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serialize.go
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serialize.go
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package tiledb
/*
#cgo LDFLAGS: -ltiledb
#cgo linux LDFLAGS: -ldl
#include <tiledb/tiledb.h>
#include <tiledb/tiledb_serialization.h>
#include <stdio.h>
#include <stdlib.h>
*/
import "C"
import (
"fmt"
"reflect"
"runtime"
"unsafe"
)
// SerializeArraySchema serializes an array schema
func SerializeArraySchema(schema *ArraySchema, serializationType SerializationType, clientSide bool) ([]byte, error) {
var cClientSide C.int32_t
if clientSide {
cClientSide = 1
} else {
cClientSide = 0
}
buffer := Buffer{context: schema.context}
// Set finalizer for free C pointer on gc
runtime.SetFinalizer(&buffer, func(buffer *Buffer) {
buffer.Free()
})
ret := C.tiledb_serialize_array_schema(schema.context.tiledbContext, schema.tiledbArraySchema, C.tiledb_serialization_type_t(serializationType), cClientSide, &buffer.tiledbBuffer)
if ret != C.TILEDB_OK {
return nil, fmt.Errorf("Error serializing array schema: %s", schema.context.LastError())
}
return buffer.Serialize(serializationType)
}
// DeserializeArraySchema deserializes a new array schema from the given buffer
func DeserializeArraySchema(buffer *Buffer, serializationType SerializationType, clientSide bool) (*ArraySchema, error) {
schema := ArraySchema{context: buffer.context}
var cClientSide C.int32_t
if clientSide {
cClientSide = 1
} else {
cClientSide = 0
}
ret := C.tiledb_deserialize_array_schema(schema.context.tiledbContext, buffer.tiledbBuffer, C.tiledb_serialization_type_t(serializationType), cClientSide, &schema.tiledbArraySchema)
if ret != C.TILEDB_OK {
return nil, fmt.Errorf("Error deserializing array schema: %s", schema.context.LastError())
}
// Set finalizer for free C pointer on gc
// This needs to happen *after* the tiledb_deserialize_array_schema call
// because that may leave the arraySchema with a non-nil pointer
// to already-freed memory.
runtime.SetFinalizer(&schema, func(arraySchema *ArraySchema) {
arraySchema.Free()
})
return &schema, nil
}
// SerializeArrayNonEmptyDomain gets and serializes the array nonempty domain
func SerializeArrayNonEmptyDomain(a *Array, serializationType SerializationType) ([]byte, error) {
schema, err := a.Schema()
if err != nil {
return nil, err
}
domain, err := schema.Domain()
if err != nil {
return nil, err
}
domainType, err := domain.Type()
if err != nil {
return nil, err
}
ndims, err := domain.NDim()
if err != nil {
return nil, err
}
subarraySize := 2 * ndims * uint(domainType.Size())
var isEmpty C.int32_t
tmpDomain := make([]uint8, subarraySize)
ret := C.tiledb_array_get_non_empty_domain(a.context.tiledbContext, a.tiledbArray, unsafe.Pointer(&tmpDomain[0]), &isEmpty)
if ret != C.TILEDB_OK {
return nil, fmt.Errorf("Error serializing array nonempty domain: %s", a.context.LastError())
}
buffer := Buffer{context: schema.context}
// Set finalizer for free C pointer on gc
runtime.SetFinalizer(&buffer, func(buffer *Buffer) {
buffer.Free()
})
var cClientSide = C.int32_t(0) // Currently this parameter is unused in libtiledb
ret = C.tiledb_serialize_array_nonempty_domain(a.context.tiledbContext, a.tiledbArray, unsafe.Pointer(&tmpDomain[0]), isEmpty, C.tiledb_serialization_type_t(serializationType), cClientSide, &buffer.tiledbBuffer)
if ret != C.TILEDB_OK {
return nil, fmt.Errorf("Error serializing array nonempty domain: %s", a.context.LastError())
}
return buffer.Serialize(serializationType)
}
// DeserializeArrayNonEmptyDomain deserializes an array nonempty domain
func DeserializeArrayNonEmptyDomain(a *Array, buffer *Buffer, serializationType SerializationType) ([]NonEmptyDomain, bool, error) {
