// LuaOp uses go-lua to run a lua snippet on a list of values and return a single value.
// It makes the chrom, start, end, and values available to the lua interpreter.
func (s *Source) LuaOp(v interfaces.IVariant, code string, vals []interface{}) string {
value, err := s.Vm.Run(code, map[string]interface{}{
"chrom": v.Chrom(),
"start": v.Start(),
"stop": v.End(),
"vals": vals})
if err != nil {
return fmt.Sprintf("lua-error: %s", err)
}
return fmt.Sprintf("%v", value)
}
// AnnotateOne annotates a single variant with the vals
func (s *Source) AnnotateOne(v interfaces.IVariant, vals []interface{}, prefix string) {
if len(vals) == 0 {
return
}
if s.code != "" {
luaval := s.LuaOp(v, s.code, vals)
if luaval == "true" || luaval == "false" && strings.Contains(s.Op, "_flag(") {
if luaval == "true" {
v.Info().Set(prefix+s.Name, true)
}
} else {
v.Info().Set(prefix+s.Name, luaval)
}
} else {
val := Reducers[s.Op](vals)
v.Info().Set(prefix+s.Name, val)
}
}
func (src *Source) AnnotateOne(v interfaces.IVariant, vals []interface{}, prefix string) {
if len(vals) == 0 {
return
}
if src.Js != nil {
jsval := src.JsOp(v, src.Js, vals)
if jsval == "true" || jsval == "false" && strings.Contains(src.Op, "_flag(") {
if jsval == "true" {
v.Info().Set(prefix+src.Name, true)
}
} else {
v.Info().Set(prefix+src.Name, jsval)
}
} else {
val := Reducers[src.Op](vals)
v.Info().Set(prefix+src.Name, val)
}
}
// JsOp uses Otto to run a javascript snippet on a list of values and return a single value.
// It makes the chrom, start, end, and values available to the js interpreter.
func (s *Source) JsOp(v interfaces.IVariant, js *otto.Script, vals []interface{}) string {
s.mu.Lock()
s.Vm.Set("chrom", v.Chrom())
s.Vm.Set("start", v.Start())
s.Vm.Set("end", v.End())
s.Vm.Set("vals", vals)
//s.Vm.Set("info", v.Info.String())
value, err := s.Vm.Run(js)
if err != nil {
return fmt.Sprintf("js-error: %s", err)
}
val, err := value.ToString()
s.mu.Unlock()
if err != nil {
log.Println("js-error:", err)
val = fmt.Sprintf("error:%s", err)
}
return val
}
// LuaOp uses go-lua to run a lua snippet on a list of values and return a single value.
// It makes the chrom, start, end, and values available to the lua interpreter.
func (s *Source) LuaOp(v interfaces.IVariant, code string, vals []interface{}) string {
value, err := s.Vm.Run(code, map[string]interface{}{
"chrom": v.Chrom(),
"start": v.Start(),
"stop": v.End(),
"ref": v.Ref(),
"alt": v.Alt(),
"vals": vals})
if err != nil {
log.Printf("ERROR in at %s:%d. %s\nvals:%+v", v.Chrom(), v.Start()+1, err, vals)
return fmt.Sprintf("err:%v", value)
}
return fmt.Sprintf("%v", value)
}