bioformats  5.1.5
Pixels.h
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38 
39 /*─────────────────────────────────────────────────────────────────────────────
40  *
41  * THIS IS AUTOMATICALLY GENERATED CODE. DO NOT MODIFY.
42  *
43  *─────────────────────────────────────────────────────────────────────────────
44  */
45 
46 #ifndef OME_XML_MODEL_PIXELS_H
47 #define OME_XML_MODEL_PIXELS_H
48 
49 #include <algorithm>
50 #include <list>
51 #include <stdexcept>
52 #include <string>
53 #include <vector>
54 
55 #include <ome/common/log.h>
56 
57 #include <ome/common/xml/dom/Document.h>
58 #include <ome/common/xml/dom/Element.h>
59 #include <ome/common/xml/dom/Node.h>
60 #include <ome/common/xml/dom/NodeList.h>
61 
62 #include <ome/xml/model/MetadataOnly.h>
63 #include <ome/xml/model/detail/OMEModelObject.h>
64 #include <ome/xml/model/enums/DimensionOrder.h>
65 #include <ome/xml/model/enums/PixelType.h>
66 #include <ome/xml/model/primitives/PositiveFloat.h>
67 #include <ome/xml/model/primitives/PositiveInteger.h>
68 
69 namespace ome
70 {
71  namespace xml
72  {
73  namespace model
74  {
75 
76  // Forward declarations.
77  class Annotation;
78  class BinData;
79  class Channel;
80  class OMEModel;
81  class Plane;
82  class TiffData;
83 
88  {
89  private:
90  class Impl;
92  ome::compat::shared_ptr<Impl> impl;
93 
94  public:
96  Pixels();
97 
103  Pixels (const Pixels& copy);
104 
106  virtual
107  ~Pixels ();
108 
123  static ome::compat::shared_ptr< Pixels>
124  create(const common::xml::dom::Element& element,
126 
127  // Documented in superclass.
128  const std::string&
129  elementName() const;
130 
131  // Documented in superclass.
132  bool
133  validElementName(const std::string& name) const;
134 
135 
136  // -- OMEModelObject API methods --
137 
139  virtual void
140  update(const common::xml::dom::Element& element,
142 
143  public:
144  // -- Pixels API methods --
145 
147  bool
148  link (ome::compat::shared_ptr<Reference>& reference,
149  ome::compat::shared_ptr< ome::xml::model::OMEModelObject>& object);
150 
157  getSizeT () const;
158 
164  void
166 
174 
181  getDimensionOrder () const;
182 
188  void
190 
196  ome::compat::shared_ptr<double>
197  getTimeIncrement ();
198 
204  const ome::compat::shared_ptr<double>
205  getTimeIncrement () const;
206 
212  void
213  setTimeIncrement (ome::compat::shared_ptr<double>& timeIncrement);
214 
220  ome::compat::shared_ptr<ome::xml::model::primitives::PositiveFloat>
221  getPhysicalSizeY ();
222 
228  const ome::compat::shared_ptr<ome::xml::model::primitives::PositiveFloat>
229  getPhysicalSizeY () const;
230 
236  void
237  setPhysicalSizeY (ome::compat::shared_ptr<ome::xml::model::primitives::PositiveFloat>& physicalSizeY);
238 
244  ome::compat::shared_ptr<ome::xml::model::primitives::PositiveFloat>
245  getPhysicalSizeX ();
246 
252  const ome::compat::shared_ptr<ome::xml::model::primitives::PositiveFloat>
253  getPhysicalSizeX () const;
254 
260  void
261  setPhysicalSizeX (ome::compat::shared_ptr<ome::xml::model::primitives::PositiveFloat>& physicalSizeX);
262 
268  ome::compat::shared_ptr<ome::xml::model::primitives::PositiveFloat>
269  getPhysicalSizeZ ();
270 
276  const ome::compat::shared_ptr<ome::xml::model::primitives::PositiveFloat>
277  getPhysicalSizeZ () const;
278 
284  void
285  setPhysicalSizeZ (ome::compat::shared_ptr<ome::xml::model::primitives::PositiveFloat>& physicalSizeZ);
286 
293  getSizeX () const;
294 
300  void
302 
309  getSizeY () const;
310 
316  void
318 
325  getSizeZ () const;
326 
332  void
334 
