Ortho edges and ports - a partial work-around

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1

The ortho edge implementation does not handle ports (see Regarding graphviz's "orthogonal" edge routing - #2 by steveroush, [Dot] orthogonal edges in dot (#352) · Issues · graphviz / graphviz · GitLab, or spline = ortho produces unexpected output with ports (#1415) · Issues · graphviz / graphviz · GitLab)

Here is a link (Graphviz: fixOrtho - a work-around to allow ortho edges to connect to ports · GitHub) to a gvpr program that will often allow ortho edges to connect to ports.
It is easy, but not trivial to use:

  1. run dot -Gsplines=true myFile.gv > myFile.dot (Use any layout engine. This will position all the nodes and ports)
  2. run gvpr -cf fixOrtho.gvpr myFile.dot >myfileFixed.dot (This adds nodes and edges and alters existing edges)
  3. run neato -n -Tpng myFileFixed.dot >myfileFixed.png (Creates viewable image)

Note: the commands above can also be run as a single pipeline.

This is modestly tested software (surprisingly complex). Please try it and comment on the gist page. If/when it settles down, it can become part of the Graphviz package it that is desired, though I consider this a temporary “fix”.

Here are three versions of the ports.gv file that is included in the Graphviz source. (The red edge components are just to show the changes)

ports.montage
ports.montage1315×1213 87.1 KB

4 Likes
2

Hi @steveroush,

I am currently trying to plot a fairly large graph (100s of nodes) and later a larger graph (1000s of nodes). The graph has been partitioned into a 3x3 grid and merged back together using gvpack and some postprocessing though a Python script.

The merged result for a reduced complexity example with only 27 nodes is as follows:

pack_ext.dot:
[dot verbose=true engine=nop2]

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[/dot]

(Edit: [dot] tag doesn’t seem to work draw edges between subgraphs so here is an image of the graph)

image
image2630×1153 130 KB

I am now trying to use your code to get orthogonal edges that connect to the ports.

I adapted your steps as follows:

neato -n2 -Gsplines=true pack_ext.dot > tmp.dot
gvpr -cf fixOrtho.gvpr tmp.dot > tmp2.dot
neato -n -Tsvg tmp2.dot > pack.svg

However, I get the following error on the last step:

Warning: the bounding boxes of some nodes touch - falling back to straight line edges

I would be very grateful for any suggestions on how to address this.

Many thanks,
Tim

3

I can’t find a way to extract your source. Could you embed it within 3 backticks (`) above & below. Like so

source code here

My guess is that you need a larger margin inside the clusters.
But just a guess until I can test with the source.

4

It rendered fine after a page reload. I took the liberty to add the option verbose=true so the code became visible.

2 Likes
5

Thanks Magnus :slightly_smiling_face:

6

Thanks so much for getting back to me and so quickly :slightly_smiling_face:

After Magnus’s edit the source code should now be visible.

I have tried setting large margins, but it didn’t seem to help.

Now, I did get it to draw after changing the last step to:

neato -n -Goverlap=scale -Tsvg tmp2.dot > pack.svg

However, the problem I am now having is that the bounding boxes don’t scale with the subgraphs:

image
image1949×773 52.9 KB

I can increase the margins of subgraphs, but I don’t know how to set a good value other than by trial-and-error and it gives me a lot of unused white space:

image
image1464×1121 32.2 KB

Any ideas on how to fix this?

7

I can’t work on images (just source files), but:

  • try wrapping this subgraph around all your clusters
{ margin=30     //  units = pt  probably more than needed
        // your subgraphs go here
}
  • add ranksep=“.8” // units = inches probably more than needed
  • setting overlap will probably never work, seems to get neato confused
8

Hi @steveroush,

I have now tried this, but I am not sure if I did it right. I still get the warning about touching bounding boxes.

