Field3D
Field3DFileBase Class Reference

#include <Field3DFile.h>

Inheritance diagram for Field3DFileBase:
Field3DInputFile Field3DInputFile Field3DOutputFile Field3DOutputFile

List of all members.

Classes

struct  LayerInfo

Public Types

typedef std::map< std::string,
std::string > 
GroupMembershipMap
typedef std::map< std::string,
std::string > 
GroupMembershipMap

Public Member Functions

void clear ()
 Clear the data structures and close the file.
void clear ()
 Clear the data structures and close the file.
bool close ()
 Closes the file. No need to call this unless you specifically want to close the file early. It will close once the File object goes out of scope.
bool close ()
 Closes the file. No need to call this unless you specifically want to close the file early. It will close once the File object goes out of scope.
const FieldMetadata
< Field3DFileBase > & 
metadata () const
 Read only access to the m_metadata class.
FieldMetadata< Field3DFileBase > & metadata ()
 accessor to the m_metadata class
const FieldMetadata
< Field3DFileBase > & 
metadata () const
 Read only access to the m_metadata class.
FieldMetadata< Field3DFileBase > & metadata ()
 accessor to the m_metadata class
virtual void metadataHasChanged (const std::string &)
 This function should implemented by concrete classes to get the callback when metadata changes.
virtual void metadataHasChanged (const std::string &)
 This function should implemented by concrete classes to get the callback when metadata changes.
Constructors & destructor
 Field3DFileBase ()
virtual ~Field3DFileBase ()=0
 Pure virtual destructor to ensure we never instantiate this class.
 Field3DFileBase ()
virtual ~Field3DFileBase ()=0
 Pure virtual destructor to ensure we never instantiate this class.
Retreiving partition and layer names
void getPartitionNames (std::vector< std::string > &names) const
 Gets the names of all the partitions in the file.
void getScalarLayerNames (std::vector< std::string > &names, const std::string &partitionName) const
 Gets the names of all the scalar layers in a given partition.
void getVectorLayerNames (std::vector< std::string > &names, const std::string &partitionName) const
 Gets the names of all the vector layers in a given partition.
File::Partition::Ptr getPartition (const std::string &partitionName) const
 Returns a pointer to the given partition.
void getPartitionNames (std::vector< std::string > &names) const
 Gets the names of all the partitions in the file.
void getScalarLayerNames (std::vector< std::string > &names, const std::string &partitionName) const
 Gets the names of all the scalar layers in a given partition.
void getVectorLayerNames (std::vector< std::string > &names, const std::string &partitionName) const
 Gets the names of all the vector layers in a given partition.
File::Partition::Ptr getPartition (const std::string &partitionName) const
 Returns a pointer to the given partition.
Convenience methods for partitionName
std::string intPartitionName (const std::string &partitionName, const std::string &layerName, FieldRes::Ptr field)
 Returns a unique partition name given the requested name. This ensures that partitions with matching mappings get the same name but each subsequent differing mapping gets a new, separate name.
std::string removeUniqueId (const std::string &partitionName) const
 Strips any unique identifiers from the partition name and returns the original name.
void addGroupMembership (const GroupMembershipMap &groupMembers)
 Add to the group membership.
std::string intPartitionName (const std::string &partitionName, const std::string &layerName, FieldRes::Ptr field)
 Returns a unique partition name given the requested name. This ensures that partitions with matching mappings get the same name but each subsequent differing mapping gets a new, separate name.
std::string removeUniqueId (const std::string &partitionName) const
 Strips any unique identifiers from the partition name and returns the original name.
void addGroupMembership (const GroupMembershipMap &groupMembers)
 Add to the group membership.
Debug
void printHierarchy () const
void printHierarchy () const

Protected Types

typedef std::map< std::string,
int > 
PartitionCountMap
typedef std::map< std::string,
int > 
PartitionCountMap
typedef std::vector
< File::Partition::Ptr
PartitionList
typedef std::vector
< File::Partition::Ptr
PartitionList

