A vertex representing an output file list. More...

#include <OpenMS/VISUAL/TOPPASOutputFileListVertex.h>

Inheritance diagram for TOPPASOutputFileListVertex:

Collaboration diagram for TOPPASOutputFileListVertex:

Public Slots
void	inEdgeHasChanged () override

Public Slots inherited from TOPPASVertex
virtual void	inEdgeHasChanged ()
	Called by an incoming edge when it has changed. More...

virtual void	outEdgeHasChanged ()
	Called by an outgoing edge when it has changed. More...

Signals
void	outputFileWritten (const String &file)
	Emitted when an output file was written. More...

void	outputFolderNameChanged ()
	Emitted when user has changed the output folder name (i.e. output dir needs to be newly created and packages updates) More...

Signals inherited from TOPPASVertex
void	clicked ()
	Emitted when this item is clicked. More...

void	released ()
	Emitted when this item is released. More...

void	hoveringEdgePosChanged (const QPointF &new_pos)
	Emitted when the position of the hovering edge changes. More...

void	newHoveringEdge (const QPointF &pos)
	Emitted when a new out edge is supposed to be created. More...

void	finishHoveringEdge ()
	Emitted when the mouse is released after having dragged a new edge somewhere. More...

void	somethingHasChanged ()
	Emitted when something has changed. More...

void	itemDragged (qreal dx, qreal dy)
	Emitted when the item is dragged. More...

void	parameterChanged (const bool invalidates_running_pipeline)

Public Member Functions
	TOPPASOutputFileListVertex ()=default
	Default constructor. More...

	TOPPASOutputFileListVertex (const TOPPASOutputFileListVertex &rhs)
	Copy constructor. More...

	~TOPPASOutputFileListVertex () override=default
	Destructor. More...

TOPPASOutputFileListVertex &	operator= (const TOPPASOutputFileListVertex &rhs)
	Assignment operator. More...

String	getName () const override
	returns "OutputVertex" More...

void	paint (QPainter painter, const QStyleOptionGraphicsItem option, QWidget *widget) override

QRectF	boundingRect () const override
	Returns the bounding rectangle of this item. More...

void	reset (bool reset_all_files=false) override

void	mouseDoubleClickEvent (QGraphicsSceneMouseEvent *) override
	opens the folder containing the output data More...

void	run () override
	Called when the parent node has finished execution. More...

String	getFullOutputDirectory () const
	Returns the full directory (including preceding output path as selected by user) More...

String	getOutputDir () const
	Returns the directory where the output files are stored. More...

String	createOutputDir () const
	Creates the output directory for this node. More...

void	setTopoNr (UInt nr) override
	Sets the topological sort number and removes invalidated tmp files. More...

void	openContainingFolder () const
	Opens the folders of the output files. More...

void	setOutputFolderName (const QString &name)

const QString &	getOutputFolderName () const
	return the output folder where results are written More...

Public Member Functions inherited from TOPPASVertex
	TOPPASVertex ()
	Default Constructor. More...

	TOPPASVertex (const TOPPASVertex &rhs)
	Copy constructor. More...

	~TOPPASVertex () override=default
	Destructor. More...

TOPPASVertex &	operator= (const TOPPASVertex &rhs)
	Assignment operator. More...

void	paint (QPainter painter, const QStyleOptionGraphicsItem , QWidget *, bool round_shape=true)
	base paint method for all derived classes. should be called first in child-class paint More...

bool	buildRoundPackages (RoundPackages &pkg, String &error_msg)

bool	isUpstreamFinished () const
	check if all upstream nodes are ready to go ( 'finished_' is true) More...

QPainterPath	shape () const final
	Returns a more precise shape. More...

ConstEdgeIterator	outEdgesBegin () const
	Returns begin() iterator of outgoing edges. More...

ConstEdgeIterator	outEdgesEnd () const
	Returns end() iterator of outgoing edges. More...

ConstEdgeIterator	inEdgesBegin () const
	Returns begin() iterator of incoming edges. More...

ConstEdgeIterator	inEdgesEnd () const
	Returns end() iterator of incoming edges. More...

Size	incomingEdgesCount ()
	Returns the number of incoming edges. More...

Size	outgoingEdgesCount ()
	Returns the number of outgoing edges. More...

void	addInEdge (TOPPASEdge *edge)
	Adds an incoming edge. More...

void	addOutEdge (TOPPASEdge *edge)
	Adds an outgoing edge. More...

void	removeInEdge (TOPPASEdge *edge)
	Removes an incoming edge. More...

void	removeOutEdge (TOPPASEdge *edge)
	Removes an outgoing edge. More...