Here is my updated source file:

digraph root {
	graph [bb="0,0,2482,1903",
		rankdir=LR
		ranksep="0.8"
	];
	node [label="{<left> | \N | <right>}",
		shape=record
	];
	{ margin=30
		subgraph G {
			graph [bb="",
				color="",
				label="",
				lheight="",
				lp="",
				lwidth="",
				margin="",
				penwidth="",
				rankdir=LR,
				shape="",
				sortv=""
			];
			node [height="",
				label="{<left> | \N | <right>}",
				pos="",
				rects="",
				shape=record,
				width=""
			];
			edge [headport="",
				pos="",
				tailport=""
			];
			subgraph cluster_r0c0 {
				graph [bb="0,1274,822,1903",
					color=blue,
					label="(R:0, C:0)",
					lheight=0.21,
					lp="411,1891.5",
					lwidth=0.94,
					margin=256,
					penwidth=2.0,
					rankdir=LR,
					shape=rectangle,
					sortv=0
				];
				node [height="",
					label="{<left> | \N | <right>}",
					pos="",
					rects="",
					shape=record,
					width=""
				];
				edge [headport="",
					pos="",
					tailport=""
				];
				r0c0_A	[height=0.55556,
					pos="325,1605",
					rects="256.5,1585.5,287.5,1624.5 287.5,1585.5,362.5,1624.5 362.5,1585.5,393.5,1624.5",
					width=1.9028];
				r0c0_C	[height=0.55556,
					pos="498,1577",
					rects="429.5,1557.5,459.5,1596.5 459.5,1557.5,535.5,1596.5 535.5,1557.5,566.5,1596.5",
					width=1.9028];
				r0c0_A:right -> r0c0_C:left	[pos="e,429,1577 393,1605 409.15,1605 409.55,1587.2 419.3,1580"];
				r0c0_B	[height=0.55556,
					pos="325,1549",
					rects="256.5,1529.5,286.5,1568.5 286.5,1529.5,362.5,1568.5 362.5,1529.5,393.5,1568.5",
					width=1.9028];
				r0c0_B:right -> r0c0_C:left	[pos="e,429,1577 393,1549 409.15,1549 409.55,1566.8 419.3,1574"];
			}
		}
		subgraph G_gv1 {
			graph [bb="",
				color="",
				label="",
				lheight="",
				lp="",
				lwidth="",
				margin="",
				penwidth="",
				rankdir=LR,
				shape="",
				sortv=""
			];
			node [height="",
				label="{<left> | \N | <right>}",
				pos="",
				rects="",
				shape=record,
				width=""
			];
			edge [headport="",
				pos="",
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			subgraph cluster_r0c1 {
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					color=blue,
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					lp="1241,1891.5",
					lwidth=0.94,
					margin=256,
					penwidth=2.0,
					rankdir=LR,
					shape=rectangle,
					sortv=1
				];
				node [height="",
					label="{<left> | \N | <right>}",
					pos="",
					rects="",
					shape=record,
					width=""
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				edge [headport="",
					pos="",
					tailport=""
				];
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					pos="1155,1605",
					rects="1086.5,1585.5,1117.5,1624.5 1117.5,1585.5,1192.5,1624.5 1192.5,1585.5,1223.5,1624.5",
					width=1.9028];
				r0c1_C	[height=0.55556,
					pos="1327,1577",
					rects="1258.5,1557.5,1288.5,1596.5 1288.5,1557.5,1364.5,1596.5 1364.5,1557.5,1395.5,1596.5",
					width=1.9028];
				r0c1_A:right -> r0c1_C:left	[pos="e,1259,1577 1223,1605 1239.2,1605 1239.5,1587.2 1249.3,1580"];
				r0c1_B	[height=0.55556,
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					rects="1086.5,1529.5,1116.5,1568.5 1116.5,1529.5,1192.5,1568.5 1192.5,1529.5,1223.5,1568.5",
					width=1.9028];
				r0c1_B:right -> r0c1_C:left	[pos="e,1259,1577 1223,1549 1239.2,1549 1239.5,1566.8 1249.3,1574"];
			}
		}
		subgraph G_gv2 {
			graph [bb="",
				color="",
				label="",
				lheight="",
				lp="",
				lwidth="",
				margin="",
				penwidth="",
				rankdir=LR,
				shape="",
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				label="{<left> | \N | <right>}",
				pos="",
