Bio::EnsEMBL::Hive::Utils::GraphViz Class Reference

Public Member Functions
public	new ()
public	cluster_2_nodes ()
public	cluster_2_attributes ()
public	nested_bgcolour ()
public	dot_input_filename ()
public	display_subgraph ()
public	top_level_cluster_names ()
protected	_as_debug ()
public	add_node ()
public	protect_string_for_display ()

Detailed Description

Description

    An extension of GraphViz that employs a collection of hacks
    to use some functionality of dot that is not available through GraphViz.

    There are at least 3 areas where we need it:
        (1) passing in some parameters of the drawing (such as pad => ...)
        (2) drawing clusters (boxes) around semaphore fans
        (3) using the newest node types (such as Mrecord, tab and egg) with HTML-like labels

Definition at line 16 of file GraphViz.pm.

Member Function Documentation

_as_debug()

protected Bio::EnsEMBL::Hive::Utils::GraphViz::_as_debug

(

)

Undocumented method

Code:

add_node()

public Bio::EnsEMBL::Hive::Utils::GraphViz::add_node

(

)

Undocumented method

Code:

cluster_2_attributes()

public Bio::EnsEMBL::Hive::Utils::GraphViz::cluster_2_attributes

(

)

Undocumented method

Code:

cluster_2_nodes()

public Bio::EnsEMBL::Hive::Utils::GraphViz::cluster_2_nodes

(

)

Undocumented method

Code:

display_subgraph()

public Bio::EnsEMBL::Hive::Utils::GraphViz::display_subgraph

(

)

Undocumented method

Code:

dot_input_filename()

public Bio::EnsEMBL::Hive::Utils::GraphViz::dot_input_filename

(

)

Undocumented method

Code:

nested_bgcolour()

public Bio::EnsEMBL::Hive::Utils::GraphViz::nested_bgcolour

(

)

Undocumented method

Code:

new()

public Bio::EnsEMBL::Hive::Utils::GraphViz::new

(

)

    Title   :  new (constructor)
    Function:  Instantiates a new Utils::GraphViz object
                by injecting some variables unsupported by GraphViz (but understood by dot) directly into the dot output.
                We rely on a particular quoting pattern used in dot's input format to fool GraphViz (which luckily doesn't escape quotes).

Code:

protect_string_for_display()

public Bio::EnsEMBL::Hive::Utils::GraphViz::protect_string_for_display

(

)

Undocumented method

Code:

top_level_cluster_names()

public Bio::EnsEMBL::Hive::Utils::GraphViz::top_level_cluster_names

(

)

Undocumented method

Code:

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The documentation for this class was generated from the following file:

• modules/Bio/EnsEMBL/Hive/Utils/GraphViz.pm