Protected Member Functions

Convenience methods
void closeInternal ()
 Closes the file if open.
File::Partition::Ptr partition (const std::string &partitionName)
 Returns a pointer to the given partition.
File::Partition::Ptr partition (const std::string &partitionName) const
 Returns a pointer to the given partition.
void getIntPartitionNames (std::vector< std::string > &names) const
 Gets the names of all the -internal- partitions in the file.
void getIntScalarLayerNames (std::vector< std::string > &names, const std::string &intPartitionName) const
 Gets the names of all the scalar layers in a given partition, but assumes that partition name is the -internal- partition name.
void getIntVectorLayerNames (std::vector< std::string > &names, const std::string &intPartitionName) const
 Gets the names of all the vector layers in a given partition, but assumes that partition name is the -internal- partition name.
int numIntPartitions (const std::string &partitionName) const
 Returns the number of internal partitions for a given partition name.
std::string makeIntPartitionName (const std::string &partitionsName, int i) const
 Makes an internal partition name given the external partition name. Effectively just tacks on .X to the name, where X is the number.
void closeInternal ()
 Closes the file if open.
File::Partition::Ptr partition (const std::string &partitionName)
 Returns a pointer to the given partition.
File::Partition::Ptr partition (const std::string &partitionName) const
 Returns a pointer to the given partition.
void getIntPartitionNames (std::vector< std::string > &names) const
 Gets the names of all the -internal- partitions in the file.
void getIntScalarLayerNames (std::vector< std::string > &names, const std::string &intPartitionName) const
 Gets the names of all the scalar layers in a given partition, but assumes that partition name is the -internal- partition name.
void getIntVectorLayerNames (std::vector< std::string > &names, const std::string &intPartitionName) const
 Gets the names of all the vector layers in a given partition, but assumes that partition name is the -internal- partition name.
int numIntPartitions (const std::string &partitionName) const
 Returns the number of internal partitions for a given partition name.
std::string makeIntPartitionName (const std::string &partitionsName, int i) const
 Makes an internal partition name given the external partition name. Effectively just tacks on .X to the name, where X is the number.

Protected Attributes

hid_t m_file
 The hdf5 id of the current file. Will be -1 if no file is open.
GroupMembershipMap m_groupMembership
 Keeps track of group membership for each layer of partition name. The key is the "group" and the value is a space separated list of "partitionName.0:Layer1 partitionName.1:Layer0 ...".
std::vector< LayerInfom_layerInfo
 This stores layer info.
FieldMetadata< Field3DFileBasem_metadata
 metadata
PartitionCountMap m_partitionCount
 Contains a counter for each partition name. This is used to keep multiple fields with the same name unique in the file.
std::vector< std::string > m_partitionNames
 This stores partition names.
PartitionList m_partitions
 Vector of partitions.

Private Member Functions

 Field3DFileBase (const Field3DFileBase &)
 Field3DFileBase (const Field3DFileBase &)
void operator= (const Field3DFileBase &)
void operator= (const Field3DFileBase &)

Detailed Description

Provides some common functionality for Field3DInputFile and Field3DOutputFile. It hold the partition->layer data structures, but knows nothing about how to actually get them to/from disk.

Definition at line 208 of file Field3DFile.h.


Member Typedef Documentation

typedef std::map<std::string, std::string> Field3DFileBase::GroupMembershipMap

Definition at line 226 of file Field3DFile.h.

typedef std::vector<File::Partition::Ptr> Field3DFileBase::PartitionList [protected]

Definition at line 315 of file Field3DFile.h.

typedef std::map<std::string, int> Field3DFileBase::PartitionCountMap [protected]

Definition at line 316 of file Field3DFile.h.

typedef std::map<std::string, std::string> Field3DFileBase::GroupMembershipMap

Definition at line 226 of file Field3DFile.h.

typedef std::vector<File::Partition::Ptr> Field3DFileBase::PartitionList [protected]

Definition at line 315 of file Field3DFile.h.

typedef std::map<std::string, int> Field3DFileBase::PartitionCountMap [protected]

Definition at line 316 of file Field3DFile.h.


