WSTester updated to work plus hopefully all the other changes that need to go into...

[jabaws.git] / binaries / src / ViennaRNA / H / read_epars.h

diff --git a/binaries/src/ViennaRNA/H/read_epars.h b/binaries/src/ViennaRNA/H/read_epars.h
new file mode 100644 (file)
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+++ b/binaries/src/ViennaRNA/H/read_epars.h
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+#ifndef __VIENNA_RNA_PACKAGE_READ_EPARS_H__
+#define __VIENNA_RNA_PACKAGE_READ_EPARS_H__
+
+/**
+ *  \addtogroup energy_parameters_rw
+ *  \brief  Read and Write energy parameter sets from and to text files
+ *
+ *  A default set of parameters, identical to the one described in
+ *  \cite mathews:2004 and \cite turner:2010, is compiled into the library.
+ *
+ *  @{
+ *  \file read_epars.h
+ *
+ */
+
+/**
+ *  \brief
+ *
+ */
+enum parset {
+  UNKNOWN= -1, QUIT,
+  S, S_H, HP, HP_H, B, B_H, IL, IL_H, MMH, MMH_H, MMI, MMI_H,
+  MMI1N, MMI1N_H, MMI23, MMI23_H, MMM, MMM_H, MME, MME_H, D5, D5_H, D3, D3_H,
+  INT11, INT11_H, INT21, INT21_H, INT22, INT22_H, ML, TL,
+  TRI, HEX, NIN, MISC};
+
+/**
+ *  \brief Read energy parameters from a file
+ * 
+ *  \param fname  The path to the file containing the energy parameters
+ */
+void  read_parameter_file(const char fname[]);
+
+/**
+ *  \brief Write energy parameters to a file
+ * 
+ *  \param fname  A filename (path) for the file where the current energy parameters will be written to
+ */
+void  write_parameter_file(const char fname[]);
+
+/**
+ *  \brief
+ *
+ */
+enum  parset gettype(const char *ident);
+
+/**
+ *  \brief
+ *
+ */
+char  *settype(enum parset s);
+
+/**
+ *  @}
+ */
+
+#endif