/// url = 
    
    'http://hl7.org/fhir/StructureMap/MolecularSequence4to5'

    
/// name = 
    
    'MolecularSequence4to5'

    
/// title = 
    
    'FML Conversion for MolecularSequence: R4 to R5'

    
/// status = 
    
    'active'


    conceptmap
     "
orientationType    " {

      prefix 
s     = "
http://hl7.org/fhir/4.0/orientation-type    "

      prefix 
t     = "
    http://hl7.org/fhir/orientation-type
    "


  s    :
sense     -
 t    :
sense
  s    :
antisense     -
 t    :
antisense
    }


    conceptmap
     "
sequenceType    " {

      prefix 
s     = "
http://hl7.org/fhir/4.0/sequence-type    "

      prefix 
t     = "
    http://hl7.org/fhir/sequence-type
    "


  s    :
aa     -
 t    :
aa
  s    :
dna     -
 t    :
dna
  s    :
rna     -
 t    :
rna
    }


    conceptmap
     "
strandType    " {

      prefix 
s     = "
http://hl7.org/fhir/4.0/strand-type    "

      prefix 
t     = "
    http://hl7.org/fhir/strand-type
    "


  s    :
watson     -
 t    :
watson
  s    :
crick     -
 t    :
crick
    }


    uses
     "
http://hl7.org/fhir/4.0/StructureDefinition/MolecularSequence    " 
    alias 
MolecularSequenceR4     as 
    source

    uses
     "
    http://hl7.org/fhir/StructureDefinition/MolecularSequence
    " 
    alias 
MolecularSequenceR5     as 
    target


    imports
     "
http://hl7.org/fhir/StructureMap/*4to5    "


    group 
MolecularSequence    (
    source
     src
     : 
MolecularSequenceR4,     target
     tgt
     : 
MolecularSequenceR5    )
     extends 
DomainResource     <<type+>>
     {

  src.identifier    
 ->     
tgt.identifier    ;

  src.type     as 
    v
    
 ->     
tgt.type =     translate
    (
    v
    , 
    '#sequenceType'
    , 
    'code'
    )
    ;

  src.patient    
 ->     
tgt.subject    ;

  src.specimen    
 ->     
tgt.specimen    ;
     // 
    src.focus -> tgt.focus;

  src.device    
 ->     
tgt.device    ;

  src.performer    
 ->     
tgt.performer    ;

  src.referenceSeq     as 
    s
    
 ->     
tgt.relative     as 
    t
     then 
MolecularSequenceReferenceSeq    (
    s
    , 
    t
    )
    ;
     // 
    src.literal as s -> tgt.literal as t, t.observedSeq = s;

  src.variant     as 
    s
    
 ->     
tgt.relative     as 
    t
     then 
MolecularSequenceVariant    (
    s
    , 
    t
    )
    ;

    }


    group 
MolecularSequenceReferenceSeq    (
    source
     src
,     target
     tgt
    )
     extends 
BackboneElement     {

  src.chromosome     as 
    s
     where 
code = '1'    
 ->     
 tgt.startingSequence     as 
    t
    , 
 t.chromosome =     create
    (
    'CodeableConcept'
    )
     as 
    tc
    , 
 tc.coding =     create
    (
    'Coding'
    )
     as 
    tcc
    , 
 tcc.system =     'http://loinc.org'
    , 
 tcc.code =     'LA21254-0'
    , 
 tcc.display =     'Chromosome 1'
    ;

  src.chromosome     as 
    s
     where 
code = '2'    
 ->     
 tgt.startingSequence     as 
    t
    , 
 t.chromosome =     create
    (
    'CodeableConcept'
    )
     as 
    tc
    , 
 tc.coding =     create
    (
    'Coding'
    )
     as 
    tcc
    , 
 tcc.system =     'http://loinc.org'
    , 
 tcc.code =     'LA21255-7'
    , 
 tcc.display =     'Chromosome 2'
    ;