schema, err := a.Schema()
if err != nil {
return nil, false, err
}
domain, err := schema.Domain()
if err != nil {
return nil, false, err
}
domainType, err := domain.Type()
if err != nil {
return nil, false, err
}
ndims, err := domain.NDim()
if err != nil {
return nil, false, err
}
tmpDomain, tmpDomainPtr, err := domainType.MakeSlice(uint64(2 * ndims))
if err != nil {
return nil, false, err
}
var cClientSide = C.int32_t(0) // Currently this parameter is unused in libtiledb
var isEmpty C.int32_t
ret := C.tiledb_deserialize_array_nonempty_domain(a.context.tiledbContext, a.tiledbArray, buffer.tiledbBuffer, C.tiledb_serialization_type_t(serializationType), cClientSide, tmpDomainPtr, &isEmpty)
if ret != C.TILEDB_OK {
return nil, false, fmt.Errorf("Error serializing array nonempty domain: %s", a.context.LastError())
}
if isEmpty == 1 {
return nil, true, nil
}
tmpDomainType := reflect.TypeOf(tmpDomain).Elem().Kind()
nonEmptyDomains := make([]NonEmptyDomain, 0)
for i := uint(0); i < ndims; i++ {
dimension, err := domain.DimensionFromIndex(i)
if err != nil {
return nil, false, err
}
var nonEmptyDomain *NonEmptyDomain
switch tmpDomainType {
case reflect.Int:
tmpSubArray := tmpDomain.([]int)
tmpDimension := []int{tmpSubArray[(2 * i)], tmpSubArray[(2*i)+1]}
nonEmptyDomain, err = getNonEmptyDomainForDim(dimension, tmpDimension)
case reflect.Int8:
tmpSubArray := tmpDomain.([]int8)
tmpDimension := []int8{tmpSubArray[(2 * i)], tmpSubArray[(2*i)+1]}
nonEmptyDomain, err = getNonEmptyDomainForDim(dimension, tmpDimension)
case reflect.Int16:
tmpSubArray := tmpDomain.([]int16)
tmpDimension := []int16{tmpSubArray[(2 * i)], tmpSubArray[(2*i)+1]}
nonEmptyDomain, err = getNonEmptyDomainForDim(dimension, tmpDimension)
case reflect.Int32:
tmpSubArray := tmpDomain.([]int32)
tmpDimension := []int32{tmpSubArray[(2 * i)], tmpSubArray[(2*i)+1]}
nonEmptyDomain, err = getNonEmptyDomainForDim(dimension, tmpDimension)
case reflect.Int64:
tmpSubArray := tmpDomain.([]int64)
tmpDimension := []int64{tmpSubArray[(2 * i)], tmpSubArray[(2*i)+1]}
nonEmptyDomain, err = getNonEmptyDomainForDim(dimension, tmpDimension)
case reflect.Uint:
tmpSubArray := tmpDomain.([]uint)
tmpDimension := []uint{tmpSubArray[(2 * i)], tmpSubArray[(2*i)+1]}
nonEmptyDomain, err = getNonEmptyDomainForDim(dimension, tmpDimension)
case reflect.Uint8:
tmpSubArray := tmpDomain.([]uint8)
tmpDimension := []uint8{tmpSubArray[(2 * i)], tmpSubArray[(2*i)+1]}
nonEmptyDomain, err = getNonEmptyDomainForDim(dimension, tmpDimension)
case reflect.Uint16:
tmpSubArray := tmpDomain.([]uint16)
tmpDimension := []uint16{tmpSubArray[(2 * i)], tmpSubArray[(2*i)+1]}
nonEmptyDomain, err = getNonEmptyDomainForDim(dimension, tmpDimension)
case reflect.Uint32:
tmpSubArray := tmpDomain.([]uint32)
tmpDimension := []uint32{tmpSubArray[(2 * i)], tmpSubArray[(2*i)+1]}
nonEmptyDomain, err = getNonEmptyDomainForDim(dimension, tmpDimension)
case reflect.Uint64:
tmpSubArray := tmpDomain.([]uint64)
tmpDimension := []uint64{tmpSubArray[(2 * i)], tmpSubArray[(2*i)+1]}
nonEmptyDomain, err = getNonEmptyDomainForDim(dimension, tmpDimension)
case reflect.Float32:
tmpSubArray := tmpDomain.([]float32)
tmpDimension := []float32{tmpSubArray[(2 * i)], tmpSubArray[(2*i)+1]}
nonEmptyDomain, err = getNonEmptyDomainForDim(dimension, tmpDimension)
case reflect.Float64:
tmpSubArray := tmpDomain.([]float64)
tmpDimension := []float64{tmpSubArray[(2 * i)], tmpSubArray[(2*i)+1]}
nonEmptyDomain, err = getNonEmptyDomainForDim(dimension, tmpDimension)
default:
return nil, false, fmt.Errorf("unhandled domain datatype: %s", tmpDomainType.String())
}
if err != nil {
return nil, false, err
}
nonEmptyDomains = append(nonEmptyDomains, *nonEmptyDomain)
