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Commit f231d035 authored by Tiago Peixoto's avatar Tiago Peixoto
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Generate pdf images in the documentation by default 

Images are now converted to png a posteriori for html output, but are
used as pdf for latex.
parent 44917c1c
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doc/.templates/layout.html
View file @ f231d035
......@@ -22,5 +22,8 @@
{% block sidebarsearch %}
{{ super() }}
<a href="graph-tool.pdf">(Download PDF version)</a>
<p/>
Latest <a href="/graph-tool/doc/dev/">development version docs</a> are also available.
{% endblock %}
doc/Makefile
View file @ f231d035
all:
PDFIMAGES = $(shell ls *.pdf)
PNGIMAGES = ${PDFIMAGES:.pdf=.png}
HUGEIMAGES = $(shell find . -name "*.pdf" -size +1000k)
ORIGIMAGES = ${HUGEIMAGES:.pdf=.pdf-orig}
PNGCONV = gm convert -density 600 -resample 50 -trim -antialias -quality 9 -filter Cubic
all: $(ORIGIMAGES) $(PNGIMAGES)
sphinx-build -E -b html . build
%.pdf-orig: %.pdf
cp $< $@
gm mogrify -resize 600 -trim -antialias -filter Cubic $<
%.png: %.pdf
test -d $<-orig && $(PNGCONV) $<-orig $@ || true
test -d $<-orig || $(PNGCONV) $< $@ || true
latex:
sphinx-build -E -b latex . build
......@@ -9,3 +24,7 @@ test:
push:
rsync -rEvpLz build/* root@skewed.de:/var/www/graph-tool-doc/
push-dev:
rsync -rEvpLz build/* root@skewed.de:/var/www/graph-tool-doc/dev/
doc/conf.py
View file @ f231d035
......@@ -215,12 +215,19 @@ latex_documents = [
ur'Tiago de Paula Peixoto', 'manual'),
]
#latex_logo = "graph-draw.png"
latex_preamble = """
\setcounter{tocdepth}{2}
"""
latex_show_pagerefs = True
latex_show_urls = False
latex_paper_size = "a4"
latex_logo = "blockmodel.pdf"
latex_elements = {
'papersize': "a4paper",
'fontpkg': r"\usepackage{palatino}\usepackage{eulervm}"}
'fontpkg': r"\usepackage{bookman}"}
# Example configuration for intersphinx: refer to the Python standard library.
intersphinx_mapping = {'python': ('http://docs.python.org', None),
......
doc/price.py
View file @ f231d035
......@@ -66,7 +66,7 @@ gca().set_xlim(0.8, 1e3)
subplots_adjust(left=0.2, bottom=0.2)
xlabel("$k_{in}$")
ylabel("$NP(k_{in})$")
savefig("deg-hist.png")
savefig("deg-hist.pdf")
# let's do a random walk on the graph and print the age of the vertices we find,
# just for fun.
......
doc/quickstart.rst
View file @ f231d035
......@@ -83,10 +83,10 @@ visualize the graph we created so far with the
.. doctest::
>>> graph_draw(g, vprops={"label": g.vertex_index}, output="two-nodes.png")
>>> graph_draw(g, vprops={"label": g.vertex_index}, output="two-nodes.pdf")
<...>
.. figure:: two-nodes.png
.. figure:: two-nodes.*
:align: center
A simple directed graph with two vertices and one edge, created by
......@@ -451,7 +451,7 @@ This is the degree distribution, with 100000 nodes. If you want to see a broader
power law, try to increase the number of vertices to something like :math:`10^6`
or :math:`10^7`.
.. figure:: deg-hist.png
.. figure:: deg-hist.*
:align: center
In-degree distribution of a price network with 100000 nodes.
