OEFilter¶

Constructors¶

OEFilter(unsigned int type=OEFilterType::Default)

The OEFilter object is usually constructed from an unsigned integer from the OEFilterType constant namespace. The default constructor will initialize the object to the OEFilterType.Default filter. The default filter is an alias for the OEFilterType.BlockBuster filter.

OEFilter(OEPlatform::oeistream &filterstr)

Fine grained filter control is provided by allowing a custom filter file to be passed to the OEFilter object as the filterstr argument.

OEFilter(const OEFilter &filter)

The OEFilter object can be copy constructed from another OEFilter object.

operator()¶

boolean call(OEMolBase mol)

Returns whether the molecule mol passes the OEFilter object’s set of filter rules. This function has been optimized by applying the filter rules in order of how expensive they are to calculate. For example, molecular weight is much easier to calculate than any of the functional group rules.

However, if an output stream has been specified using the OEFilter.SetTable method all the filter rules will be checked. This is the only way to ensure that all the fields are filled in the tabular data output to the stream specified in SetTable method.

operator bool¶

boolean IsValid()

Returns whether the OEFilter object is in a valid state ready to accept molecules to its OEFilter.operator() method.

AddNormalizationRule¶

bool AddNormalizationRule(const OEChem::OEUniMolecularRxn &rxn)

Add a OEUniMolecularRxn to apply to the molecule. Special note should be taken about what preprocessing has already occurred on the molecule before generic normalizations are applied as described by the Filter Preprocessing chapter.

ClearNormalizationRules¶

void ClearNormalizationRules()

Remove all normalizations previously added with OEFilter.AddNormalizationRule.

GetCanonOrder¶

bool GetCanonOrder() const

Returns whether to canonicalize the atom and bond order after salt removal but before the molecule is altered into a neutral pH model.

GetFilterType¶

unsigned int GetFilterType() const

Return the unsigned integer constant from the OEFilterType namespace corresponding to the type of filter used to construct this object.

GetFlagTableFailures¶

bool GetFlagTableFailures() const

Return whether values in tabular data output are flagged with an asterisk marking them as outside the valid range for that filter rule. This is useful for figuring out why particular molecules have failed a given filter.

GetMMFFTypeCheck¶

bool GetMMFFTypeCheck() const

Return whether molecules sent to OEFilter.operator() will be MMFF atom type checked before any other filtering criteria are applied. The default is false.

GetSDTag¶

bool GetSDTag() const

Return whether to attach every molecular property checked by the filter as SD data to the molecule passed to the OEFilter.operator() method. By default the the OEFilter object will not attach SD data.

GetTable¶

OEPlatform::oeostream *GetTable() const

Return the oeostream object that tabular data is sent to. Will return a zero-pointer, the default, if no output stream has been specified.

GetTypeCheck¶

bool GetTypeCheck() const

Return whether molecules sent to OEFilter.operator() will be type checked before any other filtering criteria are applied. The default is false.

GetpKaNormalize¶

bool GetpKaNormalize() const

Return whether the pKa state of molecules sent to OEFilter.operator() will be normalized to a neutral pH. The default is false.

ParseNewRules¶

bool ParseNewRules(OEPlatform::oeistream &rulefile)

Parse the data from the rulefile oeistream as a NEWRULE file. These rules will override any rules specified by the filter file given to the OEFilter constructors.

PrintConfig¶

void PrintConfig(OEPlatform::oeostream &log)

Print a human readable configuration of the object to the oeostream log.

SetCanonOrder¶

void SetCanonOrder(bool b)

Specify whether the molecule atom and bond order should be canonicalized after salt removal but before the molecule is altered into a neutral pH model.

SetFlagTableFailures¶

void SetFlagTableFailures(bool b)

Specify whether tabular output data should be marked with an asterisk if that value exceeds the limits specified by the filter.

SetMMFFTypeCheck¶

void SetMMFFTypeCheck(bool b)

Specify whether molecules sent to OEFilter.operator() will be MMFF atom type checked before any other filtering criteria are applied.

SetSDTag¶

void SetSDTag(bool b)

Specify whether to attach every molecular property checked by the filter as SD data to the molecule passed to the OEFilter.operator() method.

SetTable¶

void SetTable(OEPlatform::oeostream *table, bool owned)

Specify the oeostream object that tabular data is sent to. The owned parameter specifies whether the OEFilter object should take ownership of the table pointer. If owned is true the OEFilter destructor will delete the table pointer, otherwise, it is the user’s responsibility.

Specifying a zero-pointer will effectively turn off tabular output data.

SetTypeCheck¶

void SetTypeCheck(bool b)

Specify whether molecules sent to OEFilter.operator() will be type checked before any other filtering criteria are applied.

SetpKaNormalize¶

void SetpKaNormalize(bool b)

Specify whether the pKa state of molecules sent to OEFilter.operator() will be normalized to a neutral pH.