I have graphs in Graphml format and I am trying to read the graph as follow
loadgraph("tailorS1.graphml",graph,GraphIO.GraphML.GraphMLFormat())
but I got the following error:
LoadError: UndefVarError: GraphML not defined
did you do
using GraphIO.GraphML
yes, I am including
using GraphIO.GraphML
then
loadgraph("tailorS1.graphml",Gr,GraphIO.GraphML.GraphMLFormat())
still the same error messeage
OK… How about this:
using Graphs
using GraphIO
using EzXML
d = loadgraphs("/tmp/test.gml", GraphMLFormat())
The documentation could do with some work…
with this it gives the following error:
LoadError: UndefVarError: loadgraphs not defined
OK, this is as far as I go, not being a GraphIO user. Versions here are:
[8f5d6c58] EzXML v1.1.0
[aa1b3936] GraphIO v0.6.0
[86223c79] Graphs v1.7.4
[dd2b58c7] GridGraphs v0.9.0
[cd156443] Karnak v0.3.0
[626554b9] MetaGraphs v0.7.1
[46757867] NetworkLayout v0.4.4
[47aef6b3] SimpleWeightedGraphs v1.2.1
I think you’re going to have to don your explorer’s outfit and start exploring the GraphIO source to find out how it works. 
Putting it all together?
using Graphs
using GraphIO
using EzXML
d = loadgraph("tailorS1.graphml", GraphIO.GraphML.GraphMLFormat())
Not really with this I got the following error:
LoadError: MethodError: no method matching loadgraph(::String, ::GraphIO.GraphML.GraphMLFormat)
Could you show the output of ] status (ie your package status), and the code you’re running, and the complete error message… ? This might help people diagnose what’s going on.
the code is simply the following
using Graphs
using GraphIO
using EzXML
d = loadgraph("tailorS1.graphml", GraphIO.GraphML.GraphMLFormat())
and the error message is
ERROR: LoadError: MethodError: no method matching loadgraph(::String, ::GraphIO.GraphML.GraphMLFormat)
Closest candidates are:
loadgraph(::AbstractString) at C:\Users\Ahmad Anaqreh\.julia\packages\LightGraphs\IgJif\src\persistence\common.jl:18
loadgraph(::AbstractString, ::AbstractString) at C:\Users\Ahmad Anaqreh\.julia\packages\LightGraphs\IgJif\src\persistence\common.jl:19
loadgraph(::AbstractString, ::AbstractString, ::LightGraphs.AbstractGraphFormat) at C:\Users\Ahmad Anaqreh\.julia\packages\LightGraphs\IgJif\src\persistence\common.jl:13
...
Stacktrace:
[1] top-level scope
@ E:\Julia\test100.jl:4
[2] eval
@ .\boot.jl:373 [inlined]
[3] include_string(mapexpr::typeof(identity), mod::Module, code::String, filename::String)
@ Base .\loading.jl:1196
in expression starting at E:\Julia\test100.jl:4
Package status?
LightGraphs should be Graphs I think.
unfortunately, either Graphs or Lightgraphs both give the same error
I had the same problem with reading a gml file and couldn’t read it until I passed gname as “digraph” to loadgraph:
G = loadgraph("data/gstrang_descendants.gml", "digraph", GraphIO.GML.GMLFormat())
This line https://github.com/JuliaGraphs/GraphIO.jl/blob/master/src/GraphML/GraphML.jl#L133
shows a similar method for loading a GraphML, which by [http://graphml.graphdrawing.org/], can be directed, undirected, mixed, hypergraph, and so on.
From ?loadgraph we find out that gname is graph-format dependent.
Hence you should inspect what graph type is recorded in your graphml file.
I succeeded to read a GraphML file, after installing EzXML.jl, as it is required at
https://github.com/JuliaGraphs/GraphIO.jl/blob/master/src/deprecations.jl#L13
using Graphs, GraphIO
using EzXML
#file downloaded from https://github.com/krlawrence/graph/blob/master/sample-data/air-routes-latest.graphml
G = loadgraph("data/air-routes-latest.graphml", "routes", GraphIO.GraphML.GraphMLFormat())
I identified the graph name, “routes”, searching for graph id in the graphml file.
Sorry, I don’t get the idea of installing EzXML.jl as required at the link you mentioned, I install it as any other Julia package
Yes, you should install it as usually.
