Black boxes surrounding EM nodes in Inkscape

BaderLab / EnrichmentMapApp

The EnrichmentMap Cytoscape App allows you to visualize the results of gene-set enrichment as a network.

http://apps.cytoscape.org/apps/enrichmentmap

GNU Lesser General Public License v2.1

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Black boxes surrounding EM nodes in Inkscape #367

Closed rosscm closed 5 years ago

rosscm commented 5 years ago

After grouping text box with EM nodes (created in v.3.6.1) in Inkscape, black boxes appear around every node. Screen Shot 2019-04-04 at 1 58 55 PM

risserlin commented 5 years ago

Did you import an svg or a pdf into inkscape? (I use autodesk graphic and I haven't seen this issue)

shraddhapai commented 5 years ago

I routinely export svg from Cytoscape into Inkscape and don't see these boxes.

On Thu, Apr 4, 2019 at 2:14 PM Ruth Isserlin notifications@github.com wrote:

Did you import an svg or a pdf into inkscape? (I use autodesk graphic and I haven't seen this issue)

— You are receiving this because you are subscribed to this thread. Reply to this email directly, view it on GitHub https://github.com/BaderLab/EnrichmentMapApp/issues/367#issuecomment-480006759, or mute the thread https://github.com/notifications/unsubscribe-auth/AHJ6AnCrejTzZ0URduk9aHG-3dYpZDwEks5vdkEMgaJpZM4cdYIg .

rosscm commented 5 years ago

I imported an svg

risserlin commented 5 years ago

@shraddhapai do you group text boxes with nodes? The grouping is probably including some underlying additional layer. Cytoscape exports many layers. I try and remove some of them right off the bat so they don't cause issues later.
What is the purpose of the grouping?

rosscm commented 5 years ago

The grouping was to for me to move the text and EM cluster together - even after ungrouping this square layer remains visible. I will look through the inkscape help forum to resolve. Thanks Ruth