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dataset.cpp
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dataset.cpp
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// Licensed to the Apache Software Foundation (ASF) under one
// or more contributor license agreements. See the NOTICE file
// distributed with this work for additional information
// regarding copyright ownership. The ASF licenses this file
// to you under the Apache License, Version 2.0 (the
// "License"); you may not use this file except in compliance
// with the License. You may obtain a copy of the License at
//
// http://www.apache.org/licenses/LICENSE-2.0
//
// Unless required by applicable law or agreed to in writing,
// software distributed under the License is distributed on an
// "AS IS" BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY
// KIND, either express or implied. See the License for the
// specific language governing permissions and limitations
// under the License.
#include "./arrow_types.h"
#if defined(ARROW_R_WITH_DATASET)
#include <arrow/array.h>
#include <arrow/compute/api.h>
#include <arrow/dataset/api.h>
#include <arrow/filesystem/filesystem.h>
#include <arrow/ipc/writer.h>
#include <arrow/table.h>
#include <arrow/util/checked_cast.h>
#include <arrow/util/iterator.h>
#include <parquet/properties.h>
namespace ds = ::arrow::dataset;
namespace fs = ::arrow::fs;
namespace compute = ::arrow::compute;
namespace cpp11 {
const char* r6_class_name<ds::Dataset>::get(const std::shared_ptr<ds::Dataset>& dataset) {
auto type_name = dataset->type_name();
if (type_name == "union") {
return "UnionDataset";
} else if (type_name == "filesystem") {
return "FileSystemDataset";
} else if (type_name == "in-memory") {
return "InMemoryDataset";
} else {
return "Dataset";
}
}
const char* r6_class_name<ds::FileFormat>::get(
const std::shared_ptr<ds::FileFormat>& file_format) {
auto type_name = file_format->type_name();
if (type_name == "parquet") {
return "ParquetFileFormat";
} else if (type_name == "ipc") {
return "IpcFileFormat";
} else if (type_name == "csv") {
return "CsvFileFormat";
} else {
return "FileFormat";
}
}
} // namespace cpp11
// Dataset, UnionDataset, FileSystemDataset
// [[dataset::export]]
std::shared_ptr<ds::ScannerBuilder> dataset___Dataset__NewScan(
const std::shared_ptr<ds::Dataset>& ds) {
auto builder = ValueOrStop(ds->NewScan());
StopIfNotOk(builder->Pool(gc_memory_pool()));
return builder;
}
// [[dataset::export]]
std::shared_ptr<arrow::Schema> dataset___Dataset__schema(
const std::shared_ptr<ds::Dataset>& dataset) {
return dataset->schema();
}
// [[dataset::export]]
std::string dataset___Dataset__type_name(const std::shared_ptr<ds::Dataset>& dataset) {
return dataset->type_name();
}
// [[dataset::export]]
std::shared_ptr<ds::Dataset> dataset___Dataset__ReplaceSchema(
const std::shared_ptr<ds::Dataset>& dataset,
const std::shared_ptr<arrow::Schema>& schm) {
return ValueOrStop(dataset->ReplaceSchema(schm));
}
// [[dataset::export]]
std::shared_ptr<ds::Dataset> dataset___UnionDataset__create(
const ds::DatasetVector& datasets, const std::shared_ptr<arrow::Schema>& schm) {
return ValueOrStop(ds::UnionDataset::Make(schm, datasets));
}
// [[dataset::export]]
std::shared_ptr<ds::Dataset> dataset___InMemoryDataset__create(
const std::shared_ptr<arrow::Table>& table) {
return std::make_shared<ds::InMemoryDataset>(table);
}
// [[dataset::export]]
cpp11::list dataset___UnionDataset__children(
const std::shared_ptr<ds::UnionDataset>& ds) {
return arrow::r::to_r_list(ds->children());
}
// [[dataset::export]]
std::shared_ptr<ds::FileFormat> dataset___FileSystemDataset__format(
const std::shared_ptr<ds::FileSystemDataset>& dataset) {
return dataset->format();
}
// [[dataset::export]]
std::shared_ptr<fs::FileSystem> dataset___FileSystemDataset__filesystem(
const std::shared_ptr<ds::FileSystemDataset>& dataset) {
return dataset->filesystem();
}
// [[dataset::export]]
std::vector<std::string> dataset___FileSystemDataset__files(
const std::shared_ptr<ds::FileSystemDataset>& dataset) {
return dataset->files();
}
// DatasetFactory, UnionDatasetFactory, FileSystemDatasetFactory
// [[dataset::export]]
std::shared_ptr<ds::Dataset> dataset___DatasetFactory__Finish1(
const std::shared_ptr<ds::DatasetFactory>& factory, bool unify_schemas) {
ds::FinishOptions opts;
if (unify_schemas) {
opts.inspect_options.fragments = ds::InspectOptions::kInspectAllFragments;
}