  src.chromosome     as 
    s
     where 
code = '3'    
 ->     
 tgt.startingSequence     as 
    t
    , 
 t.chromosome =     create
    (
    'CodeableConcept'
    )
     as 
    tc
    , 
 tc.coding =     create
    (
    'Coding'
    )
     as 
    tcc
    , 
 tcc.system =     'http://loinc.org'
    , 
 tcc.code =     'LA21256-5'
    , 
 tcc.display =     'Chromosome 3'
    ;

  src.chromosome     as 
    s
     where 
code = '4'    
 ->     
 tgt.startingSequence     as 
    t
    , 
 t.chromosome =     create
    (
    'CodeableConcept'
    )
     as 
    tc
    , 
 tc.coding =     create
    (
    'Coding'
    )
     as 
    tcc
    , 
 tcc.system =     'http://loinc.org'
    , 
 tcc.code =     'LA21257-3'
    , 
 tcc.display =     'Chromosome 4'
    ;

  src.chromosome     as 
    s
     where 
code = '5'    
 ->     
 tgt.startingSequence     as 
    t
    , 
 t.chromosome =     create
    (
    'CodeableConcept'
    )
     as 
    tc
    , 
 tc.coding =     create
    (
    'Coding'
    )
     as 
    tcc
    , 
 tcc.system =     'http://loinc.org'
    , 
 tcc.code =     'LA21258-1'
    , 
 tcc.display =     'Chromosome 5'
    ;

  src.chromosome     as 
    s
     where 
code = '6'    
 ->     
 tgt.startingSequence     as 
    t
    , 
 t.chromosome =     create
    (
    'CodeableConcept'
    )
     as 
    tc
    , 
 tc.coding =     create
    (
    'Coding'
    )
     as 
    tcc
    , 
 tcc.system =     'http://loinc.org'
    , 
 tcc.code =     'LA21259-9'
    , 
 tcc.display =     'Chromosome 6'
    ;

  src.chromosome     as 
    s
     where 
code = '7'    
 ->     
 tgt.startingSequence     as 
    t
    , 
 t.chromosome =     create
    (
    'CodeableConcept'
    )
     as 
    tc
    , 
 tc.coding =     create
    (
    'Coding'
    )
     as 
    tcc
    , 
 tcc.system =     'http://loinc.org'
    , 
 tcc.code =     'LA21260-7'
    , 
 tcc.display =     'Chromosome 7'
    ;

  src.chromosome     as 
    s
     where 
code = '8'    
 ->     
 tgt.startingSequence     as 
    t
    , 
 t.chromosome =     create
    (
    'CodeableConcept'
    )
     as 
    tc
    , 
 tc.coding =     create
    (
    'Coding'
    )
     as 
    tcc
    , 
 tcc.system =     'http://loinc.org'
    , 
 tcc.code =     'LA21261-5'
    , 
 tcc.display =     'Chromosome 8'
    ;

  src.chromosome     as 
    s
     where 
code = '9'    
 ->     
 tgt.startingSequence     as 
    t
    , 
 t.chromosome =     create
    (
    'CodeableConcept'
    )
     as 
    tc
    , 
 tc.coding =     create
    (
    'Coding'
    )
     as 
    tcc
    , 
 tcc.system =     'http://loinc.org'
    , 
 tcc.code =     'LA21262-3'
    , 
 tcc.display =     'Chromosome 9'
    ;

  src.chromosome     as 
    s
     where 
code = '10'    
 ->     
 tgt.startingSequence     as 
    t
    , 
 t.chromosome =     create
    (
    'CodeableConcept'
    )
     as 
    tc
    , 
 tc.coding =     create
    (
    'Coding'
    )
     as 
    tcc
    , 
 tcc.system =     'http://loinc.org'
    , 
 tcc.code =     'LA21263-1'
    , 
 tcc.display =     'Chromosome 10'
    ;

  src.chromosome     as 
    s
     where 
code = '11'    
 ->     
 tgt.startingSequence     as 
    t
    , 
 t.chromosome =     create
    (
    'CodeableConcept'
    )
     as 
    tc
    , 
 tc.coding =     create
    (
    'Coding'
    )
     as 
    tcc
    , 
 tcc.system =     'http://loinc.org'
    , 
 tcc.code =     'LA21264-9'
    , 
 tcc.display =     'Chromosome 11'
    ;

