Edge-Node overlap in JSON format

[Drakae]

Describe the bug
An edge is routed through a node leading to a node-edge overlap. This only happens in the JSON format and not with the ELKT format.
Graph showing the problem is in the comments because it is too big for this issue and for a link to elklive.

Expected behavior
No node-edge overlap.

Screenshots
Edge overlaps with the node "SC1"

ELK Version
JSON 0.9.3
ELKT 0.9.1

[Drakae]

Graph showing the problem

{
    "id": "root",
    "layoutOptions": {
        "org.eclipse.elk.partitioning.activate": "true",
        "org.eclipse.elk.direction": "DOWN"
    },
    "children": [
        {
            "id": "relationships",
            "layoutOptions": {
                "org.eclipse.elk.layered.thoroughness": "70",
                "org.eclipse.elk.partitioning.activate": "true",
                "org.eclipse.elk.direction": "UP",
                "org.eclipse.elk.layered.nodePlacement.strategy": "NETWORK_SIMPLEX",
                "org.eclipse.elk.layered.nodePlacement.networkSimplex.nodeFlexibility.default": "NODE_SIZE",
                "org.eclipse.elk.spacing.portPort": "10",
                "org.eclipse.elk.spacing.portsSurrounding": "[top=10.0,left=10.0,bottom=10.0,right=10.0]",
                "org.eclipse.elk.priority": "0",
                "org.eclipse.elk.layered.considerModelOrder.strategy": "NODES_AND_EDGES",
                "org.eclipse.elk.layered.crossingMinimization.forceNodeModelOrder": "true",
                "org.eclipse.elk.separateConnectedComponents": "false"
            },
            "children": [
                {
                    "id": "L1",
                    "layoutOptions": {
                        "org.eclipse.elk.alignment": "CENTER",
                        "org.eclipse.elk.nodeLabels.placement": "INSIDE V_CENTER H_CENTER",
                        "org.eclipse.elk.partitioning.partition": "0",
                        "org.eclipse.elk.portConstraints": "FIXED_SIDE",
                        "org.eclipse.elk.nodeSize.constraints": "NODE_LABELS"
                    },
                    "children": [],
                    "edges": [],
                    "labels": [
                        {
                            "id": "L1_label",
                            "text": "L1",
                            "x": 10,
                            "y": 10,
                            "width": 14.466145515441895,
                            "height": 14.166666030883789
                        }
                    ],
                    "ports": [
                        {
                            "id": "H1_L1_newTransition",
                            "layoutOptions": {
                                "org.eclipse.elk.port.side": "SOUTH"
                            },
                            "x": 0,
                            "y": 0,
                            "width": 0,
                            "height": 0
                        },
                        {
                            "id": "H2_L1_newTransition",
                            "layoutOptions": {
                                "org.eclipse.elk.port.side": "SOUTH"
                            },
                            "x": 0,
                            "y": 0,
                            "width": 0,
                            "height": 0
                        },
                        {
                            "id": "H3_L1_newTransition",
                            "layoutOptions": {
                                "org.eclipse.elk.port.side": "SOUTH"
                            },
                            "x": 0,
                            "y": 0,
                            "width": 0,
                            "height": 0
                        },
                        {
                            "id": "H4_L1_newTransition",
                            "layoutOptions": {
                                "org.eclipse.elk.port.side": "SOUTH"
                            },
                            "x": 0,
                            "y": 0,
                            "width": 0,
                            "height": 0
                        },
                        {
                            "id": "H5_L1_newTransition",
                            "layoutOptions": {
                                "org.eclipse.elk.port.side": "SOUTH"
                            },
                            "x": 0,
                            "y": 0,
                            "width": 0,
                            "height": 0
                        },
                        {
                            "id": "H6_L1_newTransition",
                            "layoutOptions": {
                                "org.eclipse.elk.port.side": "SOUTH"
                            },
                            "x": 0,
                            "y": 0,
                            "width": 0,
                            "height": 0
                        },
                        {
                            "id": "H7_L1_newTransition",
                            "layoutOptions": {
                                "org.eclipse.elk.port.side": "SOUTH"
                            },
                            "x": 0,
                            "y": 0,
                            "width": 0,
                            "height": 0
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                    ],
                    "width": 34.466145515441895,
                    "height": 34.16666603088379
                },
                {
                    "id": "L2",
                    "layoutOptions": {
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                        "org.eclipse.elk.nodeLabels.placement": "INSIDE V_CENTER H_CENTER",
                        "org.eclipse.elk.partitioning.partition": "0",
                        "org.eclipse.elk.portConstraints": "FIXED_SIDE",
                        "org.eclipse.elk.nodeSize.constraints": "NODE_LABELS"
                    },
                    "children": [],
                    "edges": [],
                    "labels": [
                        {
                            "id": "L2_label",
                            "text": "L2",
                            "x": 10,
                            "y": 10,
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                    ],
                    "ports": [
                        {
                            "id": "H1_L2_newTransition",
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                                "org.eclipse.elk.port.side": "SOUTH"
                            },
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                            "y": 0,
                            "width": 0,
                            "height": 0
                        },
                        {
                            "id": "H2_L2_newTransition",
                            "layoutOptions": {
                                "org.eclipse.elk.port.side": "SOUTH"
                            },
                            "x": 0,
                            "y": 0,
                            "width": 0,
                            "height": 0
                        },
                        {
                            "id": "H3_L2_newTransition",
                            "layoutOptions": {
                                "org.eclipse.elk.port.side": "SOUTH"
                            },
                            "x": 0,
                            "y": 0,
                            "width": 0,
                            "height": 0
                        },
                        {
                            "id": "H4_L2_newTransition",
                            "layoutOptions": {
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                            },
                            "x": 0,
                            "y": 0,
                            "width": 0,
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                        {
                            "id": "H5_L2_newTransition",
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                            },
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                        },
                        {
                            "id": "H6_L2_newTransition",
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                            },
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                            "id": "H7_L2_newTransition",
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                            "width": 0,
                            "height": 0
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                    ],
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                {
                    "id": "H1",
                    "layoutOptions": {
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                        "org.eclipse.elk.nodeLabels.placement": "INSIDE V_CENTER H_CENTER",
                        "org.eclipse.elk.partitioning.partition": "-1",
                        "org.eclipse.elk.portConstraints": "FIXED_SIDE",
                        "org.eclipse.elk.nodeSize.constraints": "NODE_LABELS"
                    },
                    "children": [],
                    "edges": [],
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                        {
                            "id": "H1_label",
