Package goby :: Module Alignments_pb2
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Module Alignments_pb2

source code

Classes [hide private]
  AlignmentCollection
  AlignmentEntry
  SequenceVariation
  AlignmentHeader
  IdentifierMapping
  IdentifierInfo
  AlignmentTooManyHits
  AmbiguousLocation
  AlignmentIndex
Variables [hide private]
  DESCRIPTOR = descriptor.FileDescriptor(name= 'Alignments.proto...
  _ALIGNMENTCOLLECTION = descriptor.Descriptor(name= 'AlignmentC...
  _ALIGNMENTENTRY = descriptor.Descriptor(name= 'AlignmentEntry'...
  _SEQUENCEVARIATION = descriptor.Descriptor(name= 'SequenceVari...
  _ALIGNMENTHEADER = descriptor.Descriptor(name= 'AlignmentHeade...
  _IDENTIFIERMAPPING = descriptor.Descriptor(name= 'IdentifierMa...
  _IDENTIFIERINFO = descriptor.Descriptor(name= 'IdentifierInfo'...
  _ALIGNMENTTOOMANYHITS = descriptor.Descriptor(name= 'Alignment...
  _AMBIGUOUSLOCATION = descriptor.Descriptor(name= 'AmbiguousLoc...
  _ALIGNMENTINDEX = descriptor.Descriptor(name= 'AlignmentIndex'...
  __package__ = 'goby'
Variables Details [hide private]

DESCRIPTOR

Value:
descriptor.FileDescriptor(name= 'Alignments.proto', package= 'goby', s\
erialized_pb= '\n\x10\x41lignments.proto\x12\x04goby\"E\n\x13\x41lignm\
entCollection\x12.\n\x10\x61lignmentEntries\x18\x01 \x03(\x0b\x32\x14.\
goby.AlignmentEntry\"\xeb\x02\n\x0e\x41lignmentEntry\x12\x14\n\x0cmult\
iplicity\x18\x07 \x01(\r\x12\x13\n\x0bquery_index\x18\x01 \x02(\r\x12\\
x14\n\x0ctarget_index\x18\x02 \x02(\r\x12\x10\n\x08position\x18\x03 \x\
02(\r\x12\x1f\n\x17matching_reverse_strand\x18\x06 \x02(\x08\x12\x16\n\
\x0equery_position\x18\x05 \x01(\r\x12\r\n\x05score\x18\x04 \x01(\x02\\
...

_ALIGNMENTCOLLECTION

Value:
descriptor.Descriptor(name= 'AlignmentCollection', full_name= 'goby.Al\
ignmentCollection', filename= None, file= DESCRIPTOR, containing_type=\
 None, fields= [descriptor.FieldDescriptor(name= 'alignmentEntries', f\
ull_name= 'goby.AlignmentCollection.alignmentEntries', index= 0, numbe\
r= 1, type= 11, cpp_type= 10, label= 3, has_default_value= False, defa\
ult_value= [], message_type= None, enum_type= None, containing_type= N\
one, is_extension= False, extension_scope= None, options= None),], ext\
ensions= [], nested_types= [], enum_types= [], options= None, is_exten\
...

_ALIGNMENTENTRY

Value:
descriptor.Descriptor(name= 'AlignmentEntry', full_name= 'goby.Alignme\
ntEntry', filename= None, file= DESCRIPTOR, containing_type= None, fie\
lds= [descriptor.FieldDescriptor(name= 'multiplicity', full_name= 'gob\
y.AlignmentEntry.multiplicity', index= 0, number= 7, type= 13, cpp_typ\
e= 3, label= 1, has_default_value= False, default_value= 0, message_ty\
pe= None, enum_type= None, containing_type= None, is_extension= False,\
 extension_scope= None, options= None), descriptor.FieldDescriptor(nam\
e= 'query_index', full_name= 'goby.AlignmentEntry.query_index', index=\
...

_SEQUENCEVARIATION

Value:
descriptor.Descriptor(name= 'SequenceVariation', full_name= 'goby.Sequ\
enceVariation', filename= None, file= DESCRIPTOR, containing_type= Non\
e, fields= [descriptor.FieldDescriptor(name= 'from', full_name= 'goby.\
SequenceVariation.from', index= 0, number= 2, type= 9, cpp_type= 9, la\
bel= 2, has_default_value= False, default_value= unicode("", "utf-8"),\
 message_type= None, enum_type= None, containing_type= None, is_extens\
ion= False, extension_scope= None, options= None), descriptor.FieldDes\
criptor(name= 'to', full_name= 'goby.SequenceVariation.to', index= 1, \
...