Constructor & Destructor Documentation

Field3DFileBase::Field3DFileBase ( )

Definition at line 276 of file Field3DFile.cpp.

  : m_file(-1), m_metadata(this)
{
  // Suppressing HDF error messages
  // Explanation about the function for the error stack is here:
  // http://www.hdfgroup.org/HDF5/doc/RM/RM_H5E.html#Error-SetAuto2
  if (getenv("DEBUG_HDF")) {
    cerr << "Field3DFile -- HDF5 messages are on" << endl;
    H5Eset_auto(H5E_DEFAULT, localPrintError, NULL);
  } else {
    H5Eset_auto(H5E_DEFAULT, NULL, NULL);
  }
}
Field3DFileBase::~Field3DFileBase ( ) [pure virtual]

Pure virtual destructor to ensure we never instantiate this class.

Definition at line 292 of file Field3DFile.cpp.

References close().

{
  close();
}
Field3DFileBase::Field3DFileBase ( const Field3DFileBase ) [private]
Field3DFileBase::Field3DFileBase ( )
virtual Field3DFileBase::~Field3DFileBase ( ) [pure virtual]

Pure virtual destructor to ensure we never instantiate this class.

Field3DFileBase::Field3DFileBase ( const Field3DFileBase ) [private]

Member Function Documentation

void Field3DFileBase::clear ( )

Clear the data structures and close the file.

Definition at line 471 of file Field3DFile.cpp.

References closeInternal(), m_groupMembership, and m_partitions.

Referenced by Field3DInputFile::~Field3DInputFile().

{
  closeInternal();
  m_partitions.clear();
  m_groupMembership.clear();
}
bool Field3DFileBase::close ( )

Closes the file. No need to call this unless you specifically want to close the file early. It will close once the File object goes out of scope.

Definition at line 480 of file Field3DFile.cpp.

References closeInternal().

Referenced by ~Field3DFileBase().

{
  closeInternal();

  return true;
}
void Field3DFileBase::getPartitionNames ( std::vector< std::string > &  names) const

Gets the names of all the partitions in the file.

Referenced by printFileInfo(), Field3DInputFile::readProxyScalarLayers(), and Field3DInputFile::readProxyVectorLayers().

void Field3DFileBase::getScalarLayerNames ( std::vector< std::string > &  names,
const std::string &  partitionName 
) const

Gets the names of all the scalar layers in a given partition.

Referenced by printFileInfo(), and Field3DInputFile::readProxyScalarLayers().

void Field3DFileBase::getVectorLayerNames ( std::vector< std::string > &  names,
const std::string &  partitionName 
) const

Gets the names of all the vector layers in a given partition.

Referenced by printFileInfo(), and Field3DInputFile::readProxyVectorLayers().

File::Partition::Ptr Field3DFileBase::getPartition ( const std::string &  partitionName) const [inline]

Returns a pointer to the given partition.

Returns:
NULL if no partition was found of that name

Definition at line 263 of file Field3DFile.h.

References partition().

  { return partition(partitionName); }
std::string Field3DFileBase::intPartitionName ( const std::string &  partitionName,
const std::string &  layerName,
FieldRes::Ptr  field 
)

Returns a unique partition name given the requested name. This ensures that partitions with matching mappings get the same name but each subsequent differing mapping gets a new, separate name.

Definition at line 300 of file Field3DFile.cpp.

References m_partitionCount, m_partitions, makeIntPartitionName(), and removeUniqueId().

Referenced by Field3DInputFile::readScalarLayer(), Field3DInputFile::readVectorLayer(), and Field3DOutputFile::writeLayer().