return ValueOrStop(factory->Finish(opts));
}
// [[dataset::export]]
std::shared_ptr<ds::Dataset> dataset___DatasetFactory__Finish2(
const std::shared_ptr<ds::DatasetFactory>& factory,
const std::shared_ptr<arrow::Schema>& schema) {
return ValueOrStop(factory->Finish(schema));
}
// [[dataset::export]]
std::shared_ptr<arrow::Schema> dataset___DatasetFactory__Inspect(
const std::shared_ptr<ds::DatasetFactory>& factory, bool unify_schemas) {
ds::InspectOptions opts;
if (unify_schemas) {
opts.fragments = ds::InspectOptions::kInspectAllFragments;
}
return ValueOrStop(factory->Inspect(opts));
}
// [[dataset::export]]
std::shared_ptr<ds::DatasetFactory> dataset___UnionDatasetFactory__Make(
const std::vector<std::shared_ptr<ds::DatasetFactory>>& children) {
return ValueOrStop(ds::UnionDatasetFactory::Make(children));
}
// [[dataset::export]]
std::shared_ptr<ds::FileSystemDatasetFactory> dataset___FileSystemDatasetFactory__Make0(
const std::shared_ptr<fs::FileSystem>& fs, const std::vector<std::string>& paths,
const std::shared_ptr<ds::FileFormat>& format) {
// TODO(fsaintjacques): Make options configurable
auto options = ds::FileSystemFactoryOptions{};
return arrow::internal::checked_pointer_cast<ds::FileSystemDatasetFactory>(
ValueOrStop(ds::FileSystemDatasetFactory::Make(fs, paths, format, options)));
}
// [[dataset::export]]
std::shared_ptr<ds::FileSystemDatasetFactory> dataset___FileSystemDatasetFactory__Make2(
const std::shared_ptr<fs::FileSystem>& fs,
const std::shared_ptr<fs::FileSelector>& selector,
const std::shared_ptr<ds::FileFormat>& format,
const std::shared_ptr<ds::Partitioning>& partitioning) {
// TODO(fsaintjacques): Make options configurable
auto options = ds::FileSystemFactoryOptions{};
if (partitioning != nullptr) {
options.partitioning = partitioning;
}
return arrow::internal::checked_pointer_cast<ds::FileSystemDatasetFactory>(
ValueOrStop(ds::FileSystemDatasetFactory::Make(fs, *selector, format, options)));
}
// [[dataset::export]]
std::shared_ptr<ds::FileSystemDatasetFactory> dataset___FileSystemDatasetFactory__Make1(
const std::shared_ptr<fs::FileSystem>& fs,
const std::shared_ptr<fs::FileSelector>& selector,
const std::shared_ptr<ds::FileFormat>& format) {
return dataset___FileSystemDatasetFactory__Make2(fs, selector, format, nullptr);
}
// [[dataset::export]]
std::shared_ptr<ds::FileSystemDatasetFactory> dataset___FileSystemDatasetFactory__Make3(
const std::shared_ptr<fs::FileSystem>& fs,
const std::shared_ptr<fs::FileSelector>& selector,
const std::shared_ptr<ds::FileFormat>& format,
const std::shared_ptr<ds::PartitioningFactory>& factory) {
// TODO(fsaintjacques): Make options configurable
auto options = ds::FileSystemFactoryOptions{};
if (factory != nullptr) {
options.partitioning = factory;
}
return arrow::internal::checked_pointer_cast<ds::FileSystemDatasetFactory>(
ValueOrStop(ds::FileSystemDatasetFactory::Make(fs, *selector, format, options)));
}
// FileFormat, ParquetFileFormat, IpcFileFormat
// [[dataset::export]]
std::string dataset___FileFormat__type_name(
const std::shared_ptr<ds::FileFormat>& format) {
return format->type_name();
}
// [[dataset::export]]
std::shared_ptr<ds::FileWriteOptions> dataset___FileFormat__DefaultWriteOptions(
const std::shared_ptr<ds::FileFormat>& fmt) {
return fmt->DefaultWriteOptions();
}
// [[dataset::export]]
std::shared_ptr<ds::ParquetFileFormat> dataset___ParquetFileFormat__Make(
const std::shared_ptr<ds::ParquetFragmentScanOptions>& options,
cpp11::strings dict_columns) {
auto fmt = std::make_shared<ds::ParquetFileFormat>();
fmt->default_fragment_scan_options = std::move(options);
auto dict_columns_vector = cpp11::as_cpp<std::vector<std::string>>(dict_columns);
auto& d = fmt->reader_options.dict_columns;
std::move(dict_columns_vector.begin(), dict_columns_vector.end(),
std::inserter(d, d.end()));
return fmt;
}
// [[dataset::export]]
std::string dataset___FileWriteOptions__type_name(
const std::shared_ptr<ds::FileWriteOptions>& options) {
return options->type_name();
}
#if defined(ARROW_R_WITH_PARQUET)
// [[dataset::export]]
void dataset___ParquetFileWriteOptions__update(
const std::shared_ptr<ds::ParquetFileWriteOptions>& options,
const std::shared_ptr<parquet::WriterProperties>& writer_props,
const std::shared_ptr<parquet::ArrowWriterProperties>& arrow_writer_props) {
options->writer_properties = writer_props;
options->arrow_writer_properties = arrow_writer_props;
}
#endif
// [[dataset::export]]
