v1.2.0

.Rbuildignore

@@ -22,3 +22,6 @@ vignettes/precompile\.R
 ^\.positai$
 ^\.claude$
 ^CLAUDE\.md$
+^man-roxygen$
+^inst/autograph_old\.png$
+^Rplots\.pdf$

.github/workflows/prchecks.yml

@@ -83,6 +83,41 @@ jobs:
         run: spelling::spell_check_package()
         shell: Rscript {0}
 
+  website-builds:
+    name: Website builds
+    runs-on: ubuntu-latest
+
+    steps:
+      - uses: actions/checkout@v7
+
+      - uses: r-lib/actions/setup-r@v2
+        with:
+          use-public-rspm: true
+
+      - uses: r-lib/actions/setup-r-dependencies@v2
+        with:
+          # rsconnect is not a package dependency, but pkgdown::build_site()
+          # calls build_tutorials() for inst/tutorials/, and that step reads
+          # rsconnect deployment records. Without it the site build errors out
+          # and the website is never checked. pushrelease.yml installs it too.
+          extra-packages: |
+            any::pkgdown
+            any::rsconnect
+            local::.
+          needs: website
+
+      # The site itself is deployed from pushrelease.yml, but a missing index
+      # entry or a broken cross-reference only surfaces at build time, which is
+      # too late. check_pkgdown() catches a topic left out of the reference
+      # index; the build catches everything else, and its output is discarded.
+      - name: Check reference index covers every topic
+        run: pkgdown::check_pkgdown()
+        shell: Rscript {0}
+
+      - name: Build site
+        run: pkgdown::build_site(preview = FALSE, install = FALSE, new_process = FALSE)
+        shell: Rscript {0}
+
   articles-in-sync:
     name: Tutorial articles are in sync
     runs-on: ubuntu-latest

.github/workflows/pushrelease.yml

@@ -116,12 +116,26 @@ jobs:
           echo "Renamed files"
           ls autograph_*
 
+      - name: Extract release notes from NEWS.md
+        shell: bash
+        run: |
+          # Take the NEWS.md section for this version, else the topmost section.
+          awk -v ver="${{ env.PACKAGE_NAME }} ${{ env.PACKAGE_VERSION }}" '
+            /^# / { if (found) exit; if (substr($0, 3) == ver) { found = 1; next } }
+            found { print }
+          ' NEWS.md > RELEASE_NOTES.md
+          if [ ! -s RELEASE_NOTES.md ]; then
+            awk 'NR > 1 && /^# / { exit } NR > 1 { print }' NEWS.md > RELEASE_NOTES.md
+          fi
+          cat RELEASE_NOTES.md
+
       - name: Create Release and Upload Assets
         id: create_release
         uses: softprops/action-gh-release@v2
         with:
           tag_name: ${{ steps.newtag.outputs.tag }}
           name: Release ${{ steps.newtag.outputs.tag }}
+          body_path: RELEASE_NOTES.md
           draft: false
           prerelease: false
           fail_on_unmatched_files: true

.gitignore

@@ -19,3 +19,4 @@ toadd/*
 cache/*
 .positai
 CLAUDE.md
+Rplots.pdf

DESCRIPTION

@@ -1,6 +1,6 @@
 Package: autograph
 Title: Automatic Plotting and Theming of Many Graphs
-Version: 1.1.2
+Version: 1.2.0
 Description: Visual exploration and presentation of networks should not be difficult.
    This package includes functions for plotting networks and network-related metrics with sensible and pretty defaults.
    It includes 'ggplot2'-based plot methods for many popular network package classes.
@@ -13,7 +13,7 @@ Encoding: UTF-8
 LazyData: true
 Depends:
     R (>= 4.1.0),
-    manynet (>= 2.2.1)
+    manynet (>= 2.2.3)
 Imports:
     dplyr (>= 1.1.0),
     ggraph (>= 2.2.0),
@@ -27,10 +27,12 @@ Suggests:
     gifski,
     methods,
     migraph,
-    netrics,
+    netrics (>= 0.4.0),
+    systemfonts,
     testthat (>= 3.0.0)
 Enhances:
     ergm,
+    goldfish,
     RSiena
 Authors@R: 
     c(person(given = "James",
@@ -55,4 +57,4 @@ Config/Needs/website:
     pkgdown
 Config/testthat/parallel: true
 Config/testthat/edition: 3
-Config/roxygen2/version: 8.0.0
+Config/roxygen2/version: 8.1.0