340  ome::compat::shared_ptr<bool>
341  getBigEndian ();
342 
348  const ome::compat::shared_ptr<bool>
349  getBigEndian () const;
350 
356  void
357  setBigEndian (ome::compat::shared_ptr<bool>& bigEndian);
358 
364  ome::compat::shared_ptr<ome::xml::model::primitives::PositiveInteger>
366 
372  const ome::compat::shared_ptr<ome::xml::model::primitives::PositiveInteger>
373  getSignificantBits () const;
374 
380  void
381  setSignificantBits (ome::compat::shared_ptr<ome::xml::model::primitives::PositiveInteger>& significantBits);
382 
389  getSizeC () const;
390 
396  void
398 
405  getType ();
406 
413  getType () const;
414 
420  void
422 
428  const std::string&
429  getID () const;
430 
436  void
437  setID (const std::string& id);
438 
444  ome::compat::shared_ptr<bool>
445  getInterleaved ();
446 
452  const ome::compat::shared_ptr<bool>
453  getInterleaved () const;
454 
460  void
461  setInterleaved (ome::compat::shared_ptr<bool>& interleaved);
462 
468  std::vector<ome::compat::shared_ptr<ome::xml::model::Channel> >::size_type
469  sizeOfChannelList () const;
470 
477  std::vector<ome::compat::shared_ptr<ome::xml::model::Channel> >&
478  getChannelList ();
479 
486  const std::vector<ome::compat::shared_ptr<ome::xml::model::Channel> >&
487  getChannelList () const;
488 
496  ome::compat::shared_ptr<ome::xml::model::Channel>&
497  getChannel (std::vector<ome::compat::shared_ptr<ome::xml::model::Channel> >::size_type index);
498 
506  const ome::compat::shared_ptr<ome::xml::model::Channel>&
507  getChannel (std::vector<ome::compat::shared_ptr<ome::xml::model::Channel> >::size_type index) const;
508 
516  void
517  setChannel (std::vector<ome::compat::shared_ptr<ome::xml::model::Channel> >::size_type index,
518  ome::compat::shared_ptr<ome::xml::model::Channel>& channel);
519 
528  void
529  addChannel (ome::compat::shared_ptr<ome::xml::model::Channel>& channel);
530 
540  void
541  removeChannel (ome::compat::shared_ptr<ome::xml::model::Channel>& channel);
542 
548  std::vector<ome::compat::shared_ptr<ome::xml::model::BinData> >::size_type
549  sizeOfBinDataList () const;
550 
557  std::vector<ome::compat::shared_ptr<ome::xml::model::BinData> >&
558  getBinDataList ();
559 
566  const std::vector<ome::compat::shared_ptr<ome::xml::model::BinData> >&
567  getBinDataList () const;
568 
576  ome::compat::shared_ptr<ome::xml::model::BinData>&
577  getBinData (std::vector<ome::compat::shared_ptr<ome::xml::model::BinData> >::size_type index);
578 
586  const ome::compat::shared_ptr<ome::xml::model::BinData>&
587  getBinData (std::vector<ome::compat::shared_ptr<ome::xml::model::BinData> >::size_type index) const;
588 
596  void
597  setBinData (std::vector<ome::compat::shared_ptr<ome::xml::model::BinData> >::size_type index,
598  ome::compat::shared_ptr<ome::xml::model::BinData>& binData);
599 
608  void
609  addBinData (ome::compat::shared_ptr<ome::xml::model::BinData>& binData);
610 
620  void
621  removeBinData (ome::compat::shared_ptr<ome::xml::model::BinData>& binData);
622 
628  std::vector<ome::compat::shared_ptr<ome::xml::model::TiffData> >::size_type
629  sizeOfTiffDataList () const;
630 
637  std::vector<ome::compat::shared_ptr<ome::xml::model::TiffData> >&
638  getTiffDataList ();
639 
646  const std::vector<ome::compat::shared_ptr<ome::xml::model::TiffData> >&
647  getTiffDataList () const;
648 
656  ome::compat::shared_ptr<ome::xml::model::TiffData>&
657  getTiffData (std::vector<ome::compat::shared_ptr<ome::xml::model::TiffData> >::size_type index);
658 
666  const ome::compat::shared_ptr<ome::xml::model::TiffData>&