......@@ -463,9 +463,9 @@ use the :func:`~graph_tool.draw.graph_draw` function.
g = load_graph("price.xml.gz")
age = g.vertex_properties["age"]
graph_draw(g, size=(15,15), vcolor=age, output="price.png")
graph_draw(g, size=(15,15), vcolor=age, output="price.pdf")
.. figure:: price.png
.. figure:: price.*
:align: center
A Price network with :math:`10^5` nodes. The vertex colors represent
......@@ -508,13 +508,13 @@ edge filtering.
g, pos = triangulation(random((500, 2)) * 4, type="delaunay")
tree = min_spanning_tree(g)
graph_draw(g, pos=pos, pin=True, size=(8, 8), ecolor=tree, output="min_tree.png")
graph_draw(g, pos=pos, pin=True, size=(8, 8), ecolor=tree, output="min_tree.pdf")
The ``tree`` property map has a bool type, with value "1" if the edge belongs to
the tree, and "0" otherwise. Below is an image of the original graph, with the
marked edges.
.. figure:: min_tree.png
.. figure:: min_tree.*
:align: center
We can now filter out the edges which don't belong to the minimum spanning tree.
......@@ -522,11 +522,11 @@ We can now filter out the edges which don't belong to the minimum spanning tree.
.. testcode::
g.set_edge_filter(tree)
graph_draw(g, pos=pos, pin=True, size=(8, 8), output="min_tree_filtered.png")
graph_draw(g, pos=pos, pin=True, size=(8, 8), output="min_tree_filtered.pdf")
This is how the graph looks when filtered:
.. figure:: min_tree_filtered.png
.. figure:: min_tree_filtered.*
:align: center
Everything should work transparently on the filtered graph, simply as if the
......@@ -539,9 +539,9 @@ and draws them as colors and line thickness in the graph.
bv, be = betweenness(g)
be.a *= 10
graph_draw(g, pos=pos, pin=True, size=(8,8), vsize=0.07, vcolor=bv,
eprops={"penwidth":be}, output="filtered-bt.png")
eprops={"penwidth":be}, output="filtered-bt.pdf")
.. figure:: filtered-bt.png
.. figure:: filtered-bt.*
:align: center
......@@ -553,9 +553,9 @@ The original graph can be recovered by setting the edge filter to ``None``.
bv, be = betweenness(g)
be.a *= 10
graph_draw(g, pos=pos, pin=True, size=(8,8), vsize=0.07, vcolor=bv,
eprops={"penwidth":be}, output="nonfiltered-bt.png")
eprops={"penwidth":be}, output="nonfiltered-bt.pdf")
.. figure:: nonfiltered-bt.png
.. figure:: nonfiltered-bt.*
:align: center
Everything works in analogous fashion with vertex filtering.
......@@ -609,11 +609,11 @@ Like above, the result should be the isolated minimum spanning tree:
>>> bv, be = betweenness(tv)
>>> be.a *= 10
>>> graph_draw(tv, pos=pos, pin=True, size=(8,8), vsize=0.07, vcolor=bv,
... eprops={"penwidth":be}, output="mst-view.png")
... eprops={"penwidth":be}, output="mst-view.pdf")
<...>
.. figure:: mst-view.png
.. figure:: mst-view.*
:align: center
A view of the Delaunay graph, isolating only the minimum spanning tree.
......@@ -654,10 +654,10 @@ The graph view constructed above can be visualized as
.. doctest::
>>> graph_draw(u, pos=pos, pin=True, size=(8,8), vsize=0.07, vcolor=bv,
... output="central-edges-view.png")
... output="central-edges-view.pdf")
<...>
.. figure:: central-edges-view.png
.. figure:: central-edges-view.*
:align: center
A view of the Delaunay graph, isolating only the edges with
......@@ -682,10 +682,10 @@ The resulting graph view can be visualized as
.. doctest::
>>> graph_draw(u, pos=pos, pin=True, size=(8,8), vsize=0.07,
... output="composed-filter.png")
... output="composed-filter.pdf")
<...>
.. figure:: composed-filter.png
.. figure:: composed-filter.*
:align: center
A composed view, obtained as the minimum spanning tree of all vertices
......