Sorry, but I did exactly the same as you did and still get the same error message, here is my code :
using Graphs, GraphIO
using EzXML
G = loadgraph("tailorS1.graphml", "tailor", GraphIO.GraphML.GraphMLFormat())
and here is the graph
<?xml version="1.0"?>
<graphml xmlns="http://graphml.graphdrawing.org/xmlns" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xsi:schemaLocation="http://graphml.graphdrawing.org/xmlns http://graphml.graphdrawing.org/xmlns/1.0/graphml.xsd"> ">
<graph id="G" edgedefault="undirected">
<node id="0" />
<node id="1" />
<node id="2" />
<node id="3" />
<node id="4" />
<node id="5" />
<node id="6" />
<node id="7" />
<node id="8" />
<node id="9" />
<node id="10" />
<node id="11" />
<node id="12" />
<node id="13" />
<node id="14" />
<node id="15" />
<node id="16" />
<node id="17" />
<node id="18" />
<node id="19" />
<node id="20" />
<node id="21" />
<node id="22" />
<node id="23" />
<node id="24" />
<node id="25" />
<node id="26" />
<node id="27" />
<node id="28" />
<node id="29" />
<node id="30" />
<node id="31" />
<node id="32" />
<node id="33" />
<node id="34" />
<node id="35" />
<node id="36" />
<node id="37" />
<node id="38" />
<edge id="0" source="0" target="1" />
<edge id="1" source="0" target="2" />
<edge id="2" source="3" target="1" />
<edge id="3" source="3" target="2" />
<edge id="4" source="3" target="0" />
<edge id="5" source="4" target="0" />
<edge id="6" source="5" target="0" />
<edge id="7" source="5" target="6" />
<edge id="8" source="7" target="0" />
<edge id="9" source="8" target="1" />
<edge id="10" source="8" target="0" />
<edge id="11" source="8" target="6" />
<edge id="12" source="8" target="5" />
<edge id="13" source="9" target="1" />
<edge id="14" source="9" target="2" />
<edge id="15" source="9" target="0" />
<edge id="16" source="9" target="3" />
<edge id="17" source="9" target="6" />
<edge id="18" source="9" target="4" />
<edge id="19" source="9" target="5" />
<edge id="20" source="9" target="8" />
<edge id="21" source="10" target="2" />
<edge id="22" source="10" target="0" />
<edge id="23" source="10" target="3" />
<edge id="24" source="10" target="6" />
<edge id="25" source="10" target="4" />
<edge id="26" source="10" target="11" />
<edge id="27" source="10" target="9" />
<edge id="28" source="12" target="0" />
<edge id="29" source="12" target="3" />
<edge id="30" source="12" target="6" />
<edge id="31" source="12" target="4" />
<edge id="32" source="12" target="9" />
<edge id="33" source="12" target="10" />
<edge id="34" source="13" target="3" />
<edge id="35" source="13" target="8" />
<edge id="36" source="13" target="9" />
<edge id="37" source="14" target="0" />
<edge id="38" source="15" target="2" />
<edge id="39" source="15" target="0" />
<edge id="40" source="15" target="3" />
<edge id="41" source="15" target="4" />
<edge id="42" source="15" target="5" />
<edge id="43" source="15" target="7" />
<edge id="44" source="15" target="8" />
<edge id="45" source="15" target="9" />
<edge id="46" source="15" target="10" />
<edge id="47" source="15" target="12" />
<edge id="48" source="15" target="14" />
<edge id="49" source="16" target="15" />
<edge id="50" source="17" target="7" />
<edge id="51" source="17" target="10" />
<edge id="52" source="17" target="13" />
<edge id="53" source="18" target="0" />
<edge id="54" source="18" target="3" />
<edge id="55" source="18" target="4" />
<edge id="56" source="18" target="9" />
<edge id="57" source="18" target="10" />
<edge id="58" source="18" target="13" />
<edge id="59" source="18" target="14" />
<edge id="60" source="18" target="15" />
<edge id="61" source="18" target="17" />
<edge id="62" source="19" target="8" />
<edge id="63" source="19" target="10" />
<edge id="64" source="19" target="15" />
<edge id="65" source="19" target="18" />
<edge id="66" source="20" target="14" />
<edge id="67" source="20" target="18" />
<edge id="68" source="20" target="19" />
<edge id="69" source="20" target="21" />
<edge id="70" source="22" target="13" />
<edge id="71" source="22" target="15" />
<edge id="72" source="22" target="16" />
<edge id="73" source="22" target="17" />
<edge id="74" source="22" target="18" />
<edge id="75" source="22" target="19" />
<edge id="76" source="22" target="20" />
<edge id="77" source="23" target="9" />
<edge id="78" source="23" target="15" />
<edge id="79" source="24" target="15" />
<edge id="80" source="25" target="17" />
<edge id="81" source="25" target="26" />
