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EcoEpi
sick-bees
Commits
bcce6b77
Commit
bcce6b77
authored
Aug 24, 2021
by
Adam Reichold
Browse files
Add mini talk on EUNIS-to-flower-patches problem.
parent
6bbf5b41
Changes
6
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Inline
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.gitattributes
View file @
bcce6b77
documents/dach21/*.jpg filter=lfs diff=lfs merge=lfs -text
documents/dach21/*.png filter=lfs diff=lfs merge=lfs -text
documents/dach21/*.mp4 filter=lfs diff=lfs merge=lfs -text
documents/eunis/*.png filter=lfs diff=lfs merge=lfs -text
.gitlab-ci.yml
View file @
bcce6b77
...
...
@@ -78,6 +78,7 @@ document:
-
documents/sampling_effects/sampling_effects.pdf
-
documents/foraging_parameters.pdf
-
documents/dach21/dach21.pdf
-
documents/eunis/eunis.pdf
builder
:
when
:
manual
...
...
documents/eunis/bipartite_network.png
0 → 100644
LFS
View file @
bcce6b77
132 Bytes
documents/eunis/eunis.tex
0 → 100644
View file @
bcce6b77
\documentclass
{
beamer
}
\usepackage
{
tikz
}
\usetikzlibrary
{
positioning
}
\usepackage
{
pgfplots
}
\mode
<presentation>
{
\usetheme
{
Pittsburgh
}
}
\setbeamertemplate
{
navigation symbols
}{}
\definecolor
{
flower
_
patch
_
purple
}{
RGB
}{
233,58,166
}
\definecolor
{
flower
_
patch
_
red
}{
RGB
}{
226,62,47
}
\definecolor
{
flower
_
patch
_
green
}{
RGB
}{
48,220,146
}
\definecolor
{
flower
_
patch
_
blue
}{
RGB
}{
76,167,200
}
\begin{document}
\begin{frame}
\begin{center}
\begin{tikzpicture}
\path
(-6.5,-5) rectangle (4.5,4);
\node
[draw,minimum size=50,very thick]
at (0,0) (model)
{
\large
Model
}
;
\only
<2->
{
% z.B. trait matching label
\node
[draw]
at (-4,2) (preferences)
{
\begin{tabular}
{
cccc
}
&
$
\mathbf
{
I
_
1
}$
&
$
\mathbf
{
I
_
2
}$
&
$
\mathbf
{
I
_
3
}$
\\
$
\mathbf
{
F
_
1
}$
&
0.09
&
0.02
&
0.83
\\
$
\mathbf
{
F
_
2
}$
&
0.78
&
0.87
&
0.98
\\
$
\mathbf
{
F
_
3
}$
&
0.80
&
0.46
&
0.78
\\
$
\mathbf
{
F
_
4
}$
&
0.12
&
0.64
&
0.14
\\
\end{tabular}
}
;
\path
(preferences) edge[->,thick] node
{}
(model);
}
\only
<3>
{
\node
[font=\small,align=center]
(paper) at (2,2.5)
{
Truit et al.: Trait-Based Modeling of
\\
Multihost Pathogen Transmission (2019)
}
;
}
\only
<4-6>
{
\node
[font=\small]
(traits) at (2,3)
{
selectivity:
$
I
\in
\left
[
0
,
1
\right
]
$
attractiveness:
$
F
\in
\left
[
0
,
1
\right
]
$}
;
}
\only
<5-6>
{
\node
[font=\small]
(nestedness) at (2,2.5)
{
nestedness:
$
P
\left
(
I, F
\right
)
\propto
e
^{
-
n I
\left
(
1
-
F
\right
)
}$}
;
}
\only
<6>
{
\node
[font=\small]
(specialisation) at (2,2)
{
specialisation:
$
P
\left
(
I, F
\right
)
\propto
e
^{
-
\sigma
\left
(
I
-
F
\right
)
^
2
}$}
;
}
\only
<7->
{
\node
[draw,minimum size=100]
at (-4,-2) (flower-patches)
{
\begin{tikzpicture}
\node
[circle,fill=flower_patch_green,minimum size=6,inner sep=0]
at (0.36,2.26)
{}
;
\node
[circle,fill=flower_patch_purple,minimum size=6,inner sep=0]
at (0.68,1.32)
{}
;
\node
[circle,fill=flower_patch_purple,minimum size=6,inner sep=0]
at (1.74,2.11)
{}
;
\node
[circle,fill=flower_patch_purple,minimum size=6,inner sep=0]
at (1.16,2.04)
{}
;
\node
[circle,fill=flower_patch_green,minimum size=6,inner sep=0]
at (0.61,2.52)
{}
;
\node
[circle,fill=flower_patch_red,minimum size=6,inner sep=0]
at (0.08,0.07)
{}
;
\node
[circle,fill=flower_patch_purple,minimum size=6,inner sep=0]
at (2.51,1.02)
{}
;
\node
[circle,fill=flower_patch_purple,minimum size=6,inner sep=0]