src/graph_tool/community/__init__.py
View file @ f231d035
......@@ -149,13 +149,13 @@ def community_structure(g, n_iter, n_spins, gamma=1.0, corr="erdos",
>>> spins = gt.community_structure(g, 10000, 20, t_range=(5, 0.1),
... history_file="community-history1")
>>> gt.graph_draw(g, pos=pos, pin=True, vsize=0.3, vcolor=spins,
... output="comm1.png", size=(10,10))
... output="comm1.pdf", size=(10,10))
<...>
>>> spins = gt.community_structure(g, 10000, 40, t_range=(5, 0.1),
... gamma=2.5,
... history_file="community-history2")
>>> gt.graph_draw(g, pos=pos, pin=True, vsize=0.3, vcolor=spins,
... output="comm2.png", size=(10,10))
... output="comm2.pdf", size=(10,10))
<...>
>>> clf()
>>> xlabel("iterations")
......@@ -165,7 +165,7 @@ def community_structure(g, n_iter, n_spins, gamma=1.0, corr="erdos",
>>> a = loadtxt("community-history1").transpose()
>>> plot(a[0], a[2])
[...]
>>> savefig("comm1-hist.png")
>>> savefig("comm1-hist.pdf")
>>> clf()
>>> xlabel("iterations")
<...>
......@@ -174,18 +174,18 @@ def community_structure(g, n_iter, n_spins, gamma=1.0, corr="erdos",
>>> a = loadtxt("community-history2").transpose()
>>> plot(a[0], a[2])
[...]
>>> savefig("comm2-hist.png")
>>> savefig("comm2-hist.pdf")
The community structure with :math:`\gamma=1`:
.. image:: comm1.png
.. image:: comm1-hist.png
.. image:: comm1.*
.. image:: comm1-hist.*
The community structure with :math:`\gamma=2.5`:
.. image:: comm2.png
.. image:: comm2-hist.png
.. image:: comm2.*
.. image:: comm2-hist.*
References
......@@ -328,10 +328,10 @@ def condensation_graph(g, prop, weight=None):
>>> size.a = log(ng[1].a+1)
>>> gt.graph_draw(ng[0], vsize=size, vcolor=size, splines=True,
... eprops={"len":20, "penwidth":10}, vprops={"penwidth":10},
... output="comm-network.png", size=(10,10))
... output="comm-network.pdf", size=(10,10))
<...>
.. figure:: comm-network.png
.. figure:: comm-network.*
:align: center
Community network of a random graph. The color and sizes of the nodes
......
src/graph_tool/correlations/__init__.py
View file @ f231d035
......@@ -277,9 +277,9 @@ def corr_hist(g, deg_source, deg_target, bins=[[0, 1], [0, 1]], weight=None,
<...>
>>> colorbar()
<...>
>>> savefig("corr.png")
>>> savefig("corr.pdf")
.. figure:: corr.png
.. figure:: corr.*
:align: center
Out/out-degree correlation histogram.
......@@ -363,9 +363,9 @@ def combined_corr_hist(g, deg1, deg2, bins=[[0, 1], [0, 1]], float_count=True):
<...>
>>> colorbar()
<...>
>>> savefig("combined_corr.png")
>>> savefig("combined_corr.pdf")
.. figure:: combined_corr.png
.. figure:: combined_corr.*
:align: center
Combined in/out-degree correlation histogram.
......@@ -453,9 +453,9 @@ def avg_neighbour_corr(g, deg_source, deg_target, bins=[0, 1], weight=None):
<...>
>>> errorbar(h[2][:-1], h[0], yerr=h[1], fmt="o")
(...)
>>> savefig("avg_corr.png")
>>> savefig("avg_corr.pdf")
.. figure:: avg_corr.png
.. figure:: avg_corr.*
:align: center
Average out/out degree correlation.
......@@ -530,9 +530,9 @@ def avg_combined_corr(g, deg1, deg2, bins=[0, 1]):
<...>
>>> errorbar(h[2][:-1], h[0], yerr=h[1], fmt="o")
(...)
>>> savefig("combined_avg_corr.png")
>>> savefig("combined_avg_corr.pdf")
.. figure:: combined_avg_corr.png
.. figure:: combined_avg_corr.*
:align: center
Average combined in/out-degree correlation.
