bioformats  5.1.8
Util.h
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3  * OME-BIOFORMATS C++ library for image IO.
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37 
38 #ifndef OME_BIOFORMATS_TIFF_UTIL_H
39 #define OME_BIOFORMATS_TIFF_UTIL_H
40 
41 #include <string>
42 #include <vector>
43 
44 #include <ome/common/filesystem.h>
45 
46 #include <ome/compat/memory.h>
47 
48 #include <ome/bioformats/CoreMetadata.h>
49 #include <ome/bioformats/TileCoverage.h>
50 #include <ome/bioformats/tiff/TileInfo.h>
51 #include <ome/bioformats/tiff/Types.h>
52 #include <ome/bioformats/VariantPixelBuffer.h>
53 
54 #include <ome/common/log.h>
55 
56 #include <ome/xml/model/enums/PixelType.h>
57 
58 namespace ome
59 {
60  namespace bioformats
61  {
62  namespace tiff
63  {
64 
65  class TIFF;
66  class IFD;
67 
74  ome::compat::shared_ptr<CoreMetadata>
75  makeCoreMetadata(const IFD& ifd);
76 
83  void
84  getCoreMetadata(const IFD& ifd,
85  CoreMetadata& core);
86 
93  struct IFDRange
94  {
96  boost::filesystem::path filename;
101  };
102 
104  typedef std::vector<IFDRange> SeriesIFDRange;
105 
115  ifdIndex(const SeriesIFDRange& seriesIFDRange,
116  dimension_size_type series,
117  dimension_size_type plane);
118 
141  bool
142  enableBigTIFF(const boost::optional<bool>& wantBig,
144  const boost::filesystem::path& filename,
145  ome::common::Logger& logger);
146 
147  }
148  }
149 }
150 
151 #endif // OME_BIOFORMATS_TIFF_UTIL_H
152 
153 /*
154  * Local Variables:
155  * mode:C++
156  * End:
157  */
logging::sources::severity_logger_mt< logging::trivial::severity_level > Logger
Message logger.
Definition: log.h:98
Memory type substitution.
bool enableBigTIFF(const boost::optional< bool > &wantBig, storage_size_type pixelSize, const boost::filesystem::path &filename, ome::common::Logger &logger)
Check if BigTIFF should be enabled.
Definition: Util.cpp:392
boost::filesystem::path filename
Filename of TIFF containing the IFDs.
Definition: Util.h:96
dimension_size_type begin
Start index.
Definition: Util.h:98
void getCoreMetadata(const IFD &ifd, CoreMetadata &core)
Get CoreMetadata from an IFD.
Definition: Util.cpp:145
Range of IFDs for an image series.
Definition: Util.h:93
dimension_size_type ifdIndex(const SeriesIFDRange &seriesIFDRange, dimension_size_type series, dimension_size_type plane)
Compute IFD index from IFD map and plane index.
Definition: Util.cpp:365
Boost.Filesystem compatibility.
storage_size_type pixelSize(const ::ome::xml::meta::MetadataRetrieve &meta, dimension_size_type series)
Get the total size of pixel data in a series.
Definition: MetadataTools.cpp:1166
Open Microscopy Environment C++ implementation.
Definition: CoreMetadata.cpp:40
std::vector< IFDRange > SeriesIFDRange
Mapping between series index and IFD range.
Definition: Util.h:104
uint64_t storage_size_type
Size type for storage size.
Definition: Types.h:65
Boost.Log compatibility.
dimension_size_type end
End index.
Definition: Util.h:100
std::size_t dimension_size_type
Size type for image dimensions.
Definition: Types.h:59
ome::compat::shared_ptr< CoreMetadata > makeCoreMetadata(const IFD &ifd)
Create CoreMetadata from an IFD.
Definition: Util.cpp:137