  src.chromosome     as 
    s
     where 
code = '12'    
 ->     
 tgt.startingSequence     as 
    t
    , 
 t.chromosome =     create
    (
    'CodeableConcept'
    )
     as 
    tc
    , 
 tc.coding =     create
    (
    'Coding'
    )
     as 
    tcc
    , 
 tcc.system =     'http://loinc.org'
    , 
 tcc.code =     'LA21265-6'
    , 
 tcc.display =     'Chromosome 12'
    ;

  src.chromosome     as 
    s
     where 
code = '13'    
 ->     
 tgt.startingSequence     as 
    t
    , 
 t.chromosome =     create
    (
    'CodeableConcept'
    )
     as 
    tc
    , 
 tc.coding =     create
    (
    'Coding'
    )
     as 
    tcc
    , 
 tcc.system =     'http://loinc.org'
    , 
 tcc.code =     'LA21266-4'
    , 
 tcc.display =     'Chromosome 13'
    ;

  src.chromosome     as 
    s
     where 
code = '14'    
 ->     
 tgt.startingSequence     as 
    t
    , 
 t.chromosome =     create
    (
    'CodeableConcept'
    )
     as 
    tc
    , 
 tc.coding =     create
    (
    'Coding'
    )
     as 
    tcc
    , 
 tcc.system =     'http://loinc.org'
    , 
 tcc.code =     'LA21267-2'
    , 
 tcc.display =     'Chromosome 14'
    ;

  src.chromosome     as 
    s
     where 
code = '15'    
 ->     
 tgt.startingSequence     as 
    t
    , 
 t.chromosome =     create
    (
    'CodeableConcept'
    )
     as 
    tc
    , 
 tc.coding =     create
    (
    'Coding'
    )
     as 
    tcc
    , 
 tcc.system =     'http://loinc.org'
    , 
 tcc.code =     'LA21268-0'
    , 
 tcc.display =     'Chromosome 15'
    ;

  src.chromosome     as 
    s
     where 
code = '16'    
 ->     
 tgt.startingSequence     as 
    t
    , 
 t.chromosome =     create
    (
    'CodeableConcept'
    )
     as 
    tc
    , 
 tc.coding =     create
    (
    'Coding'
    )
     as 
    tcc
    , 
 tcc.system =     'http://loinc.org'
    , 
 tcc.code =     'LA21269-8'
    , 
 tcc.display =     'Chromosome 16'
    ;

  src.chromosome     as 
    s
     where 
code = '17'    
 ->     
 tgt.startingSequence     as 
    t
    , 
 t.chromosome =     create
    (
    'CodeableConcept'
    )
     as 
    tc
    , 
 tc.coding =     create
    (
    'Coding'
    )
     as 
    tcc
    , 
 tcc.system =     'http://loinc.org'
    , 
 tcc.code =     'LA21270-6'
    , 
 tcc.display =     'Chromosome 17'
    ;

  src.chromosome     as 
    s
     where 
code = '18'    
 ->     
 tgt.startingSequence     as 
    t
    , 
 t.chromosome =     create
    (
    'CodeableConcept'
    )
     as 
    tc
    , 
 tc.coding =     create
    (
    'Coding'
    )
     as 
    tcc
    , 
 tcc.system =     'http://loinc.org'
    , 
 tcc.code =     'LA21271-4'
    , 
 tcc.display =     'Chromosome 18'
    ;

  src.chromosome     as 
    s
     where 
code = '19'    
 ->     
 tgt.startingSequence     as 
    t
    , 
 t.chromosome =     create
    (
    'CodeableConcept'
    )
     as 
    tc
    , 
 tc.coding =     create
    (
    'Coding'
    )
     as 
    tcc
    , 
 tcc.system =     'http://loinc.org'
    , 
 tcc.code =     'LA21272-2'
    , 
 tcc.display =     'Chromosome 19'
    ;

  src.chromosome     as 
    s
     where 
code = '20'    
 ->     
 tgt.startingSequence     as 
    t
    , 
 t.chromosome =     create
    (
    'CodeableConcept'
    )
     as 
    tc
    , 
 tc.coding =     create
    (
    'Coding'
    )
     as 
    tcc
    , 
 tcc.system =     'http://loinc.org'
    , 
 tcc.code =     'LA21273-0'
    , 
 tcc.display =     'Chromosome 20'
    ;

