visualdataweb / webvowl Goto Github PK

Nice Software, but it would be great if we could pin property also in "pick & pin mode "

• Another color scheme for the coloring of external elements
• Maybe an option to choose first "color externals" and then between "same color" and "color gradient"

Details here: VisualDataWeb/OWL2VOWL#12 (comment)

Hi,

We want to use WebVOWL in AngularJS application, can you provide NPM packages?

I have a few problems and inquiries that I require assistance on.

Firstly, I am trying to edit the index file to have the correct dependency on the required scripts, as I have read the source code and there seems to be a few scripts that I cannot find them following their relative paths, therefore I am unsure as to whether they need to be modified or I need to drop these scripts into those paths from some other repository, the scripts that I am referring to are as follows:

• js/d3.min.js
• js/webvowl.js
• js/webvowl.app.js

Secondly, I would like my ontology(JSON file) to open by default upon opening the index file, and I was wondering how would I go around doing so?

Lastly, I am trying to add a feature which highlights/add some effects to the selected parent/sub class and its relevant classes (for example if there is a relationship between Class Animal and subclass Dog, and the user selects either 1, it will highlight both of them) or if the user selects a object property, it would highlight the domain and range class, so I was wondering which files/scripts should I be looking at to bring about these changes?

So far based on my initial testing, your visualization tool is the best & most interesting out there which fits my domain of work.

Thanks in advance and sorry for the long post 😄

Should be resolved in the future.

Sorry for opening an issue but I didn't know where to express my excitement. I looked at many network visualization projects. WebVOWL is by far the most sophisticated and comprehensive project I have seen so far. I can learn so much here.
Thank you for the great work :)

No hand cursor for some of the menu items. The cursor changes to a hand only in some cases - missing CSS link?

Some menu labels need small edits.

Copied from VisualDataWeb/OWL2VOWL#3

The OntoVibe property "dummyProperty" has the range "DisjointClass". However, it currently points to "owl:Thing". This might be because "dummyProperty" is equivalent to "equivalentObjectProperty", the latter having no range (hence "owl:Thing"). The correct range would be the intersection of the ranges of the properties (not the union). Hence, it is similar to a property with two ranges (in this case, one being owl:Thing).

I change the label, but it doesn't work

TODO

• Change set operator style
• Add anonymous style
• Multiline equivalent labels
• Change style for anonymous links
• Update CSS styles for SVG export
• Clarify direction of BowArrowLinks: (A: box on set operator)

The coloring of external elements should be activated by default (with option "same color").

• Pins can appear on non-pinnable properties (single properties between two nodes, like subclass)
• Datatypes can't be pinned (might be intended, although datatype properties can be pinned)
• Clicking on a node/property pins it, although only dragging should should cause it
• Pins disappear on applying filters or modes

Hi guys,

I've been trying to use the standard WebVOWL distribution (downloaded from http://vowl.visualdataweb.org/webvowl.html) with my own custom JSON files (generated from source ontologies by manually invoking owl2vowl), but am having no luck - I'm just getting the following error:

webvowl.app.js:formatted:841Uncaught Error: Cannot find module './ONTOLOGYNAME.json'.

I'm by no means a JS expert, but it appears that somewhere in the release process you end up with the default "demo" ontologies being hardcoded as modules into the webvowl.app.js file (see attached screenshot). Is this the intended behavior? If so, how would you recommend I go about visualising a pre-processed JSON file added manually to the data directory? Would I need to rebuild WebVOWL from source for every new such file being added?

The reasons for me attempting to do this is:

1. I want users to simply be able to select their ontology from the "Ontology" menu (which I will adapt to include the project ontologies) and not have to upload files by hand every time. Modifying just the the menu in the index.html file when a new ontology is added is a lot less work than rebuilding the whole WebVOWL project.

2. The ontologies in question are under NDA, so they cannot be published on a public IRI. Instead I'm intending to let the users run WebVOWL with a local basic http server (the built in SimpleHTTPServer in Python 2)

/Karl

A filter for object properties analogous to datatype properties. Adding this filter has the advantage that the visualization can be turned into a hierachical ontology view, showing only the inheritance structure of the ontology (if all filters but the solitary subclasses one are activated) and arranging it accordingly in the force-directed layout.

Since all labels (property or property + inverse) are nodes in the force layout, the performance decreased a bit.

This could be improved by removing labels, which have their position forced between two nodes (see in code), from the force layout.