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				shape=record,
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			];
			edge [headport="",
				pos="",
				tailport=""
			];
			subgraph cluster_r0c2 {
				graph [bb="1660,1274,2482,1903",
					color=blue,
					label="(R:0, C:2)",
					lheight=0.21,
					lp="2071,1891.5",
					lwidth=0.94,
					margin=256,
					penwidth=2.0,
					rankdir=LR,
					shape=rectangle,
					sortv=2
				];
				node [height="",
					label="{<left> | \N | <right>}",
					pos="",
					rects="",
					shape=record,
					width=""
				];
				edge [headport="",
					pos="",
					tailport=""
				];
				r0c2_A	[height=0.55556,
					pos="1985,1605",
					rects="1916.5,1585.5,1947.5,1624.5 1947.5,1585.5,2022.5,1624.5 2022.5,1585.5,2053.5,1624.5",
					width=1.9028];
				r0c2_C	[height=0.55556,
					pos="2158,1577",
					rects="2089.5,1557.5,2119.5,1596.5 2119.5,1557.5,2195.5,1596.5 2195.5,1557.5,2226.5,1596.5",
					width=1.9028];
				r0c2_A:right -> r0c2_C:left	[pos="e,2089,1577 2053,1605 2069.2,1605 2069.6,1587.2 2079.3,1580"];
				r0c2_B	[height=0.55556,
					pos="1985,1549",
					rects="1916.5,1529.5,1946.5,1568.5 1946.5,1529.5,2022.5,1568.5 2022.5,1529.5,2053.5,1568.5",
					width=1.9028];
				r0c2_B:right -> r0c2_C:left	[pos="e,2089,1577 2053,1549 2069.2,1549 2069.6,1566.8 2079.3,1574"];
			}
		}
		subgraph G_gv3 {
			graph [bb="",
				color="",
				label="",
				lheight="",
				lp="",
				lwidth="",
				margin="",
				penwidth="",
				rankdir=LR,
				shape="",
				sortv=""
			];
			node [height="",
				label="{<left> | \N | <right>}",
				pos="",
				rects="",
				shape=record,
				width=""
			];
			edge [headport="",
				pos="",
				tailport=""
			];
			subgraph cluster_r1c0 {
				graph [bb="0,637,822,1266",
					color=blue,
					label="(R:1, C:0)",
					lheight=0.21,
					lp="411,1254.5",
					lwidth=0.94,
					margin=256,
					penwidth=2.0,
					rankdir=LR,
					shape=rectangle,
					sortv=3
				];
				node [height="",
					label="{<left> | \N | <right>}",
					pos="",
					rects="",
					shape=record,
					width=""
				];
				edge [headport="",
					pos="",
					tailport=""
				];
				r1c0_A	[height=0.55556,
					pos="325,968",
					rects="256.5,948.5,287.5,987.5 287.5,948.5,362.5,987.5 362.5,948.5,393.5,987.5",
					width=1.9028];
				r1c0_C	[height=0.55556,
					pos="498,940",
					rects="429.5,920.5,459.5,959.5 459.5,920.5,535.5,959.5 535.5,920.5,566.5,959.5",
					width=1.9028];
				r1c0_A:right -> r1c0_C:left	[pos="e,429,940 393,968 409.15,968 409.55,950.22 419.3,943"];
				r1c0_B	[height=0.55556,
					pos="325,912",
					rects="256.5,892.5,286.5,931.5 286.5,892.5,362.5,931.5 362.5,892.5,393.5,931.5",
					width=1.9028];
				r1c0_B:right -> r1c0_C:left	[pos="e,429,940 393,912 409.15,912 409.55,929.78 419.3,937"];
			}
		}
		subgraph G_gv4 {
			graph [bb="",
				color="",
				label="",
				lheight="",
				lp="",
				lwidth="",
				margin="",
				penwidth="",
				rankdir=LR,
				shape="",
				sortv=""
			];
			node [height="",
				label="{<left> | \N | <right>}",
				pos="",
				rects="",
				shape=record,
				width=""
			];
			edge [headport="",
				pos="",
				tailport=""
			];
			subgraph cluster_r1c1 {
				graph [bb="830,637,1652,1266",
					color=blue,
					label="(R:1, C:1)",
					lheight=0.21,
					lp="1241,1254.5",
					lwidth=0.94,
					margin=256,
					penwidth=2.0,
					rankdir=LR,
					shape=rectangle,
					sortv=4
				];
				node [height="",
					label="{<left> | \N | <right>}",
					pos="",
					rects="",
					shape=record,
					width=""
				];
				edge [headport="",
					pos="",
					tailport=""
				];
				r1c1_A	[height=0.55556,
					pos="1155,968",
