Hi Tiago and all

Thank you very much for adding this functionality to graph-tool, I could use this for sure. The only problem is, that since you've sent this email, I'm trying to recompile the newest version of graph-tool and after lots of trouble I managed to get it compiled and working, (without sparsehash unfortunately) (the bigges problems I faced with not enough memory, but never mind), now I have the working graph-tool 2.16 and stil if I try to call the:

planar_position = graph_tool.draw.planar_layout(Graph_of_the_knot, pos=None)

function it prints:

Traceback (most recent call last):
  File "./knot_representations.py", line 1947, in <module>
    Crossings_adjacency_matrix = CrossingsAdjacencyMatrix(Nr_of_crossings, Nr_of_ropes, Starting_points, Rope_path_length, Crossings_chirality, Connections_dict_inv, Connections_dict)
  File "./knot_representations.py", line 1526, in CrossingsAdjacencyMatrix
    planar_position = graph_tool.draw.planar_layout(Graph_of_the_knot, pos=None)
AttributeError: 'module' object has no attribute 'planar_layout'

Am I doing something wrong, or I'm not using the right version?

I've downloaded graph-tool 2.16 from the site.

I would also like to ask something about the sfdp.layout in the draw tool. Can I set the C parameter,

C : float (optional, default: 0.2) Relative strength of repulsive forces.

separately for some vertices? I assume that I can't, because it's not a property map, but I thought I'll ask.

Thx

Csongor

On Mon, Apr 25, 2016 at 9:30 AM, <graph-tool-request@skewed.de> wrote:
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Today's Topics:

   1. Re: First question - Planarity (Tiago de Paula Peixoto)
   2. Re: First question - Planarity (Alexandre Hannud Abdo)
   3. Re: First question - Planarity (Tiago de Paula Peixoto)
   4. Re: How to see the relations between two groups of blocks in
      a bipartite network? (Andrea Briega)


----------------------------------------------------------------------

Message: 1
Date: Sun, 24 Apr 2016 21:48:43 +0200
From: Tiago de Paula Peixoto <tiago@skewed.de>
To: graph-tool@skewed.de
Subject: Re: [graph-tool] First question - Planarity
Message-ID: <cb99c96b-6dd5-e142-8e14-4efc7f97969b@skewed.de>
Content-Type: text/plain; charset="utf-8"

On 20.04.2016 17:01, Tiago de Paula Peixoto wrote:
> On 20.04.2016 14:20, Matyas, Csongor wrote:
>> I will also post my first question, this was the main reason why I registered for this mailing list. The description and examples were usually more than enough for me to use graph_tool, nice job ;) I have a question though.
>> In the "|graph_tool.topology.||is_planar|(/g/, /embedding=True///)" how do I use the embedding information to print my graphs planar. Do I have to do that for myself, or there is a built in function that I didn't find? Do I have to add the edges following the order that they come using the embedding somehow?
>
> Here is one way it can be used to draw the graph:
>
>      http://www.boost.org/doc/libs/1_60_0/libs/graph/doc/straight_line_drawing.html
>
> However, this function is not yet implemented in graph-tool.

FYI, I have just added this functionality to graph-tool:

     https://graph-tool.skewed.de/static/doc/dev/draw.html#graph_tool.draw.planar_layout

Best,
Tiago

--
Tiago de Paula Peixoto <tiago@skewed.de>

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Message: 2
Date: Sun, 24 Apr 2016 23:01:38 +0200
From: Alexandre Hannud Abdo <abdo@member.fsf.org>
To: Main discussion list for the graph-tool project
        <graph-tool@skewed.de>
Subject: Re: [graph-tool] First question - Planarity
Message-ID:
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Content-Type: text/plain; charset=UTF-8

Cool!