<edge id="82" source="25" target="20" />
<edge id="83" source="27" target="13" />
<edge id="84" source="27" target="14" />
<edge id="85" source="27" target="20" />
<edge id="86" source="27" target="22" />
<edge id="87" source="27" target="25" />
<edge id="88" source="28" target="12" />
<edge id="89" source="28" target="15" />
<edge id="90" source="28" target="18" />
<edge id="91" source="28" target="19" />
<edge id="92" source="28" target="23" />
<edge id="93" source="29" target="15" />
<edge id="94" source="29" target="17" />
<edge id="95" source="29" target="18" />
<edge id="96" source="30" target="10" />
<edge id="97" source="30" target="13" />
<edge id="98" source="30" target="15" />
<edge id="99" source="30" target="22" />
<edge id="100" source="30" target="27" />
<edge id="101" source="30" target="29" />
<edge id="102" source="31" target="5" />
<edge id="103" source="31" target="12" />
<edge id="104" source="31" target="15" />
<edge id="105" source="31" target="18" />
<edge id="106" source="31" target="19" />
<edge id="107" source="31" target="22" />
<edge id="108" source="31" target="24" />
<edge id="109" source="31" target="29" />
<edge id="110" source="32" target="8" />
<edge id="111" source="32" target="18" />
<edge id="112" source="32" target="23" />
<edge id="113" source="32" target="27" />
<edge id="114" source="32" target="28" />
<edge id="115" source="32" target="30" />
<edge id="116" source="33" target="9" />
<edge id="117" source="33" target="15" />
<edge id="118" source="33" target="18" />
<edge id="119" source="33" target="22" />
<edge id="120" source="33" target="25" />
<edge id="121" source="33" target="29" />
<edge id="122" source="33" target="30" />
<edge id="123" source="33" target="31" />
<edge id="124" source="33" target="32" />
<edge id="125" source="34" target="12" />
<edge id="126" source="34" target="27" />
<edge id="127" source="34" target="30" />
<edge id="128" source="34" target="31" />
<edge id="129" source="34" target="32" />
<edge id="130" source="34" target="33" />
<edge id="131" source="35" target="10" />
<edge id="132" source="35" target="28" />
<edge id="133" source="35" target="29" />
<edge id="134" source="35" target="30" />
<edge id="135" source="35" target="31" />
<edge id="136" source="35" target="32" />
<edge id="137" source="35" target="33" />
<edge id="138" source="35" target="34" />
<edge id="139" source="36" target="15" />
<edge id="140" source="36" target="29" />
<edge id="141" source="36" target="31" />
<edge id="142" source="36" target="33" />
<edge id="143" source="36" target="35" />
<edge id="144" source="37" target="15" />
<edge id="145" source="37" target="27" />
<edge id="146" source="37" target="28" />
<edge id="147" source="37" target="29" />
<edge id="148" source="37" target="31" />
<edge id="149" source="37" target="33" />
<edge id="150" source="37" target="34" />
<edge id="151" source="37" target="35" />
<edge id="152" source="37" target="36" />
<edge id="153" source="38" target="28" />
<edge id="154" source="38" target="29" />
<edge id="155" source="38" target="31" />
<edge id="156" source="38" target="32" />
<edge id="157" source="38" target="33" />
</graph>
</graphml>
Maybe I am doing somthing not ok or the graph is not ok
Your graph id is “G”, hence pass “G” as gname to loadgraph:
G = loadgraph("tailorS1.graphml", "G", GraphIO.GraphML.GraphMLFormat())
still with that I got an error messege:
G= loadgraph("tailorS1.graphml", "G", GraphIO.GraphML.GraphMLFormat())
ERROR: LoadError: MethodError: no method matching loadgraph(::String, ::String, ::GraphIO.GraphML.GraphMLFormat)
Closest candidates are:
loadgraph(::AbstractString, ::AbstractString) at C:\Users\Ahmad Anaqreh\.julia\packages\LightGraphs\IgJif\src\persistence\common.jl:19
loadgraph(::AbstractString, ::AbstractString, ::LightGraphs.AbstractGraphFormat) at C:\Users\Ahmad Anaqreh\.julia\packages\LightGraphs\IgJif\src\persistence\common.jl:13
loadgraph(::AbstractString) at C:\Users\Ahmad Anaqreh\.julia\packages\LightGraphs\IgJif\src\persistence\common.jl:18
...
Stacktrace:
[1] top-level scope
@ E:\Julia\test100.jl:4
[2] eval
@ .\boot.jl:373 [inlined]
[3] include_string(mapexpr::typeof(identity), mod::Module, code::String, filename::String)
@ Base .\loading.jl:1196
in expression starting at E:\Julia\test100.jl:4
I think you have an old version of GraphIO or Graphs:
I have GraphIO version = “0.6.0”, Graphs version = “1.7.4”, and EzXML “1.1.0”