}
return nonEmptyDomains, false, nil
}
// SerializeArrayNonEmptyDomainAllDimensions gets and serializes the array nonempty domain
func SerializeArrayNonEmptyDomainAllDimensions(a *Array, serializationType SerializationType) ([]byte, error) {
buffer := Buffer{context: a.context}
// Set finalizer for free C pointer on gc
runtime.SetFinalizer(&buffer, func(buffer *Buffer) {
buffer.Free()
})
var cClientSide = C.int32_t(0) // Currently this parameter is unused in libtiledb
ret := C.tiledb_serialize_array_non_empty_domain_all_dimensions(a.context.tiledbContext, a.tiledbArray, C.tiledb_serialization_type_t(serializationType), cClientSide, &buffer.tiledbBuffer)
if ret != C.TILEDB_OK {
return nil, fmt.Errorf("Error serializing array nonempty domain: %s", a.context.LastError())
}
return buffer.Serialize(serializationType)
}
// DeserializeArrayNonEmptyDomainAllDimensions deserializes an array nonempty domain
func DeserializeArrayNonEmptyDomainAllDimensions(a *Array, buffer *Buffer, serializationType SerializationType) error {
var cClientSide = C.int32_t(0) // Currently this parameter is unused in libtiledb
ret := C.tiledb_deserialize_array_non_empty_domain_all_dimensions(a.context.tiledbContext, a.tiledbArray, buffer.tiledbBuffer, C.tiledb_serialization_type_t(serializationType), cClientSide)
if ret != C.TILEDB_OK {
return fmt.Errorf("Error deserializing array nonempty domain: %s", a.context.LastError())
}
return nil
}
// SerializeArrayMaxBufferSizes gets and serializes the array max buffer sizes for the given subarray
func SerializeArrayMaxBufferSizes(a *Array, subarray interface{}, serializationType SerializationType) ([]byte, error) {
// Create subarray void*
var cSubarray unsafe.Pointer
if reflect.TypeOf(subarray).Kind() != reflect.Slice {
return nil, fmt.Errorf("subarray passed must be a slice, type passed was: %s", reflect.TypeOf(subarray).Kind().String())
}
subarrayType := reflect.TypeOf(subarray).Elem().Kind()
switch subarrayType {
case reflect.Int:
tmpSubArray := subarray.([]int)
cSubarray = unsafe.Pointer(&tmpSubArray[0])
case reflect.Int8:
tmpSubArray := subarray.([]int8)
cSubarray = unsafe.Pointer(&tmpSubArray[0])
case reflect.Int16:
tmpSubArray := subarray.([]int16)
cSubarray = unsafe.Pointer(&tmpSubArray[0])
case reflect.Int32:
tmpSubArray := subarray.([]int32)
cSubarray = unsafe.Pointer(&tmpSubArray[0])
case reflect.Int64:
tmpSubArray := subarray.([]int64)
cSubarray = unsafe.Pointer(&tmpSubArray[0])
case reflect.Uint:
tmpSubArray := subarray.([]uint)
cSubarray = unsafe.Pointer(&tmpSubArray[0])
case reflect.Uint8:
tmpSubArray := subarray.([]uint8)
cSubarray = unsafe.Pointer(&tmpSubArray[0])
case reflect.Uint16:
tmpSubArray := subarray.([]uint16)
cSubarray = unsafe.Pointer(&tmpSubArray[0])
case reflect.Uint32:
tmpSubArray := subarray.([]uint32)
cSubarray = unsafe.Pointer(&tmpSubArray[0])
case reflect.Uint64:
tmpSubArray := subarray.([]uint64)
cSubarray = unsafe.Pointer(&tmpSubArray[0])
case reflect.Float32:
tmpSubArray := subarray.([]float32)
cSubarray = unsafe.Pointer(&tmpSubArray[0])
case reflect.Float64:
tmpSubArray := subarray.([]float64)
cSubarray = unsafe.Pointer(&tmpSubArray[0])
default:
return nil, fmt.Errorf("unhandled subarray datatype: %s", subarrayType.String())
}
buffer := Buffer{context: a.context}
// Set finalizer for free C pointer on gc
runtime.SetFinalizer(&buffer, func(buffer *Buffer) {
buffer.Free()
})
ret := C.tiledb_serialize_array_max_buffer_sizes(a.context.tiledbContext, a.tiledbArray, cSubarray, C.tiledb_serialization_type_t(serializationType), &buffer.tiledbBuffer)
if ret != C.TILEDB_OK {
return nil, fmt.Errorf("error serializing array max buffer sizes: %s", a.context.LastError())
}