Hey, the link to the boost reference in the documentation doesn't
work, I think the correct link would be:

http://www.boost.org/doc/libs/release/libs/graph/doc/straight_line_drawing.html

Ni!
ale


On Sun, Apr 24, 2016 at 9:48 PM, Tiago de Paula Peixoto <tiago@skewed.de> wrote:
> On 20.04.2016 17:01, Tiago de Paula Peixoto wrote:
>> On 20.04.2016 14:20, Matyas, Csongor wrote:
>>> I will also post my first question, this was the main reason why I registered for this mailing list. The description and examples were usually more than enough for me to use graph_tool, nice job ;) I have a question though.
>>> In the "|graph_tool.topology.||is_planar|(/g/, /embedding=True///)" how do I use the embedding information to print my graphs planar. Do I have to do that for myself, or there is a built in function that I didn't find? Do I have to add the edges following the order that they come using the embedding somehow?
>>
>> Here is one way it can be used to draw the graph:
>>
>>      http://www.boost.org/doc/libs/1_60_0/libs/graph/doc/straight_line_drawing.html
>>
>> However, this function is not yet implemented in graph-tool.
>
> FYI, I have just added this functionality to graph-tool:
>
>      https://graph-tool.skewed.de/static/doc/dev/draw.html#graph_tool.draw.planar_layout
>
> Best,
> Tiago
>
> --
> Tiago de Paula Peixoto <tiago@skewed.de>
>
>
> _______________________________________________
> graph-tool mailing list
> graph-tool@skewed.de
> https://lists.skewed.de/mailman/listinfo/graph-tool
>


------------------------------

Message: 3
Date: Sun, 24 Apr 2016 23:12:50 +0200
From: Tiago de Paula Peixoto <tiago@skewed.de>
To: Main discussion list for the graph-tool project
        <graph-tool@skewed.de>
Subject: Re: [graph-tool] First question - Planarity
Message-ID: <4aa2a155-c227-2759-7c87-5f93bf7b84e0@skewed.de>
Content-Type: text/plain; charset="utf-8"

On 24.04.2016 23:01, Alexandre Hannud Abdo wrote:
> Hey, the link to the boost reference in the documentation doesn't
> work, I think the correct link would be:
>
> http://www.boost.org/doc/libs/release/libs/graph/doc/straight_line_drawing.html

Thanks! Fixed.

Best,
Tiago

--
Tiago de Paula Peixoto <tiago@skewed.de>

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Message: 4
Date: Mon, 25 Apr 2016 12:47:08 +0200
From: Andrea Briega <annbrial@gmail.com>
To: graph-tool@skewed.de
Subject: Re: [graph-tool] How to see the relations between two groups
        of blocks in a bipartite network?
Message-ID:
        <CAOhEWiEW36kW+BdROoQmLbrH3s5dR=bM0715S7bCYszHgz=m_w@mail.gmail.com>
Content-Type: text/plain; charset="utf-8"

Thank you very much for your detailed answer, it has been really helpful.

The point is that I want to know how the relations are beween the two types
of nodes of my network and with both classifications. Other algorithms,
such as map equation, classify both types of nodes in the same groups so I
see this relations directly, althought as you say by this way some
information is hidden. In this sense I prefer graphtool, but I didn't know
how to get this relation.

Now I see I can get the partitions network from the BlockState object, I
didn't know! (as I said, I am new in this, and in python too). I think it
will be enough with this output.

Thank you again,


Andrea


2016-04-22 15:45 GMT+02:00 Andrea Briega <annbrial@gmail.com>:

> Hi,
>
>
> Sorry if I ask basic questions but I'm new in this. I have a bipartite
> network, with two types of nodes with no connections between the nodes of
> the same type, only between different types. I have run
> minimize_blockmodel_dl y minimize_nested_blockmodel_dl with different
> options but I always get separated blocks for each type of node: some
> blocks only with nodes of one type and the rest only with nodes of the
> other type. But I am really interested in the relation between this two
> groups of blocks. Any idea about how could I get that? Thank you very much.
>
>
>
> Best regards,
>
>
> Andrea
>
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