                            "text": "H1",
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                            "y": 10,
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                            "x": 0,
                            "y": 0,
                            "width": 0,
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                        {
                            "id": "SC1_H1_newTransition",
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                            },
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                            "y": 0,
                            "width": 0,
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                        {
                            "id": "UCA3_H1_newTransition",
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                            },
                            "x": 0,
                            "y": 0,
                            "width": 0,
                            "height": 0
                        },
                        {
                            "id": "Scenario5_H1_newTransition",
                            "layoutOptions": {
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                            },
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                    ],
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                {
                    "id": "H2",
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                        "org.eclipse.elk.nodeLabels.placement": "INSIDE V_CENTER H_CENTER",
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                        {
                            "id": "H2_label",
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                            "id": "UCA6_H2_newTransition",
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                            },
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                            "id": "Scenario6_H2_newTransition",
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                    "id": "H3",
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                        "org.eclipse.elk.nodeLabels.placement": "INSIDE V_CENTER H_CENTER",
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                            "width": 0,
                            "height": 0
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                    ],
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                {
                    "id": "H4",
                    "layoutOptions": {
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                        "org.eclipse.elk.nodeLabels.placement": "INSIDE V_CENTER H_CENTER",
                        "org.eclipse.elk.partitioning.partition": "-1",
                        "org.eclipse.elk.portConstraints": "FIXED_SIDE",
                        "org.eclipse.elk.nodeSize.constraints": "NODE_LABELS"
                    },
                    "children": [],
                    "edges": [],
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                        {
                            "id": "H4_label",
                            "text": "H4",
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                    "ports": [
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                            "id": "SC4_H4_newTransition",
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                        "org.eclipse.elk.portConstraints": "FIXED_SIDE",
                        "org.eclipse.elk.nodeSize.constraints": "NODE_LABELS"
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                    "edges": [],
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                    "id": "H6",
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                        "org.eclipse.elk.nodeLabels.placement": "INSIDE V_CENTER H_CENTER",
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                        "org.eclipse.elk.portConstraints": "FIXED_SIDE",
                        "org.eclipse.elk.nodeSize.constraints": "NODE_LABELS"
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                            "id": "H6_label",
                            "text": "H6",
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                },
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                    "id": "R1_SC1",
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                    "id": "UCA2_H6",
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                {
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                },
                {
                    "id": "UCA6_H2",
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                    ],
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                },
                {
                    "id": "UCA6_H3",
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                    ],
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                },
                {
                    "id": "UCA1_H7",
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                        "UCA1_outPort"
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                        "UCA1_H7_newTransition"
                    ],
                    "labels": []
                },
                {
                    "id": "UCA3_H1",
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                        "UCA3_outPort"
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                    "targets": [
                        "UCA3_H1_newTransition"
                    ],
                    "labels": []
                },
                {
                    "id": "UCA4_H7",
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                        "UCA4_outPort"
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                        "UCA4_H7_newTransition"
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                },
                {
                    "id": "UCA8_H6",
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                    "labels": []
                },
                {
                    "id": "UCA8_H7",
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                        "UCA8_outPort"
                    ],
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                        "UCA8_H7_newTransition"
                    ],
                    "labels": []
                },
                {
                    "id": "UCA7_H6",
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                        "UCA7_outPort"
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                    ],
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                },
                {
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                },
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                },
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                },
                {
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                },
                {
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                },
                {
                    "id": "C5_UCA5",
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                    ],
                    "targets": [
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                },
                {
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                },
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                    "id": "Scenario1_UCA1",
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                    ],
                    "targets": [
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                },
                {
                    "id": "Scenario2_UCA3",
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                    ],
                    "targets": [
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                    "labels": []
                },
                {
                    "id": "Scenario3_UCA7",
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                    "targets": [
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                },
                {
                    "id": "Scenario4_UCA2",
                    "sources": [
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                    ],
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                    ],
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                },
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                    "targets": [
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                    ],
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                },
                {
                    "id": "Scenario6_H2",
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                    ],
                    "targets": [
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                    ],
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                },
                {
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                        "Scenario7_outPort"
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                    "targets": [
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}