at (1.13,0.08)
{}
;
\node
[circle,fill=flower_patch_purple,minimum size=6,inner sep=0]
at (1.17,1.32)
{}
;
\node
[circle,fill=flower_patch_purple,minimum size=6,inner sep=0]
at (0.62,0.58)
{}
;
\node
[circle,fill=flower_patch_green,minimum size=6,inner sep=0]
at (0.77,0.06)
{}
;
\node
[circle,fill=flower_patch_purple,minimum size=6,inner sep=0]
at (1.49,1.71)
{}
;
\node
[circle,fill=flower_patch_purple,minimum size=6,inner sep=0]
at (2.65,2.30)
{}
;
\node
[circle,fill=flower_patch_purple,minimum size=6,inner sep=0]
at (1.90,2.50)
{}
;
\node
[circle,fill=flower_patch_purple,minimum size=6,inner sep=0]
at (2.22,1.79)
{}
;
\node
[circle,fill=flower_patch_green,minimum size=6,inner sep=0]
at (1.57,2.36)
{}
;
\node
[circle,fill=flower_patch_green,minimum size=6,inner sep=0]
at (0.09,0.65)
{}
;
\node
[circle,fill=flower_patch_red,minimum size=6,inner sep=0]
at (1.11,0.46)
{}
;
\node
[circle,fill=flower_patch_purple,minimum size=6,inner sep=0]
at (1.88,1.80)
{}
;
\node
[circle,fill=flower_patch_purple,minimum size=6,inner sep=0]
at (2.08,1.39)
{}
;
\node
[circle,fill=flower_patch_blue,minimum size=6,inner sep=0]
at (0.12,1.88)
{}
;
\node
[circle,fill=flower_patch_purple,minimum size=6,inner sep=0]
at (1.58,1.05)
{}
;
\node
[circle,fill=flower_patch_green,minimum size=6,inner sep=0]
at (1.34,2.62)
{}
;
\node
[circle,fill=flower_patch_purple,minimum size=6,inner sep=0]
at (2.54,1.54)
{}
;
\node
[circle,fill=flower_patch_green,minimum size=6,inner sep=0]
at (2.56,0.02)
{}
;
\node
[circle,fill=flower_patch_green,minimum size=6,inner sep=0]
at (2.19,2.37)
{}
;
\node
[circle,fill=flower_patch_purple,minimum size=6,inner sep=0]
at (1.52,0.53)
{}
;
\node
[circle,fill=flower_patch_purple,minimum size=6,inner sep=0]
at (1.29,0.95)
{}
;
\node
[circle,fill=flower_patch_green,minimum size=6,inner sep=0]
at (0.47,1.56)
{}
;
\node
[circle,fill=flower_patch_green,minimum size=6,inner sep=0]
at (2.18,0.68)
{}
;
\end{tikzpicture}
}
;
\path
(flower-patches) edge[->,thick] node
{}
(model);
}
\only
<8>
{
\node
(weights) at (1,-3)
{
\begin{tikzpicture}
[scale=0.4]
\begin{axis}
[ybar,symbolic x coords=
{$
F
_
1
$
,
$
F
_
2
$
,
$
F
_
3
$
,
$
F
_
4
$}
,x tick style=
{
draw=none
}
,bar width=1.5cm,enlarge x limits=0.2]
\addplot
[fill=flower_patch_purple,bar shift=0]
coordinates
{
(
$
F
_
1
$
,8)
}
;
\addplot
[fill=flower_patch_red,bar shift=0]
coordinates
{
(
$
F
_
2
$
,2)
}
;
\addplot
[fill=flower_patch_green,bar shift=0]
coordinates
{
(
$
F
_
3
$
,4)
}
;
\addplot
[fill=flower_patch_blue,bar shift=0]
coordinates
{
(
$
F
_
4
$
,1)
}
;
\end{axis}
\end{tikzpicture}
}
;
}
\only
<9->
{
\node
[draw]
at (3,0) (contacts)
{
\includegraphics
[width=3cm]
{
bipartite
_
network
}}
;
\path
(model) edge[->,thick] node
{}
(contacts);
}
\end{tikzpicture}
\end{center}
\end{frame}
\begin{frame}
\begin{center}
\begin{tikzpicture}
\node
[inner sep=0]
(gis-data) at (0,0)
{
\includegraphics
[width=4cm]
{
gis
_
data
}}
;
\node
[inner sep=0,minimum size=150,draw]
(flower-patches) at (6,0)
{
\begin{tikzpicture}
\node
[circle,fill=flower_patch_green,minimum size=10,inner sep=0]
at (0.54,3.39)
{}
;
\node
[circle,fill=flower_patch_purple,minimum size=10,inner sep=0]
at (1.02,1.98)
{}
;
\node
[circle,fill=flower_patch_purple,minimum size=10,inner sep=0]
at (2.61,3.15)
{}
;
\node
[circle,fill=flower_patch_purple,minimum size=10,inner sep=0]
at (1.73,3.05)
{}
;
\node
[circle,fill=flower_patch_green,minimum size=10,inner sep=0]