DFS_COLOR	getDFSColor ()
	Returns the DFS color of this node. More...

void	setDFSColor (DFS_COLOR color)
	Sets the DFS color of this node. More...

TOPPASVertex::SUBSTREESTATUS	getSubtreeStatus () const
	Checks if all tools in the subtree below this node are finished. More...

bool	isTopoSortMarked () const
	Returns whether the vertex has been marked already (during topological sort) More...

void	setTopoSortMarked (bool b)
	(Un)marks the vertex (during topological sort) More...

UInt	getTopoNr () const
	Returns the topological sort number. More...

virtual void	markUnreachable ()
	Marks this node (and everything further downstream) as unreachable. Overridden behavior in mergers. More...

bool	isReachable () const
	Returns whether this node is reachable. More...

bool	isFinished () const
	Returns whether this node has already been processed during the current pipeline execution. More...

virtual bool	invertRecylingMode ()
	invert status of recycling More...

bool	isRecyclingEnabled () const
	get status of recycling More...

void	setRecycling (const bool is_enabled)
	set status of recycling More...

QStringList	getFileNames (int param_index, int round) const
	gets filenames for a certain output parameter (from this vertex), for a certain TOPPAS round More...

QStringList	getFileNames () const
	get all output files for all parameters for all rounds More...

const RoundPackages &	getOutputFiles () const

bool	allInputsReady () const
	check if all upstream nodes are finished More...

Static Protected Member Functions
static bool	copy_ (const QString &from, const QString &to)
	STATIC(!) function which calls QFile::copy(); needs to be static, since we need to pass a function pointer (which does not work on member functions) More...

Protected Attributes
QString	output_folder_name_

int	files_written_ = 0
	files that were already written More...

int	files_total_ = 0
	total number of files from upstream More...

Protected Attributes inherited from TOPPASVertex
EdgeContainer	in_edges_
	The list of incoming edges. More...

EdgeContainer	out_edges_
	The list of outgoing edges. More...

bool	edge_being_created_ {false}
	Indicates whether a new out edge is currently being created. More...

QColor	pen_color_ {Qt::black}
	The color of the pen. More...

QColor	brush_color_ { Qt::lightGray}
	The color of the brush. More...

DFS_COLOR	dfs_color_ {DFS_WHITE}
	The DFS color of this node. More...

bool	topo_sort_marked_ {false}
	"marked" flag for topological sort More...

UInt	topo_nr_
	The number in a topological sort of the entire graph. More...

RoundPackages	output_files_
	Stores the current output file names for each output parameter. More...

int	round_total_ {-1}
	number of rounds this node will do ('Merge All' nodes will pass everything, thus do only one round) More...

int	round_counter_ {0}
	currently finished number of rounds (TODO: do we need that?) More...

bool	finished_ {false}
	Stores whether this node has already been processed during the current pipeline execution. More...

bool	reachable_ {true}
	Indicates whether this node is reachable (i.e. there is an input node somewhere further upstream) More...

bool	allow_output_recycling_ {false}
	shall subsequent tools be allowed to recycle the output of this node to match the number of rounds imposed by other parent nodes? More...

Additional Inherited Members
Public Types inherited from TOPPASVertex
enum	DFS_COLOR { DFS_WHITE , DFS_GRAY , DFS_BLACK }
	The color of a vertex during depth-first search. More...

enum	SUBSTREESTATUS { TV_ALLFINISHED , TV_UNFINISHED , TV_UNFINISHED_INBRANCH }
	The color of a vertex during depth-first search. More...

typedef QList< TOPPASEdge * >	EdgeContainer
	The container for in/out edges. More...

typedef EdgeContainer::iterator	EdgeIterator
	A mutable iterator for in/out edges. More...

typedef EdgeContainer::const_iterator	ConstEdgeIterator
	A const iterator for in/out edges. More...

typedef std::map< Int, VertexRoundPackage >	RoundPackage

typedef RoundPackage::const_iterator	RoundPackageConstIt

typedef RoundPackage::iterator	RoundPackageIt

typedef std::vector< RoundPackage >	RoundPackages
	all information a node needs to process all rounds More...

Protected Member Functions inherited from TOPPASVertex
void	mouseReleaseEvent (QGraphicsSceneMouseEvent *e) override

void	mousePressEvent (QGraphicsSceneMouseEvent *e) override

void	mouseDoubleClickEvent (QGraphicsSceneMouseEvent *e) override

void	mouseMoveEvent (QGraphicsSceneMouseEvent *e) override

void	contextMenuEvent (QGraphicsSceneContextMenuEvent *event) override

virtual void	moveNewEdgeTo_ (const QPointF &pos)
	Moves the target pos of the edge which is just being created to `pos`. More...