......
src/graph_tool/draw/__init__.py
View file @ f231d035
......@@ -283,10 +283,10 @@ def graph_draw(g, pos=None, size=(15, 15), pin=False, layout=None, maxiter=None,
>>> ebet.a += 10
>>> gt.graph_draw(g, vsize=deg, vcolor=deg, vorder=deg, elen=10,
... ecolor=ebet, eorder=ebet, penwidth=ebet,
... overlap="prism", output="graph-draw.png")
... overlap="prism", output="graph-draw.pdf")
<...>
.. figure:: graph-draw.png
.. figure:: graph-draw.*
:align: center
Kamada-Kawai force-directed layout of a graph with a power-law degree
......@@ -686,10 +686,10 @@ def fruchterman_reingold_layout(g, weight=None, a=None, r=1., scale=None,
>>> seed(42)
>>> g = gt.price_network(300)
>>> pos = gt.fruchterman_reingold_layout(g, n_iter=1000)
>>> gt.graph_draw(g, pos=pos, pin=True, output="graph-draw-fr.png")
>>> gt.graph_draw(g, pos=pos, pin=True, output="graph-draw-fr.pdf")
<...>
.. figure:: graph-draw-fr.png
.. figure:: graph-draw-fr.*
:align: center
Fruchterman-Reingold layout of a Price network.
......@@ -767,10 +767,10 @@ def arf_layout(g, weight=None, d=0.5, a=10, dt=0.001, epsilon=1e-6,
>>> seed(42)
>>> g = gt.price_network(300)
>>> pos = gt.arf_layout(g, max_iter=0)
>>> gt.graph_draw(g, pos=pos, pin=True, output="graph-draw-arf.png")
>>> gt.graph_draw(g, pos=pos, pin=True, output="graph-draw-arf.pdf")
<...>
.. figure:: graph-draw-arf.png
.. figure:: graph-draw-arf.*
:align: center
ARF layout of a Price network.
......
src/graph_tool/flow/__init__.py
View file @ f231d035
......@@ -59,10 +59,10 @@ The following network will be used as an example throughout the documentation.
g.edge_properties["cap"] = cap
g.vertex_properties["pos"] = pos
g.save("flow-example.xml.gz")
gt.graph_draw(g, pos=pos, pin=True, penwidth=cap, output="flow-example.png")
gt.graph_draw(g, pos=pos, pin=True, penwidth=cap, output="flow-example.pdf")
.. figure:: flow-example.png
.. figure:: flow-example.*
:align: center
Example network used in the documentation below. The edge capacities are
......@@ -129,10 +129,10 @@ def edmonds_karp_max_flow(g, source, target, capacity, residual=None):
>>> print max_flow
6.92759897841
>>> pos = g.vertex_properties["pos"]
>>> gt.graph_draw(g, pos=pos, pin=True, penwidth=res, output="example-edmonds-karp.png")
>>> gt.graph_draw(g, pos=pos, pin=True, penwidth=res, output="example-edmonds-karp.pdf")
<...>
.. figure:: example-edmonds-karp.png
.. figure:: example-edmonds-karp.*
:align: center
Edge flows obtained with the Edmonds-Karp algorithm. The source and
......@@ -205,10 +205,10 @@ def push_relabel_max_flow(g, source, target, capacity, residual=None):
>>> print max_flow
6.92759897841
>>> pos = g.vertex_properties["pos"]
>>> gt.graph_draw(g, pos=pos, pin=True, penwidth=res, output="example-push-relabel.png")
>>> gt.graph_draw(g, pos=pos, pin=True, penwidth=res, output="example-push-relabel.pdf")
<...>
.. figure:: example-push-relabel.png
.. figure:: example-push-relabel.*
:align: center
......@@ -282,10 +282,10 @@ def boykov_kolmogorov_max_flow(g, source, target, capacity, residual=None):
>>> print max_flow
6.92759897841
>>> pos = g.vertex_properties["pos"]
>>> gt.graph_draw(g, pos=pos, pin=True, penwidth=res, output="example-kolmogorov.png")
>>> gt.graph_draw(g, pos=pos, pin=True, penwidth=res, output="example-kolmogorov.pdf")
<...>
.. figure:: example-kolmogorov.png
.. figure:: example-kolmogorov.*
:align: center
Edge flows obtained with the Boykov-Kolmogorov algorithm. The source and
......@@ -353,10 +353,10 @@ def max_cardinality_matching(g, match=None):
>>> res = gt.max_cardinality_matching(g)
>>> print res[1]
True
>>> gt.graph_draw(g, ecolor=res[0], output="max_card_match.png")
>>> gt.graph_draw(g, ecolor=res[0], output="max_card_match.pdf")
<...>
.. figure:: max_card_match.png
.. figure:: max_card_match.*
:align: center
Edges belonging to the matching are in red.
