GraphML | PyTorch implementation of `` Cluster-GCN : An Efficient | Machine Learning library

I'm afraid that the GraphMLReader doesn't work that way. It's not designed to read into an existing graph. I honestly can't remember if this was done purposefully or not.

The code isn't too complicated though. You could probably just modify it to work they way that you want. You can see here where the code checks the vertex cache for the id. That cache is empty on your second execution because it is only filled by way of new vertex additions - it doesn't remember any from your first run and it doesn't read from the graph directly for your second run. Simply change that to logic to better suit your needs.

If you want to change the node ids, you can use the function relabel_nodes:

you can flag nodes for removal, and then remove them:

Given that removing the last integer from your numerical value solved the problem, I'd speculate you're hitting a limit; specifically, the lowest value an integer can have.

In Java, that value is -2147483647, and that happens to be the language that the default implementation of Gremlin Server is written in. As such, it's likely that the deserialization process is failing while trying to interpret that value as an integer. Since the value is below the minimum value of an integer, and since the error message talks about it being an input string, Integer.parseInt("-2555865115") is probably the call that's failing behind the scenes.

If Gremlin is both serializing and de-serializing the data, it might be a bug in that implementation, and you might want to file an issue. In the mean time, consider implementing and registering a custom serializer to give yourself more control over how the IO process works.

I've already left this code running for almost six hours and absolutely nothing happens.

A lot has been happening! Don't believe me? You ran ox.config(log_console=True), so look at your terminal and watch what's happening while it runs. You'll see a line like "2021-10-14 13:05:39 Requesting data within polygon from API in 1827 request(s)"... so you are making 1,827 requests to the Overpass server and the server is asking you to pause for rate limiting between many of those requests.

I know that due to the stipulated area the time is long, but what I wanted to know is if there is an alternative to this procedure or if there is a way to optimize so that the creation of the map is a little faster or if there is another way to load maps to route with osmnx and networkx without using queries to servers

Yes. This answer provides more details. There are tradeoffs between 1) model precision vs 2) area size vs 3) memory/speed. For faster modeling, you can load the network data from a .osm XML file instead of having to make numerous calls to the Overpass API. I'd also recommend using a custom_filter as described in the linked answer. OSMnx by default divides your query area into 50km x 50km pieces, then queries Overpass for each piece one a time to not exceed the server's per-query memory limits. You can configure this max_query_area_size parameter, as well as the server memory allocation, if you prefer to use OSMnx's API querying functions rather than its from-file functionality.

Upgrade to the newest version of networkx, it is working as of networkx version 2.6.2.

See the comments which led to a Jenkins pipeline. Otherwise cleaning (in my case) can overlap with scanning.

Make sure you've setup up a project with a Database Management System (DBMS) and a local database.

After that you need to install a plugin called APOC it provides neo4j with additional functionality i.e. to import .graphml files. This can be done by clicking on the DBMS (No button, just the cell) and selecting 'Plugins' on the right tabs, see Image 1
Then create or modify the apoc.conf file in the conf folder which you can access by starting the DBMS of your database and on the top where is shows Active DBMS select the three dots on the right to and select 'Open Folder' and 'Configuration', see Image 2
Make sure the line apoc.import.file.enabled=true is in the apoc.conf file.
Now open another folder, following the same steps as above but choosing 'Import' instead. Place your .graphml file here which you would like to read. Finally restart the DBMS, open the Neo4jBrowser and type the following command in the top row: CALL apoc.import.graphml("file://YOURFILE.graphml", {}) and replace YOURFILE.

That's it, for further reading I would recommend the APOC Import Graphml docs

1. You need to locate the libomp.a
2. Add the path where libomp.a lives to the ld command line parameters -Lpath
3. enjoy