return buffer.Serialize(serializationType)
}
// SerializeQuery serializes a query
func SerializeQuery(query *Query, serializationType SerializationType, clientSide bool) (*BufferList, error) {
bufferList := BufferList{context: query.context}
// Set finalizer for free C pointer on gc
runtime.SetFinalizer(&bufferList, func(bufferList *BufferList) {
bufferList.Free()
})
var cClientSide C.int32_t
if clientSide {
cClientSide = 1
} else {
cClientSide = 0
}
ret := C.tiledb_serialize_query(query.context.tiledbContext, query.tiledbQuery, C.tiledb_serialization_type_t(serializationType), cClientSide, &bufferList.tiledbBufferList)
if ret != C.TILEDB_OK {
return nil, fmt.Errorf("Error serializing query: %s", query.context.LastError())
}
return &bufferList, nil
}
// DeserializeQuery deserializes a buffer into an existing query
func DeserializeQuery(query *Query, buffer *Buffer, serializationType SerializationType, clientSide bool) error {
var cClientSide C.int32_t
if clientSide {
cClientSide = 1
} else {
cClientSide = 0
}
ret := C.tiledb_deserialize_query(query.context.tiledbContext, buffer.tiledbBuffer, C.tiledb_serialization_type_t(serializationType), cClientSide, query.tiledbQuery)
if ret != C.TILEDB_OK {
return fmt.Errorf("Error deserializing query: %s", query.context.LastError())
}
return nil
}
// SerializeArrayMetadata gets and serializes the array metadata
func SerializeArrayMetadata(a *Array, serializationType SerializationType) ([]byte, error) {
buffer := Buffer{context: a.context}
// Set finalizer for free C pointer on gc
runtime.SetFinalizer(&buffer, func(buffer *Buffer) {
buffer.Free()
})
ret := C.tiledb_serialize_array_metadata(a.context.tiledbContext, a.tiledbArray, C.tiledb_serialization_type_t(serializationType), &buffer.tiledbBuffer)
if ret != C.TILEDB_OK {
return nil, fmt.Errorf("Error serializing array metadata: %s", a.context.LastError())
}
return buffer.Serialize(serializationType)
}
// DeserializeArrayMetadata deserializes array metadata
func DeserializeArrayMetadata(a *Array, buffer *Buffer, serializationType SerializationType) error {
ret := C.tiledb_deserialize_array_metadata(a.context.tiledbContext, a.tiledbArray, C.tiledb_serialization_type_t(serializationType), buffer.tiledbBuffer)
if ret != C.TILEDB_OK {
return fmt.Errorf("Error deserializing array metadata: %s", a.context.LastError())
}
return nil
}
// SerializeQueryEstResultSizes gets and serializes the query estimated result sizes
func SerializeQueryEstResultSizes(q *Query, serializationType SerializationType, clientSide bool) ([]byte, error) {
var cClientSide C.int32_t
if clientSide {
cClientSide = 1
} else {
cClientSide = 0
}
buffer := Buffer{context: q.context}
// Set finalizer for free C pointer on gc
runtime.SetFinalizer(&buffer, func(buffer *Buffer) {
buffer.Free()
})
ret := C.tiledb_serialize_query_est_result_sizes(q.context.tiledbContext, q.tiledbQuery, C.tiledb_serialization_type_t(serializationType), cClientSide, &buffer.tiledbBuffer)
if ret != C.TILEDB_OK {
return nil, fmt.Errorf("Error serializing query est buffer sizes: %s", q.context.LastError())
}
return buffer.Serialize(serializationType)
}
// DeserializeQueryEstResultSizes deserializes query estimated result sizes
func DeserializeQueryEstResultSizes(q *Query, buffer *Buffer, serializationType SerializationType, clientSide bool) error {
var cClientSide C.int32_t
if clientSide {
cClientSide = 1
} else {
cClientSide = 0
}
ret := C.tiledb_deserialize_query_est_result_sizes(q.context.tiledbContext, q.tiledbQuery, C.tiledb_serialization_type_t(serializationType), cClientSide, buffer.tiledbBuffer)
if ret != C.TILEDB_OK {
return fmt.Errorf("Error deserializing query est buffer sizes: %s", q.context.LastError())
}
return nil
}