NAMESPACE

@@ -3,11 +3,20 @@
 S3method(plot,ag_conv)
 S3method(plot,ag_gof)
 S3method(plot,changepoints.goldfish)
+S3method(plot,diagnose_changepoints)
+S3method(plot,diagnose_outliers)
 S3method(plot,diff_model)
 S3method(plot,diffs_model)
 S3method(plot,ergm)
 S3method(plot,gof.ergm)
 S3method(plot,gof.stats.monan)
+S3method(plot,goldfishChangepoints)
+S3method(plot,goldfishFit)
+S3method(plot,goldfishGOF)
+S3method(plot,goldfishMargins)
+S3method(plot,goldfishOnset)
+S3method(plot,goldfishOutliers)
+S3method(plot,goldfishTimeTest)
 S3method(plot,influenceTable)
 S3method(plot,learn_model)
 S3method(plot,matrix)
@@ -21,21 +30,32 @@ S3method(plot,node_measure)
 S3method(plot,node_member)
 S3method(plot,node_motif)
 S3method(plot,outliers.goldfish)
+S3method(plot,result.goldfish)
 S3method(plot,selectionTable)
 S3method(plot,sienaGOF)
 S3method(plot,tie_measure)
 S3method(plot,traces.monan)
+S3method(print,check_separation)
 S3method(print,grapht)
 export("%>%")
 export(aes)
 export(ag_base)
 export(ag_divergent)
 export(ag_font)
 export(ag_highlight)
+export(ag_ink)
+export(ag_missing)
 export(ag_negative)
 export(ag_positive)
 export(ag_qualitative)
 export(ag_sequential)
+export(ag_size)
+export(check_contrast)
+export(check_offset)
+export(check_separation)
+export(check_span)
+export(check_stress)
+export(count_pages)
 export(element_blank)
 export(element_text)
 export(geom_point)
@@ -52,110 +72,135 @@ export(labs)
 export(layout_alluvial)
 export(layout_concentric)
 export(layout_configuration)
+export(layout_correspondence)
 export(layout_dyad)
 export(layout_hexad)
 export(layout_hierarchy)
 export(layout_ladder)
+export(layout_layered)
+export(layout_levels)
 export(layout_lineage)
+export(layout_matching)
 export(layout_multilevel)
 export(layout_pentad)
 export(layout_railway)
+export(layout_scaling)
 export(layout_tbl_graph_alluvial)
 export(layout_tbl_graph_concentric)
 export(layout_tbl_graph_configuration)
+export(layout_tbl_graph_correspondence)
 export(layout_tbl_graph_dyad)
 export(layout_tbl_graph_hexad)
 export(layout_tbl_graph_hierarchy)
 export(layout_tbl_graph_ladder)
 export(layout_tbl_graph_layered)
+export(layout_tbl_graph_levels)
 export(layout_tbl_graph_lineage)
 export(layout_tbl_graph_matching)
 export(layout_tbl_graph_multilevel)
 export(layout_tbl_graph_pentad)
 export(layout_tbl_graph_railway)
+export(layout_tbl_graph_scaling)
 export(layout_tbl_graph_tetrad)
 export(layout_tbl_graph_triad)
 export(layout_tbl_graph_valence)
 export(layout_tetrad)
 export(layout_triad)
 export(layout_valence)
+export(list_fonts)
 export(load_ergm_res)
 export(match_color)
 export(scale_colour_hue)
 export(scale_size)
 export(scale_x_continuous)
+export(set_completion)
+export(set_stocnet_medium)
 export(set_stocnet_theme)
+export(simulate_colorblind)
+export(stocnet_completion)
+export(stocnet_medium)
 export(stocnet_theme)
 export(theme)
 export(theme_grey)
 export(unit)
 export(xlab)
 export(ylab)
-importFrom(dplyr,"%>%")
-importFrom(dplyr,distinct)
-importFrom(dplyr,left_join)
-importFrom(dplyr,mutate)
-importFrom(dplyr,select)
-importFrom(ggplot2,.data)
-importFrom(ggplot2,aes)
-importFrom(ggplot2,arrow)
-importFrom(ggplot2,coord_fixed)