667  getTiffData (std::vector<ome::compat::shared_ptr<ome::xml::model::TiffData> >::size_type index) const;
668 
676  void
677  setTiffData (std::vector<ome::compat::shared_ptr<ome::xml::model::TiffData> >::size_type index,
678  ome::compat::shared_ptr<ome::xml::model::TiffData>& tiffData);
679 
688  void
689  addTiffData (ome::compat::shared_ptr<ome::xml::model::TiffData>& tiffData);
690 
700  void
701  removeTiffData (ome::compat::shared_ptr<ome::xml::model::TiffData>& tiffData);
702 
708  ome::compat::shared_ptr<ome::xml::model::MetadataOnly>
709  getMetadataOnly ();
710 
716  const ome::compat::shared_ptr<ome::xml::model::MetadataOnly>
717  getMetadataOnly () const;
718 
724  void
725  setMetadataOnly (ome::compat::shared_ptr<ome::xml::model::MetadataOnly>& metadataOnly);
726 
732  std::vector<ome::compat::shared_ptr<ome::xml::model::Plane> >::size_type
733  sizeOfPlaneList () const;
734 
741  std::vector<ome::compat::shared_ptr<ome::xml::model::Plane> >&
742  getPlaneList ();
743 
750  const std::vector<ome::compat::shared_ptr<ome::xml::model::Plane> >&
751  getPlaneList () const;
752 
760  ome::compat::shared_ptr<ome::xml::model::Plane>&
761  getPlane (std::vector<ome::compat::shared_ptr<ome::xml::model::Plane> >::size_type index);
762 
770  const ome::compat::shared_ptr<ome::xml::model::Plane>&
771  getPlane (std::vector<ome::compat::shared_ptr<ome::xml::model::Plane> >::size_type index) const;
772 
780  void
781  setPlane (std::vector<ome::compat::shared_ptr<ome::xml::model::Plane> >::size_type index,
782  ome::compat::shared_ptr<ome::xml::model::Plane>& plane);
783 
792  void
793  addPlane (ome::compat::shared_ptr<ome::xml::model::Plane>& plane);
794 
804  void
805  removePlane (ome::compat::shared_ptr<ome::xml::model::Plane>& plane);
806 
814 
821  getLinkedAnnotationList () const;
822 
830  const ome::compat::weak_ptr<ome::xml::model::Annotation>&
832 
843  const ome::compat::weak_ptr<ome::xml::model::Annotation>&
845  const ome::compat::shared_ptr<ome::xml::model::Annotation>& annotation);
846 
857  bool
858  linkAnnotation (const ome::compat::shared_ptr<ome::xml::model::Annotation>& annotation);
859 
875  bool
876  unlinkAnnotation (const ome::compat::shared_ptr<ome::xml::model::Annotation>& annotation);
877 
878 
881  asXMLElement (common::xml::dom::Document& document) const;
882 
883 
884  protected:
885  // Documented in base class.
888  common::xml::dom::Element& element) const;
889 
890  public:
891  // Documented in superclass.
892  const std::string&
893  getXMLNamespace() const;
894  };
895 
896  }
897  }
898 }
899 
900 #endif // OME_XML_MODEL_PIXELS_H
901 
902 /*
903  * Local Variables:
904  * mode:C++
905  * End:
906  */
Private implementation details of Pixels model object.
Definition: Pixels.cpp:100
OME model interface (abstract top-level container)
Definition: OMEModel.h:62
const std::string & getID() const
Get the ID property.
Definition: Pixels.cpp:821
void addBinData(ome::compat::shared_ptr< ome::xml::model::BinData > &binData)
Add BinData.
Definition: Pixels.cpp:953
std::vector< ome::compat::shared_ptr< ome::xml::model::Channel > >::size_type sizeOfChannelList() const
Get size of linked Channel list.
Definition: Pixels.cpp:856
OMEModelObject::indexed_container< ome::xml::model::Annotation, ome::compat::weak_ptr >::type::size_type sizeOfLinkedAnnotationList() const
Get size of linked Annotation list.
Definition: Pixels.cpp:1109
void setMetadataOnly(ome::compat::shared_ptr< ome::xml::model::MetadataOnly > &metadataOnly)
Set the MetadataOnly property.
