# This file was created automatically by SWIG.
# Don't modify this file, modify the SWIG interface instead.
# This file is compatible with both classic and new-style classes.

Modules
		TAMO.MD._MDsupport types

Classes
		__builtin__.object DoubleVector DoubleVectorPtr IntVector IntVectorPtr Probe ProbePtr Probelist ProbelistPtr Probelist_str Probelist_strPtr SeqMat SeqMatPtr   class DoubleVector(__builtin__.object)       Methods defined here: __del__(self, destroy=<built-in function delete_DoubleVector>) __delitem__(*args) __delslice__(*args) __getattr__ lambda self, name __getitem__(*args) __getslice__(*args) __init__(self, *args) __len__(*args) __nonzero__(*args) __repr__(self) __setattr__ lambda self, name, value __setitem__(*args) __setslice__(*args) append(*args) clear(*args) pop(*args) Data and other attributes defined here: __dict__ = <dictproxy object> dictionary for instance variables (if defined) __swig_getmethods__ = {} __swig_setmethods__ = {} __weakref__ = <attribute '__weakref__' of 'DoubleVector' objects> list of weak references to the object (if defined)   class DoubleVectorPtr(DoubleVector)       Method resolution order: DoubleVectorPtr DoubleVector __builtin__.object Methods defined here: __init__(self, this) Methods inherited from DoubleVector: __del__(self, destroy=<built-in function delete_DoubleVector>) __delitem__(*args) __delslice__(*args) __getattr__ lambda self, name __getitem__(*args) __getslice__(*args) __len__(*args) __nonzero__(*args) __repr__(self) __setattr__ lambda self, name, value __setitem__(*args) __setslice__(*args) append(*args) clear(*args) pop(*args) Data and other attributes inherited from DoubleVector: __dict__ = <dictproxy object> dictionary for instance variables (if defined) __swig_getmethods__ = {} __swig_setmethods__ = {} __weakref__ = <attribute '__weakref__' of 'DoubleVector' objects> list of weak references to the object (if defined)   class IntVector(__builtin__.object)       Methods defined here: __del__(self, destroy=<built-in function delete_IntVector>) __delitem__(*args) __delslice__(*args) __getattr__ lambda self, name __getitem__(*args) __getslice__(*args) __init__(self, *args) __len__(*args) __nonzero__(*args) __repr__(self) __setattr__ lambda self, name, value __setitem__(*args) __setslice__(*args) append(*args) clear(*args) pop(*args) Data and other attributes defined here: __dict__ = <dictproxy object> dictionary for instance variables (if defined) __swig_getmethods__ = {} __swig_setmethods__ = {} __weakref__ = <attribute '__weakref__' of 'IntVector' objects> list of weak references to the object (if defined)   class IntVectorPtr(IntVector)       Method resolution order: IntVectorPtr IntVector __builtin__.object Methods defined here: __init__(self, this) Methods inherited from IntVector: __del__(self, destroy=<built-in function delete_IntVector>) __delitem__(*args) __delslice__(*args) __getattr__ lambda self, name __getitem__(*args) __getslice__(*args) __len__(*args) __nonzero__(*args) __repr__(self) __setattr__ lambda self, name, value __setitem__(*args) __setslice__(*args) append(*args) clear(*args) pop(*args) Data and other attributes inherited from IntVector: __dict__ = <dictproxy object> dictionary for instance variables (if defined) __swig_getmethods__ = {} __swig_setmethods__ = {} __weakref__ = <attribute '__weakref__' of 'IntVector' objects> list of weak references to the object (if defined)   class Probe(__builtin__.object)       Methods defined here: __del__(self, destroy=<built-in function delete_Probe>) __getattr__ lambda