......
src/graph_tool/generation/__init__.py
View file @ f231d035
......@@ -134,7 +134,7 @@ def random_graph(N, deg_sampler, deg_corr=None, directed=True,
``mix_time`` parameter passed as ``n_iter``.
The complexity is :math:`O(V + E)` if parallel edges are allowed, and
:math:`O(V + E \times\text{mix_time})` if parallel edges are not allowed.
:math:`O(V + E \times\text{mix-time})` if parallel edges are not allowed.
.. note ::
......@@ -213,9 +213,9 @@ def random_graph(N, deg_sampler, deg_corr=None, directed=True,
<...>
>>> ylabel("out-degree")
<...>
>>> savefig("combined-deg-hist.png")
>>> savefig("combined-deg-hist.pdf")
.. figure:: combined-deg-hist.png
.. figure:: combined-deg-hist.*
:align: center
Combined degree histogram.
......@@ -266,9 +266,9 @@ def random_graph(N, deg_sampler, deg_corr=None, directed=True,
<...>
>>> ylabel("average target degree")
<...>
>>> savefig("deg-corr-dir.png")
>>> savefig("deg-corr-dir.pdf")
.. figure:: deg-corr-dir.png
.. figure:: deg-corr-dir.*
:align: center
Average nearest neighbour correlations.
......@@ -292,10 +292,10 @@ def random_graph(N, deg_sampler, deg_corr=None, directed=True,
>>> g, bm = gt.random_graph(1000, lambda: poisson(10), directed=False,
... blockmodel=lambda: randint(10), deg_corr=corr,
... mix_time=500)
>>> gt.graph_draw(g, vcolor=bm, layout="sfdp", output="blockmodel.png")
>>> gt.graph_draw(g, vcolor=bm, layout="sfdp", output="blockmodel.pdf")
<...>
.. figure:: blockmodel.png
.. figure:: blockmodel.*
:align: center
Simple blockmodel with 10 blocks.
......@@ -477,8 +477,8 @@ def random_rewire(g, strat="uncorrelated", n_iter=1, edge_sweep=True,
Each edge is tentatively swapped once per iteration, so the overall
complexity is :math:`O(V + E \times \text{n_iter})`. If ``edge_sweep ==
False``, the complexity becomes :math:`O(V + E + \text{n_iter})`.
complexity is :math:`O(V + E \times \text{n-iter})`. If ``edge_sweep ==
False``, the complexity becomes :math:`O(V + E + \text{n-iter})`.