Definition: Pixels.cpp:1044
void setTimeIncrement(ome::compat::shared_ptr< double > &timeIncrement)
Set the TimeIncrement property.
Definition: Pixels.cpp:632
bool linkAnnotation(const ome::compat::shared_ptr< ome::xml::model::Annotation > &annotation)
Link Annotation.
Definition: Pixels.cpp:1137
const ome::xml::model::primitives::PositiveInteger & getSizeX() const
Get the SizeX property.
Definition: Pixels.cpp:702
ome::compat::shared_ptr< ome::xml::model::primitives::PositiveInteger > getSignificantBits()
Get the SignificantBits property.
Definition: Pixels.cpp:765
const ome::xml::model::primitives::PositiveInteger & getSizeC() const
Get the SizeC property.
Definition: Pixels.cpp:786
void setBinData(std::vector< ome::compat::shared_ptr< ome::xml::model::BinData > >::size_type index, ome::compat::shared_ptr< ome::xml::model::BinData > &binData)
Set BinData.
Definition: Pixels.cpp:944
bool validElementName(const std::string &name) const
Check if a given element name is valid for processing by this model object.
Definition: Pixels.cpp:322
void addTiffData(ome::compat::shared_ptr< ome::xml::model::TiffData > &tiffData)
Add TiffData.
Definition: Pixels.cpp:1011
bool link(ome::compat::shared_ptr< Reference > &reference, ome::compat::shared_ptr< ome::xml::model::OMEModelObject > &object)
Link a given OME model object to this model object.
Definition: Pixels.cpp:552
ome::compat::shared_ptr< ome::xml::model::primitives::PositiveFloat > getPhysicalSizeZ()
Get the PhysicalSizeZ property.
Definition: Pixels.cpp:681
Pixels()
Default constructor.
Definition: Pixels.cpp:282
virtual ~Pixels()
Destructor.
Definition: Pixels.cpp:301
void setType(const ome::xml::model::enums::PixelType &type)
Set the Type property.
Definition: Pixels.cpp:814
OMEModelObject::indexed_container< ome::xml::model::Annotation, ome::compat::weak_ptr >::type getLinkedAnnotationList() const
Get the linked Annotation list.
Definition: Pixels.cpp:1115
void setPlane(std::vector< ome::compat::shared_ptr< ome::xml::model::Plane > >::size_type index, ome::compat::shared_ptr< ome::xml::model::Plane > &plane)
Set Plane.
Definition: Pixels.cpp:1081
void removeBinData(ome::compat::shared_ptr< ome::xml::model::BinData > &binData)
Remove BinData.
Definition: Pixels.cpp:961
std::vector< ome::compat::shared_ptr< ome::xml::model::Plane > >::size_type sizeOfPlaneList() const
Get size of linked Plane list.
Definition: Pixels.cpp:1051
void removeTiffData(ome::compat::shared_ptr< ome::xml::model::TiffData > &tiffData)
Remove TiffData.
Definition: Pixels.cpp:1019
void setPhysicalSizeX(ome::compat::shared_ptr< ome::xml::model::primitives::PositiveFloat > &physicalSizeX)
Set the PhysicalSizeX property.
Definition: Pixels.cpp:674
DOM Document wrapper.
Definition: Document.h:83
ome::compat::shared_ptr< ome::xml::model::primitives::PositiveFloat > getPhysicalSizeY()
Get the PhysicalSizeY property.
Definition: Pixels.cpp:639
DOM Element wrapper.
Definition: Element.h:66
OME model object (concrete implementation).
Definition: OMEModelObject.h:64
std::vector< ome::compat::shared_ptr< ome::xml::model::Plane > > & getPlaneList()
Get the Plane list.
Definition: Pixels.cpp:1057
boost::multi_index_container< Ptr< T >, boost::multi_index::indexed_by< boost::multi_index::random_access<>, boost::multi_index::ordered_unique< boost::multi_index::identity< Ptr< T > >, ome::compat::owner_less< Ptr< T > > > > > type
Multi-index container type.
Definition: OMEModelObject.h:94
void setSizeZ(const ome::xml::model::primitives::PositiveInteger &sizeZ)
Set the SizeZ property.
Definition: Pixels.cpp:737
void addChannel(ome::compat::shared_ptr< ome::xml::model::Channel > &channel)
Add Channel.