self, name __init__(self, *args) __repr__(self) __setattr__ lambda self, name, value Properties defined here: Zs get = Probe_Zs_get(...) set = Probe_Zs_set(...) iseq get = Probe_iseq_get(...) set = Probe_iseq_set(...) len get = Probe_len_get(...) set = Probe_len_set(...) probebg get = Probe_probebg_get(...) set = Probe_probebg_set(...) wmerbgs get = Probe_wmerbgs_get(...) set = Probe_wmerbgs_set(...) Data and other attributes defined here: __dict__ = <dictproxy object> dictionary for instance variables (if defined) __swig_getmethods__ = {'Zs': <built-in function Probe_Zs_get>, 'iseq': <built-in function Probe_iseq_get>, 'len': <built-in function Probe_len_get>, 'probebg': <built-in function Probe_probebg_get>, 'wmerbgs': <built-in function Probe_wmerbgs_get>} __swig_setmethods__ = {'Zs': <built-in function Probe_Zs_set>, 'iseq': <built-in function Probe_iseq_set>, 'len': <built-in function Probe_len_set>, 'probebg': <built-in function Probe_probebg_set>, 'wmerbgs': <built-in function Probe_wmerbgs_set>} __weakref__ = <attribute '__weakref__' of 'Probe' objects> list of weak references to the object (if defined)   class ProbePtr(Probe)       Method resolution order: ProbePtr Probe __builtin__.object Methods defined here: __init__(self, this) Methods inherited from Probe: __del__(self, destroy=<built-in function delete_Probe>) __getattr__ lambda self, name __repr__(self) __setattr__ lambda self, name, value Properties inherited from Probe: Zs get = Probe_Zs_get(...) set = Probe_Zs_set(...) iseq get = Probe_iseq_get(...) set = Probe_iseq_set(...) len get = Probe_len_get(...) set = Probe_len_set(...) probebg get = Probe_probebg_get(...) set = Probe_probebg_set(...) wmerbgs get = Probe_wmerbgs_get(...) set = Probe_wmerbgs_set(...) Data and other attributes inherited from Probe: __dict__ = <dictproxy object> dictionary for instance variables (if defined) __swig_getmethods__ = {'Zs': <built-in function Probe_Zs_get>, 'iseq': <built-in function Probe_iseq_get>, 'len': <built-in function Probe_len_get>, 'probebg': <built-in function Probe_probebg_get>, 'wmerbgs': <built-in function Probe_wmerbgs_get>} __swig_setmethods__ = {'Zs': <built-in function Probe_Zs_set>, 'iseq': <built-in function Probe_iseq_set>, 'len': <built-in function Probe_len_set>, 'probebg': <built-in function Probe_probebg_set>, 'wmerbgs': <built-in function Probe_wmerbgs_set>} __weakref__ = <attribute '__weakref__' of 'Probe' objects> list of weak references to the object (if defined)   class Probelist(__builtin__.object)       Methods defined here: __del__(self, destroy=<built-in function delete_Probelist>) __getattr__ lambda self, name __init__(self, *args) __repr__(self) __setattr__ lambda self, name, value append(*args) get_Z(*args) get_Zlist(*args) Properties defined here: count get = Probelist_count_get(...) set = Probelist_count_set(...) probes get = Probelist_probes_get(...) set = Probelist_probes_set(...) Data and other attributes defined here: __dict__ = <dictproxy object> dictionary for instance variables (if defined) __swig_getmethods__ = {'count': <built-in function Probelist_count_get>, 'probes': <built-in function Probelist_probes_get>} __swig_setmethods__ = {'count': <built-in function Probelist_count_set>, 'probes': <built-in function Probelist_probes_set>} __weakref__ = <attribute '__weakref__' of 'Probelist' objects> list of weak references to the object (if defined)   class ProbelistPtr(Probelist)       Method resolution order: ProbelistPtr Probelist __builtin__.object Methods defined here: __init__(self, this) Methods