String	get3CharsNumber_ (UInt number) const
	Returns a three character string (i.e. 001 instead of 1) for the given `number`. More...

void	debugOut_ (const String &) const
	Displays the debug output `message`, if TOPPAS_DEBUG is defined. More...

Detailed Description

A vertex representing an output file list.

Constructor & Destructor Documentation

◆ TOPPASOutputFileListVertex() [1/2]

TOPPASOutputFileListVertex ( )

default

Default constructor.

◆ TOPPASOutputFileListVertex() [2/2]

TOPPASOutputFileListVertex ( const TOPPASOutputFileListVertex & rhs )

Copy constructor.

◆ ~TOPPASOutputFileListVertex()

~TOPPASOutputFileListVertex ( )

overridedefault

Destructor.

Member Function Documentation

◆ boundingRect()

QRectF boundingRect ( ) const

overridevirtual

Returns the bounding rectangle of this item.

Implements TOPPASVertex.

◆ copy_()

static bool copy_	(	const QString &	from,
		const QString &	to
	)

staticprotected

STATIC(!) function which calls QFile::copy(); needs to be static, since we need to pass a function pointer (which does not work on member functions)

◆ createOutputDir()

String createOutputDir ( ) const

Creates the output directory for this node.

◆ getFullOutputDirectory()

String getFullOutputDirectory ( ) const

Returns the full directory (including preceding output path as selected by user)

◆ getName()

String getName ( ) const

overridevirtual

returns "OutputVertex"

Implements TOPPASVertex.

◆ getOutputDir()

String getOutputDir ( ) const

Returns the directory where the output files are stored.

◆ getOutputFolderName()

const QString& getOutputFolderName ( ) const

return the output folder where results are written

◆ inEdgeHasChanged

void inEdgeHasChanged ( )

overrideslot

◆ mouseDoubleClickEvent()

void mouseDoubleClickEvent ( QGraphicsSceneMouseEvent * )

override

opens the folder containing the output data

◆ openContainingFolder()

void openContainingFolder ( ) const

Opens the folders of the output files.

◆ operator=()

TOPPASOutputFileListVertex& operator= ( const TOPPASOutputFileListVertex & rhs )

Assignment operator.

◆ outputFileWritten

void outputFileWritten ( const String & file )

signal

Emitted when an output file was written.

◆ outputFolderNameChanged

void outputFolderNameChanged ( )

signal

Emitted when user has changed the output folder name (i.e. output dir needs to be newly created and packages updates)

◆ paint()

void paint	(	QPainter *	painter,
		const QStyleOptionGraphicsItem *	option,
		QWidget *	widget
	)

override

◆ reset()

void reset ( bool reset_all_files = false )

overridevirtual

Resets the status

Parameters

reset_all_files Not used in this implementation, but in derived classes

Reimplemented from TOPPASVertex.

◆ run()

void run ( )

overridevirtual

Called when the parent node has finished execution.

Reimplemented from TOPPASVertex.

◆ setOutputFolderName()

void setOutputFolderName ( const QString & name )

Sets a custom output folder name, which will be integrated into 'getOutputDir()' and 'getFullOutputDirectory()' calls.

Note: The string is not checked for validity (avoid characters which are not allowed in directories, e.g. '{')

◆ setTopoNr()

void setTopoNr ( UInt nr )

overridevirtual

Sets the topological sort number and removes invalidated tmp files.

Reimplemented from TOPPASVertex.

Member Data Documentation

◆ files_total_

int files_total_ = 0

protected

total number of files from upstream

◆ files_written_

int files_written_ = 0

protected

files that were already written

◆ output_folder_name_

QString output_folder_name_

protected

Public Slots

Signals

Public Member Functions

Static Protected Member Functions

Protected Attributes

Additional Inherited Members

Detailed Description

Constructor & Destructor Documentation

◆ TOPPASOutputFileListVertex() [1/2]

◆ TOPPASOutputFileListVertex() [2/2]

◆ ~TOPPASOutputFileListVertex()

Member Function Documentation

◆ boundingRect()

◆ copy_()

◆ createOutputDir()

◆ getFullOutputDirectory()

◆ getName()

◆ getOutputDir()

◆ getOutputFolderName()

◆ inEdgeHasChanged

◆ mouseDoubleClickEvent()

◆ openContainingFolder()

◆ operator=()

◆ outputFileWritten

◆ outputFolderNameChanged

◆ paint()

◆ reset()

◆ run()

◆ setOutputFolderName()

◆ setTopoNr()

Member Data Documentation

◆ files_total_

◆ files_written_

◆ output_folder_name_