Examples
--------
......@@ -489,24 +489,24 @@ def random_rewire(g, strat="uncorrelated", n_iter=1, edge_sweep=True,
>>> from pylab import *
>>> seed(43)
>>> g, pos = gt.triangulation(random((1000,2)))
>>> gt.graph_draw(g, layout="arf", output="rewire_orig.png", size=(6,6))
>>> gt.graph_draw(g, layout="arf", output="rewire_orig.pdf", size=(6,6))
<...>
>>> gt.random_rewire(g, "correlated")
>>> gt.graph_draw(g, layout="arf", output="rewire_corr.png", size=(6,6))
>>> gt.graph_draw(g, layout="arf", output="rewire_corr.pdf", size=(6,6))
<...>
>>> gt.random_rewire(g)
>>> gt.graph_draw(g, layout="arf", output="rewire_uncorr.png", size=(6,6))
>>> gt.graph_draw(g, layout="arf", output="rewire_uncorr.pdf", size=(6,6))
<...>
>>> gt.random_rewire(g, "erdos")
>>> gt.graph_draw(g, layout="arf", output="rewire_erdos.png", size=(6,6))
>>> gt.graph_draw(g, layout="arf", output="rewire_erdos.pdf", size=(6,6))
<...>
Some `ridiculograms <http://www.youtube.com/watch?v=YS-asmU3p_4>`_ :
.. image:: rewire_orig.png
.. image:: rewire_corr.png
.. image:: rewire_uncorr.png
.. image:: rewire_erdos.png
.. image:: rewire_orig.*
.. image:: rewire_corr.*
.. image:: rewire_uncorr.*
.. image:: rewire_erdos.*
*From left to right:* Original graph --- Shuffled graph, with degree
correlations --- Shuffled graph, without degree correlations --- Shuffled graph,
......@@ -540,9 +540,9 @@ def random_rewire(g, strat="uncorrelated", n_iter=1, edge_sweep=True,
<...>
>>> legend(loc="best")
<...>
>>> savefig("shuffled-stats.png")
>>> savefig("shuffled-stats.pdf")
.. figure:: shuffled-stats.png
.. figure:: shuffled-stats.*
:align: center
Average degree correlations for the different shuffled and non-shuffled
......@@ -592,9 +592,9 @@ def random_rewire(g, strat="uncorrelated", n_iter=1, edge_sweep=True,
<...>
>>> ylabel("average target degree")
<...>
>>> savefig("shuffled-deg-corr-dir.png")
>>> savefig("shuffled-deg-corr-dir.pdf")
.. figure:: shuffled-deg-corr-dir.png
.. figure:: shuffled-deg-corr-dir.*
:align: center
Average degree correlations for the different shuffled and non-shuffled
......@@ -722,16 +722,16 @@ def graph_union(g1, g2, props=None, include=False):
>>> g = gt.triangulation(random((300,2)))[0]
>>> ug = gt.graph_union(g, g)
>>> uug = gt.graph_union(g, ug)
>>> gt.graph_draw(g, layout="arf", size=(8,8), output="graph_original.png")
>>> gt.graph_draw(g, layout="arf", size=(8,8), output="graph_original.pdf")
<...>
>>> gt.graph_draw(ug, layout="arf", size=(8,8), output="graph_union.png")
>>> gt.graph_draw(ug, layout="arf", size=(8,8), output="graph_union.pdf")
<...>
>>> gt.graph_draw(uug, layout="arf", size=(8,8), output="graph_union2.png")
>>> gt.graph_draw(uug, layout="arf", size=(8,8), output="graph_union2.pdf")
<...>
.. image:: graph_original.png
.. image:: graph_union.png
.. image:: graph_union2.png
.. image:: graph_original.*
.. image:: graph_union.*
.. image:: graph_union2.*
"""
if props == None:
......@@ -837,7 +837,7 @@ def triangulation(points, type="simple", periodic=False):
>>> b = gt.betweenness(g, weight=weight)
>>> b[1].a *= 100
>>> gt.graph_draw(g, pos=pos, pin=True, size=(8,8), vsize=0.07, vcolor=b[0],
... eprops={"penwidth":b[1]}, output="triang.png")
... eprops={"penwidth":b[1]}, output="triang.pdf")
<...>
>>> g, pos = gt.triangulation(points, type="delaunay")
>>> weight = g.new_edge_property("double")
......@@ -847,13 +847,13 @@ def triangulation(points, type="simple", periodic=False):
>>> b = gt.betweenness(g, weight=weight)
>>> b[1].a *= 120