{
  // Loop over existing partitions and see if there's a matching mapping
  for (PartitionList::const_iterator i = m_partitions.begin();
       i != m_partitions.end(); ++i) {
    if (removeUniqueId((**i).name) == partitionName) {
      if ((**i).mapping->isIdentical(field->mapping())) {
        return (**i).name;
      }
    }
  }

  // If there was no previously matching name, then make a new one

  int nextIdx = -1;
  if (m_partitionCount.find(partitionName) != m_partitionCount.end()) {
    nextIdx = ++m_partitionCount[partitionName];
  } else {
    nextIdx = 0;
    m_partitionCount[partitionName] = 0;
  }

  return makeIntPartitionName(partitionName, nextIdx);
}
std::string Field3DFileBase::removeUniqueId ( const std::string &  partitionName) const

Strips any unique identifiers from the partition name and returns the original name.

Definition at line 357 of file Field3DFile.cpp.

Referenced by intPartitionName(), Field3DInputFile::readGroupMembership(), Field3DInputFile::readLayer(), Field3DInputFile::readProxyLayer(), Field3DInputFile::readScalarLayers(), and Field3DInputFile::readVectorLayers().

{
  size_t pos = partitionName.rfind(".");
  if (pos == partitionName.npos) {
    return partitionName;
  } else {
    return partitionName.substr(0, pos);
  }  
}
void Field3DFileBase::addGroupMembership ( const GroupMembershipMap groupMembers)

Add to the group membership.

Definition at line 533 of file Field3DFile.cpp.

References m_groupMembership.

{
  GroupMembershipMap::const_iterator i= groupMembers.begin();
  GroupMembershipMap::const_iterator end= groupMembers.end();

  for (; i != end; ++i) {
    GroupMembershipMap::iterator foundGroupIter = 
      m_groupMembership.find(i->first);
    if (foundGroupIter != m_groupMembership.end()){
      std::string value = m_groupMembership[i->first] + i->second;
      m_groupMembership[i->first] = value;
    } else { 
      m_groupMembership[i->first] = i->second;
    }
  }
}
FieldMetadata<Field3DFileBase>& Field3DFileBase::metadata ( ) [inline]

accessor to the m_metadata class

Definition at line 290 of file Field3DFile.h.

References m_metadata.

Referenced by printFileInfo(), Field3DInputFile::readMetadata(), writeGlobalMetadata(), and Field3DOutputFile::writeMetadata().

  { return m_metadata; }
const FieldMetadata<Field3DFileBase>& Field3DFileBase::metadata ( ) const [inline]

Read only access to the m_metadata class.

Definition at line 294 of file Field3DFile.h.

References m_metadata.

  { return m_metadata; }
virtual void Field3DFileBase::metadataHasChanged ( const std::string &  ) [inline, virtual]

This function should implemented by concrete classes to get the callback when metadata changes.

Definition at line 299 of file Field3DFile.h.

  { /* Empty */ }
void Field3DFileBase::printHierarchy ( ) const

Definition at line 1510 of file Field3DFile.cpp.

References m_partitions.

{
  // For each partition
  for (PartitionList::const_iterator i = m_partitions.begin();
       i != m_partitions.end(); ++i) {
    cout << "Name: " << (**i).name << endl;
    if ((**i).mapping)
      cout << "  Mapping: " << (**i).mapping->className() << endl;
    else 
      cout << "  Mapping: NULL" << endl;
    cout << "  Scalar layers: " << endl;
    vector<string> sNames;
    (**i).getScalarLayerNames(sNames);
    for_each(sNames.begin(), sNames.end(), print<string>(4));
    cout << "  Vector layers: " << endl;
    vector<string> vNames;
    (**i).getVectorLayerNames(vNames);
    for_each(vNames.begin(), vNames.end(), print<string>(4));
  }
}
void Field3DFileBase::closeInternal ( ) [protected]

Closes the file if open.

Definition at line 489 of file Field3DFile.cpp.