					rects="1086.5,948.5,1117.5,987.5 1117.5,948.5,1192.5,987.5 1192.5,948.5,1223.5,987.5",
					width=1.9028];
				r1c1_C	[height=0.55556,
					pos="1327,940",
					rects="1258.5,920.5,1288.5,959.5 1288.5,920.5,1364.5,959.5 1364.5,920.5,1395.5,959.5",
					width=1.9028];
				r1c1_A:right -> r1c1_C:left	[pos="e,1259,940 1223,968 1239.2,968 1239.5,950.22 1249.3,943"];
				r1c1_B	[height=0.55556,
					pos="1155,912",
					rects="1086.5,892.5,1116.5,931.5 1116.5,892.5,1192.5,931.5 1192.5,892.5,1223.5,931.5",
					width=1.9028];
				r1c1_B:right -> r1c1_C:left	[pos="e,1259,940 1223,912 1239.2,912 1239.5,929.78 1249.3,937"];
			}
		}
		subgraph G_gv5 {
			graph [bb="",
				color="",
				label="",
				lheight="",
				lp="",
				lwidth="",
				margin="",
				penwidth="",
				rankdir=LR,
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			];
			node [height="",
				label="{<left> | \N | <right>}",
				pos="",
				rects="",
				shape=record,
				width=""
			];
			edge [headport="",
				pos="",
				tailport=""
			];
			subgraph cluster_r1c2 {
				graph [bb="1660,637,2482,1266",
					color=blue,
					label="(R:1, C:2)",
					lheight=0.21,
					lp="2071,1254.5",
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					penwidth=2.0,
					rankdir=LR,
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					pos="2158,940",
					rects="2089.5,920.5,2119.5,959.5 2119.5,920.5,2195.5,959.5 2195.5,920.5,2226.5,959.5",
					width=1.9028];
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					width=1.9028];
				r1c2_B:right -> r1c2_C:left	[pos="e,2089,940 2053,912 2069.2,912 2069.6,929.78 2079.3,937"];
			}
		}
		subgraph G_gv6 {
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				lheight="",
				lp="",
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			];
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					label="(R:2, C:0)",
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					pos="",
					tailport=""
				];
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					pos="325,331",
					rects="256.5,311.5,287.5,350.5 287.5,311.5,362.5,350.5 362.5,311.5,393.5,350.5",
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					pos="498,303",
					rects="429.5,283.5,459.5,322.5 459.5,283.5,535.5,322.5 535.5,283.5,566.5,322.5",
					width=1.9028];
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			}
		}
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					width=1.9028];
				r2c1_B:right -> r2c1_C:left	[pos="e,1259,303 1223,275 1239.2,275 1239.5,292.78 1249.3,300"];
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		}
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			}
		}
	}
    r0c0_C:right -> r1c2_A:left;
    r1c0_B:right -> r2c0_C:left;
    r2c0_A:right -> r1c0_B:left;
    r0c1_B:right -> r0c2_C:left;
    r1c1_A:right -> r0c1_C:left;
    r2c1_B:right -> r0c0_A:left;
    r0c2_C:right -> r1c2_B:left;
    r1c2_B:right -> r1c1_A:left;
    r2c2_B:right -> r1c1_B:left;
}

Many thanks.

Tim

9
  • you can remove the { margin=30 and matching } they are overridden by the margin=256,
  • Change margin=256, to something like margin=30
  • the 9 subgraphs subgraph G subgraph G_gv1 … subgraph G_gv8 do not do anything. The cluster subgraphs override them. I’d remove them.
  • Maybe use HTML labels instead of Record labels. (Yes, pain in the butt.) Edges on the same rank (“flat edges”) cause errors if Records are involved:
Warning: flat edge between adjacent nodes one of which has a record shape - replace records with HTML-like labels
  Edge r1c0_B -> r2c0_C
Error: lost r1c0_B r2c0_C edge
  • Has the above gv file been captured before or after running gvpack?
  • will you share the gvpack command line?