at (0.92,3.78)
{}
;
\node
[circle,fill=flower_patch_red,minimum size=10,inner sep=0]
at (0.12,0.10)
{}
;
\node
[circle,fill=flower_patch_purple,minimum size=10,inner sep=0]
at (3.76,1.52)
{}
;
\node
[circle,fill=flower_patch_purple,minimum size=10,inner sep=0]
at (1.69,0.12)
{}
;
\node
[circle,fill=flower_patch_purple,minimum size=10,inner sep=0]
at (1.75,1.98)
{}
;
\node
[circle,fill=flower_patch_purple,minimum size=10,inner sep=0]
at (0.92,0.88)
{}
;
\node
[circle,fill=flower_patch_green,minimum size=10,inner sep=0]
at (1.16,0.09)
{}
;
\node
[circle,fill=flower_patch_purple,minimum size=10,inner sep=0]
at (2.23,2.57)
{}
;
\node
[circle,fill=flower_patch_purple,minimum size=10,inner sep=0]
at (3.97,3.44)
{}
;
\node
[circle,fill=flower_patch_purple,minimum size=10,inner sep=0]
at (2.84,3.75)
{}
;
\node
[circle,fill=flower_patch_purple,minimum size=10,inner sep=0]
at (3.32,2.68)
{}
;
\node
[circle,fill=flower_patch_green,minimum size=10,inner sep=0]
at (2.35,3.53)
{}
;
\node
[circle,fill=flower_patch_green,minimum size=10,inner sep=0]
at (0.14,0.97)
{}
;
\node
[circle,fill=flower_patch_red,minimum size=10,inner sep=0]
at (1.66,0.69)
{}
;
\node
[circle,fill=flower_patch_purple,minimum size=10,inner sep=0]
at (2.81,2.70)
{}
;
\node
[circle,fill=flower_patch_purple,minimum size=10,inner sep=0]
at (3.11,2.08)
{}
;
\node
[circle,fill=flower_patch_blue,minimum size=10,inner sep=0]
at (0.17,2.81)
{}
;
\node
[circle,fill=flower_patch_purple,minimum size=10,inner sep=0]
at (2.37,1.57)
{}
;
\node
[circle,fill=flower_patch_green,minimum size=10,inner sep=0]
at (2.01,3.93)
{}
;
\node
[circle,fill=flower_patch_purple,minimum size=10,inner sep=0]
at (3.81,2.31)
{}
;
\node
[circle,fill=flower_patch_green,minimum size=10,inner sep=0]
at (3.83,0.02)
{}
;
\node
[circle,fill=flower_patch_green,minimum size=10,inner sep=0]
at (3.28,3.54)
{}
;
\node
[circle,fill=flower_patch_purple,minimum size=10,inner sep=0]
at (2.28,0.80)
{}
;
\node
[circle,fill=flower_patch_purple,minimum size=10,inner sep=0]
at (1.94,1.43)
{}
;
\node
[circle,fill=flower_patch_green,minimum size=10,inner sep=0]
at (0.71,2.34)
{}
;
\node
[circle,fill=flower_patch_green,minimum size=10,inner sep=0]
at (3.27,1.02)
{}
;
\end{tikzpicture}
}
;
\path
(gis-data) edge[->,very thick] node[midway,above]
{
\huge
?
}
(flower-patches);
\end{tikzpicture}
\end{center}
\end{frame}
\begin{frame}
\end{frame}
\end{document}
documents/eunis/flower_patches.py
0 → 100644
View file @
bcce6b77
import
math
as
m
import
random
as
r
count
=
30
scale
=
2.67
# scale = 4
min_distance_2
=
0.0125
*
scale
**
2
size
=
m
.
floor
(
2.5
*
scale
)
colors
=
[
"purple"
,
"red"
,
"green"
,
"blue"
]
weights
=
[
8
,
2
,
4
,
1
]
r
.
seed
(
1
)
positions
=
[]
for
_
in
range
(
count
):
collision
=
True
while
collision
:
position
=
(
r
.
random
()
*
scale
,
r
.
random
()
*
scale
)
for
position1
in
positions
:
distance_2
=
(
position
[
0
]
-
position1
[
0
])
**
2
+
(
position
[
1
]
-
position1
[
1
]
)
**
2
if
distance_2
<
min_distance_2
:
break
else
:
collision
=
False
positions
.
append
(
position
)
[
color
]
=
r
.
choices
(
colors
,
weights
=
weights
)
print
(
f
"
\\
node[circle,fill=flower_patch_
{
color
}
,minimum size=
{
size
:
.
0
f
}
,inner sep=0] at (
{
position
[
0
]
:
.
2
f
}
,
{
position
[
1
]
:
.
2
f
}
) {{}};"
)
documents/eunis/gis_data.png
0 → 100644
LFS
View file @
bcce6b77
131 Bytes
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