References m_file, Msg::print(), and Msg::SevWarning.

Referenced by clear(), and close().

{
  if (m_file != -1) {
    if (H5Fclose(m_file) < 0) {
      Msg::print(Msg::SevWarning, "Failed to close hdf5 file handle");
      return;
    }    
    m_file = -1;
  }
}
File::Partition::Ptr Field3DFileBase::partition ( const std::string &  partitionName) [protected]

Returns a pointer to the given partition.

Returns:
NULL if no partition was found of that name

Referenced by getPartition(), Field3DInputFile::readLayer(), Field3DInputFile::readPartitionAndLayerInfo(), Field3DInputFile::readProxyLayer(), and Field3DOutputFile::writeLayer().

File::Partition::Ptr Field3DFileBase::partition ( const std::string &  partitionName) const [protected]

Returns a pointer to the given partition.

Returns:
NULL if no partition was found of that name
void Field3DFileBase::getIntPartitionNames ( std::vector< std::string > &  names) const [protected]

Gets the names of all the -internal- partitions in the file.

Referenced by Field3DInputFile::readProxyLayer(), Field3DInputFile::readScalarLayers(), and Field3DInputFile::readVectorLayers().

void Field3DFileBase::getIntScalarLayerNames ( std::vector< std::string > &  names,
const std::string &  intPartitionName 
) const [protected]

Gets the names of all the scalar layers in a given partition, but assumes that partition name is the -internal- partition name.

Referenced by Field3DInputFile::readProxyLayer(), and Field3DInputFile::readScalarLayers().

void Field3DFileBase::getIntVectorLayerNames ( std::vector< std::string > &  names,
const std::string &  intPartitionName 
) const [protected]

Gets the names of all the vector layers in a given partition, but assumes that partition name is the -internal- partition name.

Referenced by Field3DInputFile::readProxyLayer(), and Field3DInputFile::readVectorLayers().

int Field3DFileBase::numIntPartitions ( const std::string &  partitionName) const [protected]

Returns the number of internal partitions for a given partition name.

Definition at line 503 of file Field3DFile.cpp.

References m_partitions.

{
  int count = 0;

  for (PartitionList::const_iterator i = m_partitions.begin();
       i != m_partitions.end(); ++i) {
    string name = (**i).name;
    size_t pos = name.rfind(".");
    if (pos != name.npos) {
      if (name.substr(0, pos) == partitionName) {
        count++;
      }
    }
  }

  return count;
}
string Field3DFileBase::makeIntPartitionName ( const std::string &  partitionsName,
int  i 
) const [protected]

Makes an internal partition name given the external partition name. Effectively just tacks on .X to the name, where X is the number.

Definition at line 524 of file Field3DFile.cpp.

Referenced by intPartitionName().

{
  return partitionName + "." + boost::lexical_cast<std::string>(i);
}
void Field3DFileBase::operator= ( const Field3DFileBase ) [private]
void Field3DFileBase::clear ( )

Clear the data structures and close the file.

bool Field3DFileBase::close ( )

Closes the file. No need to call this unless you specifically want to close the file early. It will close once the File object goes out of scope.

void Field3DFileBase::getPartitionNames ( std::vector< std::string > &  names) const

Gets the names of all the partitions in the file.

void Field3DFileBase::getScalarLayerNames ( std::vector< std::string > &  names,
const std::string &  partitionName 
) const

Gets the names of all the scalar layers in a given partition.

void Field3DFileBase::getVectorLayerNames ( std::vector< std::string > &  names,
const std::string &  partitionName 
) const

Gets the names of all the vector layers in a given partition.

File::Partition::Ptr Field3DFileBase::getPartition ( const std::string &  partitionName) const [inline]

Returns a pointer to the given partition.

Returns:
NULL if no partition was found of that name

Definition at line 263 of file Field3DFile.h.

References partition().

