| RNAstructure Classes Version 6.2

Dynalign_object Member List

This is the complete list of members for Dynalign_object, including all inherited members.

align | Dynalign_object | private
AllocateForceAlign() | Dynalign_object | private
array | Dynalign_object | private
CommonConstructor() | Dynalign_object | private
compoundmessage | TwoRNA |
ct_templated | Dynalign_object | private
data | Dynalign_object | private
dsv_templated | Dynalign_object | private
Dynalign(const short int maxtrace=20, const short int bpwin=5, const short int awin=1, const short int percent=20, const short int imaxseparation=-99, const float gap=0.4, const bool singleinsert=true, const char savefile[]=NULL, const bool optimalonly=false, const short int singlefold_subopt_percent=30, const bool local=false, const short int numProcessors=1, const int maxpairs=-1) | Dynalign_object |
Dynalign_object() | Dynalign_object |
Dynalign_object(const char sequence1[], const char sequence2[], const bool IsRNA=true) | Dynalign_object |
Dynalign_object(const char filename1[], const RNAInputType type1, const char filename2[], const RNAInputType type2, const bool IsRNA=true) | Dynalign_object |
Dynalign_object(const char filename1[], const RNAInputType type1, const char filename2[], const RNAInputType type2, const Thermodynamics *thermo1) | Dynalign_object |
Dynalign_object(const char filename[]) | Dynalign_object |
Dynalign_object(const char *filename, const short maxtrace, const short bpwin, const short awin, const short percent) | Dynalign_object |
ErrorCodeTwo | TwoRNA | protected
forcealign | Dynalign_object | private
ForceAlignment(const int i, const int k) | Dynalign_object |
gap | Dynalign_object | private
GetBestPairEnergy(const int sequence, const int i, const int j) | Dynalign_object |
GetErrorCode() const | TwoRNA |
GetErrorDetails() const | TwoRNA |
GetErrorMessage(const int error) | Dynalign_object |
GetErrorMessageString(const int error) | TwoRNA |
GetForcedAlignment(const int i, const int seq) | Dynalign_object |
GetLowestEnergy() | Dynalign_object |
GetRNA1() | TwoRNA |
GetRNA2() | TwoRNA |
GetTemperature() const | TwoRNA |
highend | Dynalign_object | private
lastErrorDetails | TwoRNA | private
lowend | Dynalign_object | private
lowest | Dynalign_object | private
MAXDSV | Dynalign_object | private
Maxtrace | Dynalign_object | private
modificationflag | Dynalign_object | private
ReadAlignmentConstraints(const char filename[]) | Dynalign_object |
ResetError() | TwoRNA |
rna1 | TwoRNA | private
rna2 | TwoRNA | private
savefileread | Dynalign_object | private
SetErrorDetails(const string &details) | TwoRNA |
SetProgress(ProgressHandler &Progress) | Dynalign_object |
SetTemperature(double temperature) | TwoRNA |
StopProgress() | Dynalign_object |
storetemplatefilename(const char *name) | Dynalign_object | private
templatefilename | Dynalign_object | private
Templatefromct(const char ctfilename[]) | Dynalign_object |
Templatefromdsv(const char dsvfilename[], const float maxdsvchange) | Dynalign_object |
TwoRNA(const char sequence1[], const char sequence2[], bool IsRNA=true) | TwoRNA |
TwoRNA(const char filename1[], const RNAInputType type1, const char filename2[], const RNAInputType type2, bool IsRNA=true) | TwoRNA |
TwoRNA(const char filename1[], const RNAInputType type1, const char filename2[], const RNAInputType type2, const Thermodynamics *copyThermo) | TwoRNA |
TwoRNA() | TwoRNA |
v | Dynalign_object | private
vmod | Dynalign_object | private
w | Dynalign_object | private
w3 | Dynalign_object | private
w5 | Dynalign_object | private
WriteAlignment(const char filename[]) | Dynalign_object |
~Dynalign_object() | Dynalign_object |
~TwoRNA() | TwoRNA |