44 #include "../Sequence.h" 45 #include "../Container/SequenceContainer.h" 46 #include "../Container/AlignedSequenceContainer.h" 98 return "See http://en.wikipedia.org/wiki/Stockholm_format";
void checkNames(bool yn)
Tell whether the sequence names should be checked when reading from files.
The SiteContainer interface.
This alphabet is used to deal NumericAlphabet.
The Stockholm alignment file format.
void writeAlignment(const std::string &path, const SiteContainer &sc, bool overwrite=true) const
Write a container to a file.
const std::string getFormatName() const
void writeAlignment(std::ostream &output, const SiteContainer &sc) const
Write a container to a stream.
Stockholm(bool checkSequenceNames=true)
Build a new Stockholm object.
const std::string getFormatDescription() const
Partial implementation of the OAlignment interface.
void writeAlignment(std::ostream &output, const SiteContainer &sc) const =0
Write a container to a stream.