[skieffer]

Are you getting the following layout when you use ELKT?

I tried auto-translating the given JSON into ELKT, and that's what I got.

What's interesting to me is that the layout is different in many ways, not just in the one node-edge crossing.
In fact, it's a different graph:

• All edges use ports (none in the JSON version)
• Nodes are different sizes. In particular node UCA4 is quite long in the ELKT version. This is one thing that could lead
  to a different layout. (And a different layout could remove a node-edge crossing just by chance.)

[skieffer]

Also @Drakae , maybe consider putting the JSON into a <details> section to make this page easier to read.

https://docs.github.com/en/get-started/writing-on-github/working-with-advanced-formatting/organizing-information-with-collapsed-sections

[soerendomroes]

@skieffer The json above also uses ports but they have a smaller size per default. But apparently this is not the issue @Drakae is facing, so I asked her to create an issue.

[Drakae]

Originally, I set the size of the ports to (5,5). However, when using Sprotty the size is not applied if it is not used for rendering the ports. That is why this resulted in size (0,0) in the provided JSON graph. Changing this to (1,1) solves the problem.

[soerendomroes]

@Drakae do you think the bug is a result of the node flexibility option?

[Drakae]

@Drakae do you think the bug is a result of the node flexibility option?

Could be, at least for the given diagram deleting the option solves the problem.