_ALIGNMENTHEADER

Value:
descriptor.Descriptor(name= 'AlignmentHeader', full_name= 'goby.Alignm\
entHeader', filename= None, file= DESCRIPTOR, containing_type= None, f\
ields= [descriptor.FieldDescriptor(name= 'smallestSplitQueryIndex', fu\
ll_name= 'goby.AlignmentHeader.smallestSplitQueryIndex', index= 0, num\
ber= 9, type= 13, cpp_type= 3, label= 1, has_default_value= False, def\
ault_value= 0, message_type= None, enum_type= None, containing_type= N\
one, is_extension= False, extension_scope= None, options= None), descr\
iptor.FieldDescriptor(name= 'largestSplitQueryIndex', full_name= 'goby\
...

_IDENTIFIERMAPPING

Value:
descriptor.Descriptor(name= 'IdentifierMapping', full_name= 'goby.Iden\
tifierMapping', filename= None, file= DESCRIPTOR, containing_type= Non\
e, fields= [descriptor.FieldDescriptor(name= 'mappings', full_name= 'g\
oby.IdentifierMapping.mappings', index= 0, number= 1, type= 11, cpp_ty\
pe= 10, label= 3, has_default_value= False, default_value= [], message\
_type= None, enum_type= None, containing_type= None, is_extension= Fal\
se, extension_scope= None, options= None),], extensions= [], nested_ty\
pes= [], enum_types= [], options= None, is_extendable= False, extensio\
...

_IDENTIFIERINFO

Value:
descriptor.Descriptor(name= 'IdentifierInfo', full_name= 'goby.Identif\
ierInfo', filename= None, file= DESCRIPTOR, containing_type= None, fie\
lds= [descriptor.FieldDescriptor(name= 'name', full_name= 'goby.Identi\
fierInfo.name', index= 0, number= 1, type= 9, cpp_type= 9, label= 2, h\
as_default_value= False, default_value= unicode("", "utf-8"), message_\
type= None, enum_type= None, containing_type= None, is_extension= Fals\
e, extension_scope= None, options= None), descriptor.FieldDescriptor(n\
ame= 'index', full_name= 'goby.IdentifierInfo.index', index= 1, number\
...

_ALIGNMENTTOOMANYHITS

Value:
descriptor.Descriptor(name= 'AlignmentTooManyHits', full_name= 'goby.A\
lignmentTooManyHits', filename= None, file= DESCRIPTOR, containing_typ\
e= None, fields= [descriptor.FieldDescriptor(name= 'alignerThreshold',\
 full_name= 'goby.AlignmentTooManyHits.alignerThreshold', index= 0, nu\
mber= 2, type= 13, cpp_type= 3, label= 2, has_default_value= False, de\
fault_value= 0, message_type= None, enum_type= None, containing_type= \
None, is_extension= False, extension_scope= None, options= None), desc\
riptor.FieldDescriptor(name= 'hits', full_name= 'goby.AlignmentTooMany\
...

_AMBIGUOUSLOCATION

Value:
descriptor.Descriptor(name= 'AmbiguousLocation', full_name= 'goby.Ambi\
guousLocation', filename= None, file= DESCRIPTOR, containing_type= Non\
e, fields= [descriptor.FieldDescriptor(name= 'query_index', full_name=\
 'goby.AmbiguousLocation.query_index', index= 0, number= 1, type= 13, \
cpp_type= 3, label= 2, has_default_value= False, default_value= 0, mes\
sage_type= None, enum_type= None, containing_type= None, is_extension=\
 False, extension_scope= None, options= None), descriptor.FieldDescrip\
tor(name= 'at_least_number_of_hits', full_name= 'goby.AmbiguousLocatio\
...

_ALIGNMENTINDEX

Value:
descriptor.Descriptor(name= 'AlignmentIndex', full_name= 'goby.Alignme\
ntIndex', filename= None, file= DESCRIPTOR, containing_type= None, fie\
lds= [descriptor.FieldDescriptor(name= 'targetPositionOffsets', full_n\
ame= 'goby.AlignmentIndex.targetPositionOffsets', index= 0, number= 1,\
 type= 13, cpp_type= 3, label= 3, has_default_value= False, default_va\
lue= [], message_type= None, enum_type= None, containing_type= None, i\
s_extension= False, extension_scope= None, options= descriptor._ParseO\
ptions(descriptor_pb2.FieldOptions(), '\020\001')), descriptor.FieldDe\
...