Hi

What would I need to change to be able to color classes and subclasses with a different color. Is there a way to show individuals on the visualization. Thank you

I tried to visualize a custom ontology (using the online [demo][http://vowl.visualdataweb.org/webvowl/index.html]) by importing through the IRI (http://purl.obolibrary.org/obo/ro.owl) but unfortunately the import fails and links me to the OWL validator even though the OWL validator confirms that the ontology together with all imports are valid OWL 2 profile. I got the same failure when uploading the file from my computer.

Filtering, pausing and disabling the filter adds elements to the graph, which are not paused.

The default for the node collapsing filter seems to be the minimum of collapsing, 0 (zero). Is it possible to have the initial degree of node collapsing a different value than zero?

Thank you!

I am getting this error, Converter.php was not found. Please make sure that PHP is running, can you please provide the file and state the location where it should be placed.

I tried your application it is so cool, but i just could see my classes (after uploading my OWL ontology), is there anyway please so I can also see my instances ? (and ofc the relationships between them)

Looking forward to hearing from you

Regards

JSON (shortened)

{
    "type" : "owl:disjointUnionOf",
    "disjointUnion" : [ "class16", "class35" ]
}

Visual Element

Arrowheads are currently aligned with the inner circle border instead of the outer circle border (which would be correct).

Here's an example with SPDX 2.0 http://vowl.visualdataweb.org/webvowl/index.html#iri=http://spdx.org/rdf/terms/spdx-2-0-ontology.owl.xml

The central element is the SPDX Package class and it seems that the fact that it's named should Maybe the Union visual should be a small icon below the Title in the way that (external) is displayed below external classes?

PS: Amazing that this is now Open Source! It's great!

The color of the number changes from gray to black in the exported SVG

Hi, guys. Is it possible to embed this library to some div and render by demand, prohibit user upload ontology and visualize ontology programatically by demand and remove all nodes from screen? Is there any api for this library, documentation?
Thanks!

Ontology is trying to run a file convertor.php and the error message is "Server responded with a status of 405 (Method not allowed)"

But I could not find any PHP file in the current .git repository...

i.

i don't see converter.php, anywhere in the source code, can some one please help me on how to build this source code.

Sorry for opening a new issue but I don't know where to post this.

First, I must say that this is an awesome project. It helped me a lot to visualize my ontology on the web.

However, I need to modify it a little bit to add one more feature: When the ontology is opened for the first time, it should only display one or a few important nodes, and if user clicks on a node, it will then expand the graph to show more nodes that has direct link to that clicked node.

I am reading your code to understand and to be able to change it, but I must admit that it is a huge project and I really need your help to know where should I focus on.

Could you please spend some time to show me where should I read and modify the code to accomplish the task? I would be very grateful.

Thank you.

Hi Team,

How to get the full version of Web.app.js, i have minified version of web.app.js that too i have pulled from the following link. http://vowl.visualdataweb.org/webvowl/js/webvowl.app.js

How to get the full version of web.app.js.

owl:Nothing can be found in the visualization, but is missing in WebVOWL.

See here: http://vowl.visualdataweb.org/v2/#owlThing

The favicon is broken in the WAR file. Could be a bug of the framework (which could be hard to fix) or maybe just a problem with the favicon file. Try other favicons and see if the current VOWL favicon file is the problem.

Hello,
I'm using WebVOWL to visualize local ontologies. I have been pretty happy so far.
Now I want to improve workflow by directly opening my ontologies with one call.
Something like: firefox file:///.../webvowl/index.html#file=XYZ.json
What would be the easiest way to do this?

This should be a mode that can be activated on demand (initially, only one color should be used for all external elements, as it is now) - also see http://vowl.visualdataweb.org/v2/#externalElements

Each base URI is mapped to one of the colors.

We should first try a generic approach: https://github.com/mbostock/d3/wiki/Ordinal-Scales#colorbrewer

If this does not lead to a good result, we can use the color palette of 10 distinct colors provided by D3 (current external color can be replaced by the first color of the color palette, i.e., by #1f77b4): https://github.com/mbostock/d3/wiki/Ordinal-Scales#category10

We could also try a mixed approach, i.e., use the well-designed color palette for the first 10 colors and switch to the generic approach for colors 11 to n - or, alternatively, use directly the generic approach if there are more than 10 base URIs (and the color palette if there are less).

Let's try and see what looks and scales best.

TODO

• Handle greater base iri count than there are colors
• Pass baseIRI from OWL2VOWL to WebVOWL

Simple concatenation of all files isn't a good idea. If module A references module B it won't work because module B isn't declared yet.

The problem occurred e.g. in #6 (e5f5bcf). owl:Nothing should inherit from owl:Thing for less code redundancy, but it didn't work.

I'd be in particular quite fond of being able to hide items with a term_status: deprecated.

