test-rjournal_article.Rmd +52 -0
  98. data/examples/latex_templates/Test-springer_article/Test-springer_article.Rmd +65 -0
  99. data/examples/latex_templates/Test-springer_article/Test-springer_article.pdf +0 -0
  100. data/examples/latex_templates/Test-springer_article/bibliography.bib +26 -0
  101. data/examples/latex_templates/Test-springer_article/spbasic.bst +1658 -0
  102. data/examples/latex_templates/Test-springer_article/spmpsci.bst +1512 -0
  103. data/examples/latex_templates/Test-springer_article/spphys.bst +1443 -0
  104. data/examples/latex_templates/Test-springer_article/svglov3.clo +113 -0
  105. data/examples/latex_templates/Test-springer_article/svjour3.cls +1431 -0
  106. data/examples/misc/moneyball.rb +1 -1
  107. data/examples/misc/subsetting.rb +37 -37
  108. data/examples/rmarkdown/svm-rmarkdown-anon-ms-example/svm-rmarkdown-anon-ms-example.Rmd +73 -0
  109. data/examples/rmarkdown/svm-rmarkdown-anon-ms-example/svm-rmarkdown-anon-ms-example.pdf +0 -0
  110. data/examples/rmarkdown/svm-rmarkdown-article-example/svm-rmarkdown-article-example.Rmd +382 -0
  111. data/examples/rmarkdown/svm-rmarkdown-article-example/svm-rmarkdown-article-example.pdf +0 -0
  112. data/examples/rmarkdown/svm-rmarkdown-beamer-example/svm-rmarkdown-beamer-example.Rmd +164 -0
  113. data/examples/rmarkdown/svm-rmarkdown-beamer-example/svm-rmarkdown-beamer-example.pdf +0 -0
  114. data/examples/rmarkdown/svm-rmarkdown-cv/svm-rmarkdown-cv.Rmd +92 -0
  115. data/examples/rmarkdown/svm-rmarkdown-cv/svm-rmarkdown-cv.pdf +0 -0
  116. data/examples/rmarkdown/svm-rmarkdown-syllabus-example/attend-grade-relationships.csv +482 -0
  117. data/examples/rmarkdown/svm-rmarkdown-syllabus-example/svm-rmarkdown-syllabus-example.Rmd +280 -0
  118. data/examples/rmarkdown/svm-rmarkdown-syllabus-example/svm-rmarkdown-syllabus-example.pdf +0 -0
  119. data/examples/rmarkdown/svm-xaringan-example/svm-xaringan-example.Rmd +386 -0
  120. data/lib/R_interface/r.rb +2 -2
  121. data/lib/R_interface/r_libs.R +6 -1
  122. data/lib/R_interface/r_methods.rb +12 -2
  123. data/lib/R_interface/rdata_frame.rb +8 -17
  124. data/lib/R_interface/rindexed_object.rb +1 -2
  125. data/lib/R_interface/rlist.rb +1 -0
  126. data/lib/R_interface/robject.rb +20 -23
  127. data/lib/R_interface/rpkg.rb +15 -6
  128. data/lib/R_interface/rsupport.rb +13 -19
  129. data/lib/R_interface/ruby_extensions.rb +14 -18
  130. data/lib/R_interface/rvector.rb +0 -12
  131. data/lib/gknit.rb +2 -0
  132. data/lib/gknit/draft.rb +105 -0
  133. data/lib/gknit/knitr_engine.rb +6 -37
  134. data/lib/util/exec_ruby.rb +22 -84
  135. data/lib/util/inline_file.rb +7 -3
  136. data/specs/figures/bg.jpeg +0 -0
  137. data/specs/figures/bg.png +0 -0
  138. data/specs/figures/bg.svg +2 -2
  139. data/specs/figures/dose_len.png +0 -0
  140. data/specs/figures/no_args.jpeg +0 -0
  141. data/specs/figures/no_args.png +0 -0
  142. data/specs/figures/no_args.svg +2 -2
  143. data/specs/figures/width_height.jpeg +0 -0
  144. data/specs/figures/width_height.png +0 -0
  145. data/specs/figures/width_height_units1.jpeg +0 -0
  146. data/specs/figures/width_height_units1.png +0 -0
  147. data/specs/figures/width_height_units2.jpeg +0 -0
  148. data/specs/figures/width_height_units2.png +0 -0
  149. data/specs/r_dataframe.spec.rb +184 -11
  150. data/specs/r_list.spec.rb +4 -4
  151. data/specs/r_list_apply.spec.rb +11 -10
  152. data/specs/ruby_expression.spec.rb +3 -11
  153. data/specs/tmp.rb +106 -34
  154. data/version.rb +1 -1
  155. metadata +96 -33
  156. data/bin/gknit_old_r +0 -236
  157. data/blogs/dev/dev.Rmd +0 -77
  158. data/blogs/dev/dev.md +0 -87
  159. data/blogs/dev/dev_files/figure-html/bubble-1.png +0 -0
  160. data/blogs/dev/dev_files/figure-html/diverging_bar. +0 -0
  161. data/blogs/dev/dev_files/figure-html/diverging_bar.png +0 -0
  162. data/blogs/dplyr/dplyr.rb +0 -63
  163. data/blogs/galaaz_ggplot/galaaz_ggplot.aux +0 -43
  164. data/blogs/galaaz_ggplot/galaaz_ggplot.log +0 -640
  165. data/blogs/galaaz_ggplot/galaaz_ggplot.out +0 -10
  166. data/blogs/galaaz_ggplot/galaaz_ggplot.tex +0 -481
  167. data/blogs/galaaz_ggplot/midwest.png +0 -0
  168. data/blogs/galaaz_ggplot/scatter_plot.png +0 -0
  169. data/blogs/ruby_plot/ruby_plot.Rmd_external_figs +0 -662
  170. data/blogs/ruby_plot/ruby_plot.tex +0 -1077
  171. data/blogs/ruby_plot/ruby_plot_files/figure-html/dose_len.svg +0 -57
  172. data/blogs/ruby_plot/ruby_plot_files/figure-html/facet_by_delivery.svg +0 -106
  173. data/blogs/ruby_plot/ruby_plot_files/figure-html/facet_by_dose.svg +0 -110
  174. data/blogs/ruby_plot/ruby_plot_files/figure-html/facets_by_delivery_color.svg +0 -174
  175. data/blogs/ruby_plot/ruby_plot_files/figure-html/facets_by_delivery_color2.svg +0 -236
  176. data/blogs/ruby_plot/ruby_plot_files/figure-html/facets_with_jitter.svg +0 -296
  177. data/blogs/ruby_plot/ruby_plot_files/figure-html/facets_with_points.svg +0 -236
  178. data/blogs/ruby_plot/ruby_plot_files/figure-html/final_box_plot.svg +0 -218
  179. data/blogs/ruby_plot/ruby_plot_files/figure-html/final_violin_plot.svg +0 -128
  180. data/blogs/ruby_plot/ruby_plot_files/figure-html/violin_with_jitter.svg +0 -150
  181. data/examples/paper/paper.rb +0 -36
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