inherited from Probelist: __del__(self, destroy=<built-in function delete_Probelist>) __getattr__ lambda self, name __repr__(self) __setattr__ lambda self, name, value append(*args) get_Z(*args) get_Zlist(*args) Properties inherited from Probelist: count get = Probelist_count_get(...) set = Probelist_count_set(...) probes get = Probelist_probes_get(...) set = Probelist_probes_set(...) Data and other attributes inherited from Probelist: __dict__ = <dictproxy object> dictionary for instance variables (if defined) __swig_getmethods__ = {'count': <built-in function Probelist_count_get>, 'probes': <built-in function Probelist_probes_get>} __swig_setmethods__ = {'count': <built-in function Probelist_count_set>, 'probes': <built-in function Probelist_probes_set>} __weakref__ = <attribute '__weakref__' of 'Probelist' objects> list of weak references to the object (if defined)   class Probelist_str(__builtin__.object)       Methods defined here: __del__(self, destroy=<built-in function delete_Probelist_str>) __getattr__ lambda self, name __init__(self, *args) __repr__(self) __setattr__ lambda self, name, value append(*args) count_re_matches(*args) Properties defined here: count get = Probelist_str_count_get(...) set = Probelist_str_count_set(...) probes get = Probelist_str_probes_get(...) set = Probelist_str_probes_set(...) Data and other attributes defined here: __dict__ = <dictproxy object> dictionary for instance variables (if defined) __swig_getmethods__ = {'count': <built-in function Probelist_str_count_get>, 'probes': <built-in function Probelist_str_probes_get>} __swig_setmethods__ = {'count': <built-in function Probelist_str_count_set>, 'probes': <built-in function Probelist_str_probes_set>} __weakref__ = <attribute '__weakref__' of 'Probelist_str' objects> list of weak references to the object (if defined)   class Probelist_strPtr(Probelist_str)       Method resolution order: Probelist_strPtr Probelist_str __builtin__.object Methods defined here: __init__(self, this) Methods inherited from Probelist_str: __del__(self, destroy=<built-in function delete_Probelist_str>) __getattr__ lambda self, name __repr__(self) __setattr__ lambda self, name, value append(*args) count_re_matches(*args) Properties inherited from Probelist_str: count get = Probelist_str_count_get(...) set = Probelist_str_count_set(...) probes get = Probelist_str_probes_get(...) set = Probelist_str_probes_set(...) Data and other attributes inherited from Probelist_str: __dict__ = <dictproxy object> dictionary for instance variables (if defined) __swig_getmethods__ = {'count': <built-in function Probelist_str_count_get>, 'probes': <built-in function Probelist_str_probes_get>} __swig_setmethods__ = {'count': <built-in function Probelist_str_count_set>, 'probes': <built-in function Probelist_str_probes_set>} __weakref__ = <attribute '__weakref__' of 'Probelist_str' objects> list of weak references to the object (if defined)   class SeqMat(__builtin__.object)       Methods defined here: EMstep(*args) __del__(self, destroy=<built-in function delete_SeqMat>) __getattr__ lambda self, name __init__(self, *args) __repr__(self) __setattr__ lambda self, name, value compute_ambig(*args) get(*args) get_c(*args) loglikelihood(*args) matchstarts(*args) scanbest(*args) score(*args) score_probe(*args) set(*args) setBg(*args) setmask(*args) sumscoresabove(*args) Properties defined here: beta get = SeqMat_beta_get(...) set = SeqMat_beta_set(...) bg get = SeqMat_bg_get(...) set = SeqMat_bg_set(...) deltamin get = SeqMat_deltamin_get(...) set = SeqMat_deltamin_set(...) gamma get = SeqMat_gamma_get(...) set = SeqMat_gamma_set(...) gamma_wt get = SeqMat_gamma_wt_get(...) set = SeqMat_gamma_wt_set(...) joint get = SeqMat_joint_get(...) set = SeqMat_joint_set(...) mask get = SeqMat_mask_get(...) set = SeqMat_mask_set(...) width get = SeqMat_width_get(...) set = SeqMat_width_set(...) Data and other attributes defined here: __dict__ = <dictproxy object> dictionary for instance variables (if defined) __swig_getmethods__ = {'beta': <built-in function SeqMat_beta_get>, 'bg': <built-in function SeqMat_bg_get>, 'deltamin': <built-in function SeqMat_deltamin_get>, 'gamma': <built-in function SeqMat_gamma_get>, 'gamma_wt': <built-in function SeqMat_gamma_wt_get>, 'joint': <built-in function SeqMat_joint_get>, 'mask': <built-in function SeqMat_mask_get>, 'width': <built-in function SeqMat_width_get>} __swig_setmethods__ = {'beta': <built-in function SeqMat_beta_set>, 'bg': <built-in function SeqMat_bg_set>, 'deltamin': <built-in function SeqMat_deltamin_set>, 'gamma': <built-in function SeqMat_gamma_set>, 'gamma_wt': <built-in function SeqMat_gamma_wt_set>, 'joint': <built-in function SeqMat_joint_set>, 'mask': <built-in function SeqMat_mask_set>, 'width': <built-in function SeqMat_width_set>} __weakref__ = <attribute '__weakref__' of 'SeqMat' objects> list of weak references to the object (if defined)   class SeqMatPtr(SeqMat)       Method resolution order: SeqMatPtr SeqMat __builtin__.object Methods defined here: __init__(self, this) Methods inherited from SeqMat: EMstep(*args) __del__(self, destroy=<built-in function delete_SeqMat>) __getattr__ lambda self, name __repr__(self) __setattr__ lambda self, name, value compute_ambig(*args) get(*args) get_c(*args) loglikelihood(*args) matchstarts(*args) scanbest(*args) score(*args) score_probe(*args) set(*args) setBg(*args) setmask(*args) sumscoresabove(*args) Properties inherited from SeqMat: beta get = SeqMat_beta_get(...) set = SeqMat_beta_set(...) bg get = SeqMat_bg_get(...) set = SeqMat_bg_set(...) deltamin get = SeqMat_deltamin_get(...) set = SeqMat_deltamin_set(...) gamma get = SeqMat_gamma_get(...) set = SeqMat_gamma_set(...) gamma_wt get = SeqMat_gamma_wt_get(...) set = SeqMat_gamma_wt_set(...) joint get = SeqMat_joint_get(...) set = SeqMat_joint_set(...) mask get = SeqMat_mask_get(...) set = SeqMat_mask_set(...) width get = SeqMat_width_get(...) set = SeqMat_width_set(...) Data and other attributes inherited from SeqMat: __dict__ = <dictproxy object> dictionary for instance variables (if defined) __swig_getmethods__ = {'beta': <built-in function SeqMat_beta_get>, 'bg': <built-in function SeqMat_bg_get>, 'deltamin': <built-in function SeqMat_deltamin_get>, 'gamma': <built-in function SeqMat_gamma_get>, 'gamma_wt': <built-in function SeqMat_gamma_wt_get>, 'joint': <built-in function SeqMat_joint_get>, 'mask': <built-in function SeqMat_mask_get>, 'width': <built-in function SeqMat_width_get>} __swig_setmethods__ = {'beta': <built-in function SeqMat_beta_set>, 'bg': <built-in function SeqMat_bg_set>, 'deltamin': <built-in function SeqMat_deltamin_set>, 'gamma': <built-in function SeqMat_gamma_set>, 'gamma_wt': <built-in function SeqMat_gamma_wt_set>, 'joint': <built-in function SeqMat_joint_set>, 'mask': <built-in function SeqMat_mask_set>, 'width': <built-in function SeqMat_width_set>} __weakref__ = <attribute '__weakref__' of 'SeqMat' objects> list of weak references to the object (if defined)

Functions
		Motif2c_PSSM(motif) list2double(...) log2_sum(...) print_seq(...) printdouble(...) seq2int(...)