Definition: Pixels.cpp:895
void setPhysicalSizeY(ome::compat::shared_ptr< ome::xml::model::primitives::PositiveFloat > &physicalSizeY)
Set the PhysicalSizeY property.
Definition: Pixels.cpp:653
ome::compat::shared_ptr< Impl > impl
Private implementation details.
Definition: Pixels.h:90
const std::string & getXMLNamespace() const
Get the XML namespace for this model object.
Definition: Pixels.cpp:1442
void setSizeY(const ome::xml::model::primitives::PositiveInteger &sizeY)
Set the SizeY property.
Definition: Pixels.cpp:723
ome::xml::model::enums::PixelType & getType()
Get the Type property.
Definition: Pixels.cpp:800
std::vector< ome::compat::shared_ptr< ome::xml::model::TiffData > > & getTiffDataList()
Get the TiffData list.
Definition: Pixels.cpp:978
void setTiffData(std::vector< ome::compat::shared_ptr< ome::xml::model::TiffData > >::size_type index, ome::compat::shared_ptr< ome::xml::model::TiffData > &tiffData)
Set TiffData.
Definition: Pixels.cpp:1002
ome::compat::shared_ptr< ome::xml::model::TiffData > & getTiffData(std::vector< ome::compat::shared_ptr< ome::xml::model::TiffData > >::size_type index)
Get TiffData.
Definition: Pixels.cpp:990
const ome::compat::weak_ptr< ome::xml::model::Annotation > & setLinkedAnnotation(OMEModelObject::indexed_container< ome::xml::model::Annotation, ome::compat::weak_ptr >::type::size_type index, const ome::compat::shared_ptr< ome::xml::model::Annotation > &annotation)
Set linked Annotation.
Definition: Pixels.cpp:1127
DimensionOrder enumeration.
Definition: DimensionOrder.h:69
bool unlinkAnnotation(const ome::compat::shared_ptr< ome::xml::model::Annotation > &annotation)
Unlink Annotation.
Definition: Pixels.cpp:1151
ome::compat::shared_ptr< ome::xml::model::primitives::PositiveFloat > getPhysicalSizeX()
Get the PhysicalSizeX property.
Definition: Pixels.cpp:660
Multi-index container for efficient ordered insertion and deletion of model object references...
Definition: OMEModelObject.h:85
void setDimensionOrder(const ome::xml::model::enums::DimensionOrder &dimensionOrder)
Set the DimensionOrder property.
Definition: Pixels.cpp:611
std::vector< ome::compat::shared_ptr< ome::xml::model::TiffData > >::size_type sizeOfTiffDataList() const
Get size of linked TiffData list.
Definition: Pixels.cpp:972
Open Microscopy Environment C++ implementation.
Definition: CoreMetadata.cpp:40
ome::compat::shared_ptr< double > getTimeIncrement()
Get the TimeIncrement property.
Definition: Pixels.cpp:618
void setSignificantBits(ome::compat::shared_ptr< ome::xml::model::primitives::PositiveInteger > &significantBits)
Set the SignificantBits property.
Definition: Pixels.cpp:779
ome::compat::shared_ptr< ome::xml::model::MetadataOnly > getMetadataOnly()
Get the MetadataOnly property.
Definition: Pixels.cpp:1030
Pixels model object.
Definition: Pixels.h:87
virtual void update(const common::xml::dom::Element &element, ome::xml::model::OMEModel &model)
Update the object hierarchy recursively from an XML DOM tree.
Definition: Pixels.cpp:331
const ome::xml::model::primitives::PositiveInteger & getSizeY() const
Get the SizeY property.
Definition: Pixels.cpp:716
void addPlane(ome::compat::shared_ptr< ome::xml::model::Plane > &plane)
Add Plane.
Definition: Pixels.cpp:1090
ome::compat::shared_ptr< bool > getInterleaved()
Get the Interleaved property.
Definition: Pixels.cpp:835
const ome::xml::model::primitives::PositiveInteger & getSizeT() const
Get the SizeT property.
Definition: Pixels.cpp:583
void setID(const std::string &id)
Set the ID property.
Definition: Pixels.cpp:828
static ome::compat::shared_ptr< Pixels > create(const common::xml::dom::Element &element, ome::xml::model::OMEModel &model)
Create a Pixels model object from DOM element.