Hi,

I fetched the repository and then run sudo npm install, it installed 33 packages then stuck at this line

.
.
.
npm WARN engine [email protected]: wanted: {"node":">=0.12"} (current: {"node":"0.10.30","npm":"1.4.21"})
npm WARN engine [email protected]: wanted: {"node":">=0.12"} (current: {"node":"0.10.30","npm":"1.4.21"})
-
> [email protected] install /Users/cnytync/Hacking/tools/WebVOWL/node_modules/karma/node_modules/chokidar/node_modules/fsevents
> node-pre-gyp install --fallback-to-build

[fsevents] Success: "/Users/cnytync/Hacking/tools/WebVOWL/node_modules/karma/node_modules/chokidar/node_modules/fsevents/lib/binding/Release/node-v11-darwin-x64/fse.node" is installed via remote

> [email protected] install /Users/cnytync/Hacking/tools/WebVOWL/node_modules/webpack/node_modules/watchpack/node_modules/chokidar/node_modules/fsevents
> node-pre-gyp install --fallback-to-build

[fsevents] Success: "/Users/cnytync/Hacking/tools/WebVOWL/node_modules/webpack/node_modules/watchpack/node_modules/chokidar/node_modules/fsevents/lib/binding/Release/node-v11-darwin-x64/fse.node" is installed via remote

Then I canceled the npm installation and tried 'grunt' command then i got this error :

module.js:340
    throw err;
          ^
Error: Cannot find module 'inherits'
  at Function.Module._resolveFilename (module.js:338:15)
  at Function.Module._load (module.js:280:25)
  at Module.require (module.js:364:17)
  at require (module.js:380:17)
  at Object.<anonymous> (/Users/cnytync/Hacking/tools/WebVOWL/node_modules/grunt/node_modules/glob/glob.js:46:16)
  at Module._compile (module.js:456:26)
  at Object.Module._extensions..js (module.js:474:10)
  at Module.load (/Users/cnytync/Hacking/tools/WebVOWL/node_modules/grunt/node_modules/coffee-script/lib/coffee-script/register.js:45:36)
  at Function.Module._load (module.js:312:12)
  at Module.require (module.js:364:17)
  at require (module.js:380:17)
  at Object.<anonymous> (/Users/cnytync/Hacking/tools/WebVOWL/node_modules/grunt/lib/grunt/file.js:13:13)
  at Module._compile (module.js:456:26)
  at Object.Module._extensions..js (module.js:474:10)
  at Module.load (/Users/cnytync/Hacking/tools/WebVOWL/node_modules/grunt/node_modules/coffee-script/lib/coffee-script/register.js:45:36)
  at Function.Module._load (module.js:312:12)
  at Module.require (module.js:364:17)
  at require (module.js:380:17)
  at gRequire (/Users/cnytync/Hacking/tools/WebVOWL/node_modules/grunt/lib/grunt.js:14:24)
  at Object.<anonymous> (/Users/cnytync/Hacking/tools/WebVOWL/node_modules/grunt/lib/grunt.js:28:1)
  at Module._compile (module.js:456:26)
  at Object.Module._extensions..js (module.js:474:10)
  at Module.load (module.js:356:32)
  at Function.Module._load (module.js:312:12)
  at Module.require (module.js:364:17)
  at require (module.js:380:17)
  at Object.<anonymous> (/usr/local/lib/node_modules/grunt-cli/bin/grunt:45:1)
  at Module._compile (module.js:456:26)
  at Object.Module._extensions..js (module.js:474:10)
  at Module.load (module.js:356:32)
  at Function.Module._load (module.js:312:12)
  at Function.Module.runMain (module.js:497:10)
  at startup (node.js:119:16)
  at node.js:906:3

Hi,

I'm new to WebVOWL (and OWL in general) and was trying to find out what the "official" JSON format is? There are a few documents available, but no real documentation.

Also, I was asking myself what the relation to JSON-LD is. At first sight the formats look somewhat similar. Is there a specific reason for not going with JSON-LD?

Thanks!

Hi guys, there's a missing step in the "simple" part of the readme :

bower install

Inspiring work by the way, thanks

Property labels should become nodes. Visually, it shouldn't make a big difference, but will result in some immediate improvements (e.g., improved alignment of symmetric properties, and maybe also of multi-edges, as this relaxes the fixed layout). Apart from that, turning property labels into nodes will make development more flexible and is important for the integration of further OWL concepts.

Those two concepts are not correctly visualized at the moment when generated with OntoBench.

The error details contain HTML tags. They should either be rendered as HTML or the HTML markup should simply be removed from the error message text.

File names with spaces are currently resulting in a "No cached version" error in Firefox.