>>> gt.graph_draw(g, pos=pos, pin=True, size=(8,8), vsize=0.07, vcolor=b[0],
... eprops={"penwidth":b[1]}, output="triang-delaunay.png")
... eprops={"penwidth":b[1]}, output="triang-delaunay.pdf")
<...>
2D triangulation of random points:
.. image:: triang.png
.. image:: triang-delaunay.png
.. image:: triang.*
.. image:: triang-delaunay.*
*Left:* Simple triangulation. *Right:* Delaunay triangulation. The vertex
colors and the edge thickness correspond to the weighted betweenness
......@@ -904,18 +904,18 @@ def lattice(shape, periodic=False):
Examples
--------
>>> g = gt.lattice([10,10])
>>> gt.graph_draw(g, size=(8,8), output="lattice.png")
>>> gt.graph_draw(g, size=(8,8), output="lattice.pdf")
<...>
>>> g = gt.lattice([10,20], periodic=True)
>>> gt.graph_draw(g, size=(8,8), output="lattice_periodic.png")
>>> gt.graph_draw(g, size=(8,8), output="lattice_periodic.pdf")
<...>
>>> g = gt.lattice([10,10,10])
>>> gt.graph_draw(g, size=(8,8), output="lattice_3d.png")
>>> gt.graph_draw(g, size=(8,8), output="lattice_3d.pdf")
<...>
.. image:: lattice.png
.. image:: lattice_periodic.png
.. image:: lattice_3d.png
.. image:: lattice.*
.. image:: lattice_periodic.*
.. image:: lattice_3d.*
*Left:* 10x10 2D lattice. *Middle:* 10x20 2D periodic lattice (torus).
*Right:* 10x10x10 3D lattice.
......@@ -974,14 +974,14 @@ def geometric_graph(points, radius, ranges=None):
>>> seed(42)
>>> points = random((500, 2)) * 4
>>> g, pos = gt.geometric_graph(points, 0.3)
>>> gt.graph_draw(g, pos=pos, pin=True, size=(8,8), output="geometric.png")
>>> gt.graph_draw(g, pos=pos, pin=True, size=(8,8), output="geometric.pdf")
<...>
>>> g, pos = gt.geometric_graph(points, 0.3, [(0,4), (0,4)])
>>> gt.graph_draw(g, size=(8,8), output="geometric_periodic.png")
>>> gt.graph_draw(g, size=(8,8), output="geometric_periodic.pdf")
<...>
.. image:: geometric.png
.. image:: geometric_periodic.png
.. image:: geometric.*
.. image:: geometric_periodic.*
*Left:* Geometric network with random points. *Right:* Same network, but
with periodic boundary conditions.
......@@ -1092,15 +1092,15 @@ def price_network(N, m=1, c=None, gamma=1, directed=True, seed_graph=None):
>>> seed(42)
>>> g = gt.price_network(100000)
>>> gt.graph_draw(g, layout="sfdp", size=(12,12), vcolor=g.vertex_index,
... output="price-network.png")
... output="price-network.pdf")
<...>
>>> g = gt.price_network(100000, c=0.1)
>>> gt.graph_draw(g, layout="sfdp", size=(12,12), vcolor=g.vertex_index,
... output="price-network-broader.png")
... output="price-network-broader.pdf")
<...>
.. image:: price-network.png
.. image:: price-network-broader.png
.. image:: price-network.*
.. image:: price-network-broader.*
Price networks with :math:`N=10^5` nodes. **Left:** :math:`c=1`, **Right:**
:math:`c=0.1`. The colors represent the order in which vertices were
......
src/graph_tool/search/__init__.py
View file @ f231d035
......@@ -60,10 +60,10 @@ In this module, most documentation examples will make use of the network
>>> gt.graph_draw(g, vprops={"label": name, "shape": "doublecircle",
... "fillcolor": "#729fcf"},
... penwidth=weight, overlap=False, splines=True,
... output="search_example.png")
... output="search_example.pdf")
<...>
.. figure:: search_example.png
.. figure:: search_example.*
:alt: search example
:align: center
......@@ -1358,10 +1358,10 @@ def astar_search(g, source, weight, visitor=AStarVisitor(),
>>> gt.graph_draw(g, pos=pos, pin=True, size=(8,8), vsize=0.07,
... vcolor=touch_v, vcmap=matplotlib.cm.binary,