From c519b163b9b69835affeed1c7cbc62bb73d7a9cc Mon Sep 17 00:00:00 2001
From: Michal Adamczyk <madamczyk@palantir.com>
Date: Fri, 15 Sep 2017 14:33:08 +0200
Subject: [PATCH] eertree examples

---
 examples/eertree-ex1.dot | 46 ++++++++++++++++++++++++++++++++++++++++
 examples/eertree-ex2.dot | 44 ++++++++++++++++++++++++++++++++++++++
 gen_figures.sh           |  3 +++
 3 files changed, 93 insertions(+)
 create mode 100644 examples/eertree-ex1.dot
 create mode 100644 examples/eertree-ex2.dot

diff --git a/examples/eertree-ex1.dot b/examples/eertree-ex1.dot
new file mode 100644
index 0000000..255756d
--- /dev/null
+++ b/examples/eertree-ex1.dot
@@ -0,0 +1,46 @@
+digraph G {
+    size="6,6" ;
+    splines=true ; 
+    0:sw -> bb:nw [label="  b  "] ;
+
+    -1 -> a [label="  a  "] ;
+    -1 -> b [label="  b  "] ;
+    -1 -> c [label="  c   "] ;
+
+    b -> cbc [label="  c  "] ;
+    c -> bcb [label="  b  "] ;
+    cbc -> bcbcb [label="  b  "] ; 
+    bcbcb -> bbcbcbb [label="  b  "] ;
+    bbcbcbb-> abbcbcbba [label="  a  "] ;
+
+    0 -> -1 [style="dashed", color="blue", constraint=false] ;
+    -1:ne -> -1:nw [style="dashed", color="blue", constraint=false] ;
+    a -> 0 [style="dashed", color="blue", constraint=false] ;
+    b -> 0 [style="dashed", color="blue", constraint=false] ; 
+    c -> 0 [style="dashed", color="blue", constraint=false] ;
+    bb -> b [style="dashed", color="blue", constraint=false] ;
+    bcb -> b [style="dashed", color="blue", constraint=false] ;
+    cbc -> c [style="dashed", color="blue", constraint=false] ; 
+    bcbcb -> bcb [style="dashed", color="blue", constraint=false] ;
+    bbcbcbb -> bb [style="dashed", color="blue", constraint=false] ;
+    abbcbcbba -> a [style="dashed", color="blue", constraint=false] ;
+
+    bb -> 0 [style="dotted", color="red", dir=forward] ;
+    bcbcb:nw -> b [style="dotted", color="red"] ;
+
+    
+    -1 [ pos = "2,6!"] ;
+    0 [ pos = "0,6!"] ;
+    a [ pos = "1,5!"] ;
+    b [ pos = "2,5!"] ;
+    c [ pos = "3,5!"] ;
+    bb [ pos = "0,4!"] ;
+    cbc [ pos = "2,3!"] ;
+    bcb [ pos = "3,3!"] ;
+    bcbcb [ pos = "2,2!"] ;
+    bbcbcbb [ pos = "2,1!"] ;
+    abbcbcbba [ pos = "2,0!"] ;
+
+    sep=0.3 ; 
+    nodesep=0.3 ;
+}
diff --git a/examples/eertree-ex2.dot b/examples/eertree-ex2.dot
new file mode 100644
index 0000000..1ec610f
--- /dev/null
+++ b/examples/eertree-ex2.dot
@@ -0,0 +1,44 @@
+digraph G {
+    splines=true ; 
+    
+    0 -> GC [label=" C "]
+    0 -> CG [label=" G "]
+    0 -> TA [label="   A     "]
+    GC -> CGCG [label=" G "]
+    CGCG -> ACGCGT [label=" T "]
+    TA -> GTAC [label=" C "]
+    TA -> CTAG [label=" G   "]
+    CTAG -> ACTAGT [label=" T "]
+    
+    
+    GC:ne -> 0 [style="dashed", color="blue", constraint=false] ;
+    CG:n -> 0 [style="dashed", color="blue", constraint=false] ;
+    TA:n -> 0 [style="dashed", color="blue", constraint=false] ; 
+    GTAC:n -> 0 [style="dashed", color="blue", constraint=false] ;
+    CTAG -> 0 [style="dashed", color="blue", constraint=false] ;
+    ACGCGT:ne -> 0 [style="dashed", color="blue", constraint=false] ;
+    ACTAGT -> 0 [style="dashed", color="blue", constraint=false] ; 
+    CGCG -> CG [style="dashed", color="blue", constraint=false] ;
+
+    
+    0 -> -1 [style="dashed", color="blue", constraint=false] ;
+    -1:ne -> -1:nw [style="dashed", color="blue", constraint=false] ;
+
+    CGCG:nw -> 0 [style="dotted", color="red", constraint=false] ;
+
+
+    0 [ pos="1,4!" ];
+    -1 [ pos="2,4!" ];
+    CG [ pos="0,2!" ];
+    GC [ pos="1,2!" ];
+    TA [ pos="4,2!" ];
+    CGCG [ pos="1,1!" ];
+    GTAC [ pos="3,1!" ];
+    CTAG [ pos="5,1!" ];
+    ACGCGT [ pos="1,0!" ];
+    ACTAGT [ pos="4,0!" ];
+
+    sep=0.3 ; 
+    nodesep=0.3 ;
+
+}
diff --git a/gen_figures.sh b/gen_figures.sh
index a34adf3..3b09786 100644
--- a/gen_figures.sh
+++ b/gen_figures.sh
@@ -6,3 +6,6 @@
 ./all_pal_decomp_gaps_errors.x -d -L 5 -G 2 -E 2 -p < examples/ab286863.in | python drawDecomposition.py -d -E 2 -f not-maximal-all
 
 python ./drawDecomposition.py -d -E 1 < examples/vis-ex.in -f vis-ex
+
+cat examples/eertree-ex2.dot |  neato -Tpdf > eertree-ex2.pdf
+cat examples/eertree-ex1.dot |  neato -Tpdf > eertree-ex1.pdf