  src.chromosome     as 
    s
     where 
code = '21'    
 ->     
 tgt.startingSequence     as 
    t
    , 
 t.chromosome =     create
    (
    'CodeableConcept'
    )
     as 
    tc
    , 
 tc.coding =     create
    (
    'Coding'
    )
     as 
    tcc
    , 
 tcc.system =     'http://loinc.org'
    , 
 tcc.code =     'LA21274-8'
    , 
 tcc.display =     'Chromosome 21'
    ;

  src.chromosome     as 
    s
     where 
code = '22'    
 ->     
 tgt.startingSequence     as 
    t
    , 
 t.chromosome =     create
    (
    'CodeableConcept'
    )
     as 
    tc
    , 
 tc.coding =     create
    (
    'Coding'
    )
     as 
    tcc
    , 
 tcc.system =     'http://loinc.org'
    , 
 tcc.code =     'LA21275-5'
    , 
 tcc.display =     'Chromosome 22'
    ;

  src.chromosome     as 
    s
     where 
code = 'X'    
 ->     
 tgt.startingSequence     as 
    t
    , 
 t.chromosome =     create
    (
    'CodeableConcept'
    )
     as 
    tc
    , 
 tc.coding =     create
    (
    'Coding'
    )
     as 
    tcc
    , 
 tcc.system =     'http://loinc.org'
    , 
 tcc.code =     'LA21276-3'
    , 
 tcc.display =     'Chromosome X'
    ;

  src.chromosome     as 
    s
     where 
code = 'Y'    
 ->     
 tgt.startingSequence     as 
    t
    , 
 t.chromosome =     create
    (
    'CodeableConcept'
    )
     as 
    tc
    , 
 tc.coding =     create
    (
    'Coding'
    )
     as 
    tcc
    , 
 tcc.system =     'http://loinc.org'
    , 
 tcc.code =     'LA21277-1'
    , 
 tcc.display =     'Chromosome Y'
    ;

  src.referenceSeqId     : 
CodeableConcept     as 
    s
    
 ->     
 tgt.startingSequence     as 
    t
    , 
 t.sequence =     s
    ;

  src.referenceSeqPointer     : 
Reference     as 
    s
    
 ->     
 tgt.startingSequence     as 
    t
    , 
 t.sequence =     s
    ;

  src.referenceSeqString     : 
string     as 
    s
    
 ->     
 tgt.startingSequence     as 
    t
    , 
 t.sequence =     s
    ;

  src.windowStart     : 
integer     as 
    s
    
 ->     
 tgt.startingSequence     as 
    t
    , 
 t.windowStart =     s
    ;

  src.windowEnd     : 
integer     as 
    s
    
 ->     
 tgt.startingSequence     as 
    t
    , 
 t.windowEnd =     s
    ;

  src.orientation     as 
    v
    
 ->     
 tgt.startingSequence     as 
    t
    , 
 t.orientation =     translate
    (
    v
    , 
    '#orientationType'
    , 
    'code'
    )
    ;

  src.strand     as 
    v
    
 ->     
 tgt.startingSequence     as 
    t
    , 
 t.strand =     translate
    (
    v
    , 
    '#strandType'
    , 
    'code'
    )
    ;

    }


    group 
MolecularSequenceVariant    (
    source
     src
,     target
     tgt
    )
     extends 
BackboneElement     {

  src.start     : 
integer     as 
    s
    
 ->     
 tgt.edit     as 
    t
    , 
 t.start =     s
    ;

  src.end     : 
integer     as 
    s
    
 ->     
 tgt.edit     as 
    t
    , 
 t.end =     s
    ;

  src.observedAllele     as 
    s
    
 ->     
 tgt.edit     as 
    t
    , 
 t.replacementSequence =     s
    ;

  src.referenceAllele     as 
    s
    
 ->     
 tgt.edit     as 
    t
    , 
 t.replacedSequence =     s
    ;

    }