Definition: Pixels.cpp:306
PixelType enumeration.
Definition: PixelType.h:69
ome::compat::shared_ptr< ome::xml::model::Channel > & getChannel(std::vector< ome::compat::shared_ptr< ome::xml::model::Channel > >::size_type index)
Get Channel.
Definition: Pixels.cpp:874
std::vector< ome::compat::shared_ptr< ome::xml::model::BinData > > & getBinDataList()
Get the BinData list.
Definition: Pixels.cpp:920
void setSizeC(const ome::xml::model::primitives::PositiveInteger &sizeC)
Set the SizeC property.
Definition: Pixels.cpp:793
ome::compat::shared_ptr< ome::xml::model::Plane > & getPlane(std::vector< ome::compat::shared_ptr< ome::xml::model::Plane > >::size_type index)
Get Plane.
Definition: Pixels.cpp:1069
const ome::xml::model::primitives::PositiveInteger & getSizeZ() const
Get the SizeZ property.
Definition: Pixels.cpp:730
void setSizeT(const ome::xml::model::primitives::PositiveInteger &sizeT)
Set the SizeT property.
Definition: Pixels.cpp:590
void removeChannel(ome::compat::shared_ptr< ome::xml::model::Channel > &channel)
Remove Channel.
Definition: Pixels.cpp:903
const std::string & elementName() const
Get the element name of this model object.
Definition: Pixels.cpp:315
void setChannel(std::vector< ome::compat::shared_ptr< ome::xml::model::Channel > >::size_type index, ome::compat::shared_ptr< ome::xml::model::Channel > &channel)
Set Channel.
Definition: Pixels.cpp:886
ome::compat::shared_ptr< bool > getBigEndian()
Get the BigEndian property.
Definition: Pixels.cpp:744
virtual common::xml::dom::Element asXMLElementInternal(common::xml::dom::Document &document, common::xml::dom::Element &element) const
Transform the object hierarchy rooted at this element to XML.
Definition: Pixels.cpp:1176
void setPhysicalSizeZ(ome::compat::shared_ptr< ome::xml::model::primitives::PositiveFloat > &physicalSizeZ)
Set the PhysicalSizeZ property.
Definition: Pixels.cpp:695
Boost.Log compatibility.
ome::xml::model::enums::DimensionOrder & getDimensionOrder()
Get the DimensionOrder property.
Definition: Pixels.cpp:597
ome::compat::shared_ptr< ome::xml::model::BinData > & getBinData(std::vector< ome::compat::shared_ptr< ome::xml::model::BinData > >::size_type index)
Get BinData.
Definition: Pixels.cpp:932
std::vector< ome::compat::shared_ptr< ome::xml::model::Channel > > & getChannelList()
Get the Channel list.
Definition: Pixels.cpp:862
virtual common::xml::dom::Element asXMLElement(common::xml::dom::Document &document) const
Transform the object hierarchy rooted at this element to XML.
Definition: Pixels.cpp:1169
std::vector< ome::compat::shared_ptr< ome::xml::model::BinData > >::size_type sizeOfBinDataList() const
Get size of linked BinData list.
Definition: Pixels.cpp:914
A numeric type constrained to a subrange (or subranges) of its range limits.
Definition: ConstrainedNumeric.h:119
void removePlane(ome::compat::shared_ptr< ome::xml::model::Plane > &plane)
Remove Plane.
Definition: Pixels.cpp:1098
void setInterleaved(ome::compat::shared_ptr< bool > &interleaved)
Set the Interleaved property.
Definition: Pixels.cpp:849
Xerces-C modern C++ wrapper.
Definition: Base.h:53
const ome::compat::weak_ptr< ome::xml::model::Annotation > & getLinkedAnnotation(OMEModelObject::indexed_container< ome::xml::model::Annotation, ome::compat::weak_ptr >::type::size_type index) const
Get linked Annotation.
Definition: Pixels.cpp:1121
void setSizeX(const ome::xml::model::primitives::PositiveInteger &sizeX)
Set the SizeX property.
Definition: Pixels.cpp:709
void setBigEndian(ome::compat::shared_ptr< bool > &bigEndian)
Set the BigEndian property.
Definition: Pixels.cpp:758