-importFrom(ggplot2,element_blank)
-importFrom(ggplot2,element_text)
-importFrom(ggplot2,geom_histogram)
-importFrom(ggplot2,geom_hline)
-importFrom(ggplot2,geom_line)
-importFrom(ggplot2,geom_point)
-importFrom(ggplot2,geom_segment)
-importFrom(ggplot2,geom_smooth)
-importFrom(ggplot2,geom_text)
-importFrom(ggplot2,geom_tile)
-importFrom(ggplot2,geom_vline)
-importFrom(ggplot2,ggplot)
-importFrom(ggplot2,ggsave)
-importFrom(ggplot2,ggtitle)
-importFrom(ggplot2,guides)
-importFrom(ggplot2,labs)
-importFrom(ggplot2,scale_alpha_identity)
-importFrom(ggplot2,scale_color_brewer)
-importFrom(ggplot2,scale_colour_hue)
-importFrom(ggplot2,scale_fill_brewer)
-importFrom(ggplot2,scale_fill_gradient)
-importFrom(ggplot2,scale_linetype_identity)
-importFrom(ggplot2,scale_size)
-importFrom(ggplot2,scale_x_continuous)
-importFrom(ggplot2,scale_x_discrete)
-importFrom(ggplot2,scale_y_discrete)
-importFrom(ggplot2,theme)
-importFrom(ggplot2,theme_bw)
-importFrom(ggplot2,theme_grey)
-importFrom(ggplot2,theme_void)
-importFrom(ggplot2,unit)
-importFrom(ggplot2,xlab)
-importFrom(ggplot2,ylab)
-importFrom(ggraph,geom_edge_bundle_force)
-importFrom(ggraph,geom_edge_bundle_minimal)
-importFrom(ggraph,geom_edge_bundle_path)
-importFrom(ggraph,geom_edge_link)
-importFrom(ggraph,geom_node_label)
-importFrom(ggraph,geom_node_point)
-importFrom(ggraph,geom_node_text)
-importFrom(ggraph,scale_edge_width_continuous)
+importFrom(dplyr,
+  "%>%",
+  distinct,
+  left_join,
+  mutate,
+  select
+)
+importFrom(ggplot2,
+  .data,
+  aes,
+  arrow,
+  coord_fixed,
+  element_blank,
+  element_text,
+  geom_histogram,
+  geom_hline,
+  geom_line,
+  geom_point,
+  geom_segment,
+  geom_smooth,
+  geom_text,
+  geom_tile,
+  geom_vline,
+  ggplot,
+  ggsave,
+  ggtitle,
+  guides,
+  labs,
+  scale_alpha_identity,
+  scale_color_brewer,
+  scale_colour_hue,
+  scale_fill_brewer,
+  scale_fill_gradient,
+  scale_linetype_identity,
+  scale_size,
+  scale_x_continuous,
+  scale_x_discrete,
+  scale_y_discrete,
+  theme,
+  theme_bw,
+  theme_grey,
+  theme_void,
+  unit,
+  xlab,
+  ylab
+)
+importFrom(ggraph,
+  geom_edge_bundle_force,
+  geom_edge_bundle_minimal,
+  geom_edge_bundle_path,
+  geom_edge_link,
+  geom_node_label,
+  geom_node_point,
+  geom_node_text,
+  scale_edge_width_continuous
+)
 importFrom(grDevices,colorRampPalette)
-importFrom(igraph,add_vertices)
-importFrom(igraph,as_data_frame)
-importFrom(igraph,degree)
-importFrom(igraph,delete_edge_attr)
-importFrom(igraph,delete_graph_attr)
-importFrom(igraph,delete_vertex_attr)
-importFrom(igraph,graph_from_data_frame)
-importFrom(igraph,permute)
-importFrom(igraph,set_vertex_attr)
-importFrom(igraph,vcount)
-importFrom(igraph,vertex_attr_names)
-importFrom(manynet,is_twomode)
-importFrom(manynet,snet_info)
-importFrom(manynet,snet_success)
+importFrom(igraph,
+  add_vertices,
+  as_data_frame,
+  delete_edge_attr,
+  delete_graph_attr,
+  delete_vertex_attr,
+  graph_from_data_frame,
+  permute,
+  set_vertex_attr,
+  vcount,
+  vertex_attr_names
+)
+importFrom(manynet,
+  is_twomode,
+  snet_info,
+  snet_success
+)
 importFrom(patchwork,plot_layout)
-importFrom(stats,cutree)
-importFrom(stats,setNames)
+importFrom(stats,
+  cutree,
+  setNames
+)