  { return partition(partitionName); }
std::string Field3DFileBase::intPartitionName ( const std::string &  partitionName,
const std::string &  layerName,
FieldRes::Ptr  field 
)

Returns a unique partition name given the requested name. This ensures that partitions with matching mappings get the same name but each subsequent differing mapping gets a new, separate name.

std::string Field3DFileBase::removeUniqueId ( const std::string &  partitionName) const

Strips any unique identifiers from the partition name and returns the original name.

void Field3DFileBase::addGroupMembership ( const GroupMembershipMap groupMembers)

Add to the group membership.

FieldMetadata<Field3DFileBase>& Field3DFileBase::metadata ( ) [inline]

accessor to the m_metadata class

Definition at line 290 of file Field3DFile.h.

References m_metadata.

  { return m_metadata; }
const FieldMetadata<Field3DFileBase>& Field3DFileBase::metadata ( ) const [inline]

Read only access to the m_metadata class.

Definition at line 294 of file Field3DFile.h.

References m_metadata.

  { return m_metadata; }
virtual void Field3DFileBase::metadataHasChanged ( const std::string &  ) [inline, virtual]

This function should implemented by concrete classes to get the callback when metadata changes.

Definition at line 299 of file Field3DFile.h.

  { /* Empty */ }
void Field3DFileBase::printHierarchy ( ) const
void Field3DFileBase::closeInternal ( ) [protected]

Closes the file if open.

File::Partition::Ptr Field3DFileBase::partition ( const std::string &  partitionName) [protected]

Returns a pointer to the given partition.

Returns:
NULL if no partition was found of that name
File::Partition::Ptr Field3DFileBase::partition ( const std::string &  partitionName) const [protected]

Returns a pointer to the given partition.

Returns:
NULL if no partition was found of that name
void Field3DFileBase::getIntPartitionNames ( std::vector< std::string > &  names) const [protected]

Gets the names of all the -internal- partitions in the file.

void Field3DFileBase::getIntScalarLayerNames ( std::vector< std::string > &  names,
const std::string &  intPartitionName 
) const [protected]

Gets the names of all the scalar layers in a given partition, but assumes that partition name is the -internal- partition name.

void Field3DFileBase::getIntVectorLayerNames ( std::vector< std::string > &  names,
const std::string &  intPartitionName 
) const [protected]

Gets the names of all the vector layers in a given partition, but assumes that partition name is the -internal- partition name.

int Field3DFileBase::numIntPartitions ( const std::string &  partitionName) const [protected]

Returns the number of internal partitions for a given partition name.

std::string Field3DFileBase::makeIntPartitionName ( const std::string &  partitionsName,
int  i 
) const [protected]

Makes an internal partition name given the external partition name. Effectively just tacks on .X to the name, where X is the number.

void Field3DFileBase::operator= ( const Field3DFileBase ) [private]

Member Data Documentation

std::vector< LayerInfo > Field3DFileBase::m_layerInfo [protected]

This stores layer info.

Definition at line 356 of file Field3DFile.h.

Referenced by Field3DInputFile::parseLayer(), and Field3DInputFile::readPartitionAndLayerInfo().

std::vector< std::string > Field3DFileBase::m_partitionNames [protected]

This stores partition names.

Definition at line 363 of file Field3DFile.h.

Referenced by Field3DInputFile::parsePartition(), and Field3DInputFile::readPartitionAndLayerInfo().

Contains a counter for each partition name. This is used to keep multiple fields with the same name unique in the file.

Definition at line 367 of file Field3DFile.h.

Referenced by intPartitionName().

Keeps track of group membership for each layer of partition name. The key is the "group" and the value is a space separated list of "partitionName.0:Layer1 partitionName.1:Layer0 ...".

Definition at line 372 of file Field3DFile.h.

Referenced by addGroupMembership(), clear(), Field3DInputFile::readGroupMembership(), and Field3DOutputFile::writeGroupMembership().

metadata

Definition at line 375 of file Field3DFile.h.

Referenced by metadata().


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