void dataset___IpcFileWriteOptions__update2(
const std::shared_ptr<ds::IpcFileWriteOptions>& ipc_options, bool use_legacy_format,
const std::shared_ptr<arrow::util::Codec>& codec,
arrow::ipc::MetadataVersion metadata_version) {
ipc_options->options->write_legacy_ipc_format = use_legacy_format;
ipc_options->options->codec = codec;
ipc_options->options->metadata_version = metadata_version;
}
// [[dataset::export]]
void dataset___IpcFileWriteOptions__update1(
const std::shared_ptr<ds::IpcFileWriteOptions>& ipc_options, bool use_legacy_format,
arrow::ipc::MetadataVersion metadata_version) {
ipc_options->options->write_legacy_ipc_format = use_legacy_format;
ipc_options->options->metadata_version = metadata_version;
}
// [[dataset::export]]
void dataset___CsvFileWriteOptions__update(
const std::shared_ptr<ds::CsvFileWriteOptions>& csv_options,
const std::shared_ptr<arrow::csv::WriteOptions>& write_options) {
*csv_options->write_options = *write_options;
}
// [[dataset::export]]
std::shared_ptr<ds::IpcFileFormat> dataset___IpcFileFormat__Make() {
return std::make_shared<ds::IpcFileFormat>();
}
// [[dataset::export]]
std::shared_ptr<ds::CsvFileFormat> dataset___CsvFileFormat__Make(
const std::shared_ptr<arrow::csv::ParseOptions>& parse_options,
const std::shared_ptr<arrow::csv::ConvertOptions>& convert_options,
const std::shared_ptr<arrow::csv::ReadOptions>& read_options) {
auto format = std::make_shared<ds::CsvFileFormat>();
format->parse_options = *parse_options;
auto scan_options = std::make_shared<ds::CsvFragmentScanOptions>();
if (convert_options) scan_options->convert_options = *convert_options;
if (read_options) scan_options->read_options = *read_options;
format->default_fragment_scan_options = std::move(scan_options);
return format;
}
// FragmentScanOptions, CsvFragmentScanOptions, ParquetFragmentScanOptions
// [[dataset::export]]
std::string dataset___FragmentScanOptions__type_name(
const std::shared_ptr<ds::FragmentScanOptions>& fragment_scan_options) {
return fragment_scan_options->type_name();
}
// [[dataset::export]]
std::shared_ptr<ds::CsvFragmentScanOptions> dataset___CsvFragmentScanOptions__Make(
const std::shared_ptr<arrow::csv::ConvertOptions>& convert_options,
const std::shared_ptr<arrow::csv::ReadOptions>& read_options) {
auto options = std::make_shared<ds::CsvFragmentScanOptions>();
options->convert_options = *convert_options;
options->read_options = *read_options;
return options;
}
// [[dataset::export]]
std::shared_ptr<ds::ParquetFragmentScanOptions>
dataset___ParquetFragmentScanOptions__Make(bool use_buffered_stream, int64_t buffer_size,
bool pre_buffer) {
auto options = std::make_shared<ds::ParquetFragmentScanOptions>();
if (use_buffered_stream) {
options->reader_properties->enable_buffered_stream();
} else {
options->reader_properties->disable_buffered_stream();
}
options->reader_properties->set_buffer_size(buffer_size);
options->arrow_reader_properties->set_pre_buffer(pre_buffer);
return options;
}
// DirectoryPartitioning, HivePartitioning
ds::SegmentEncoding GetSegmentEncoding(const std::string& segment_encoding) {
if (segment_encoding == "none") {
return ds::SegmentEncoding::None;
} else if (segment_encoding == "uri") {
return ds::SegmentEncoding::Uri;
}
cpp11::stop("invalid segment encoding: " + segment_encoding);
return ds::SegmentEncoding::None;
}
// [[dataset::export]]
std::shared_ptr<ds::DirectoryPartitioning> dataset___DirectoryPartitioning(
const std::shared_ptr<arrow::Schema>& schm, const std::string& segment_encoding) {
ds::KeyValuePartitioningOptions options;
options.segment_encoding = GetSegmentEncoding(segment_encoding);
std::vector<std::shared_ptr<arrow::Array>> dictionaries;
return std::make_shared<ds::DirectoryPartitioning>(schm, dictionaries, options);
}
// [[dataset::export]]
std::shared_ptr<ds::PartitioningFactory> dataset___DirectoryPartitioning__MakeFactory(
const std::vector<std::string>& field_names, const std::string& segment_encoding) {
ds::PartitioningFactoryOptions options;
options.segment_encoding = GetSegmentEncoding(segment_encoding);
return ds::DirectoryPartitioning::MakeFactory(field_names, options);
}
// [[dataset::export]]
std::shared_ptr<ds::HivePartitioning> dataset___HivePartitioning(
const std::shared_ptr<arrow::Schema>& schm, const std::string& null_fallback,
const std::string& segment_encoding) {
ds::HivePartitioningOptions options;
options.null_fallback = null_fallback;
options.segment_encoding = GetSegmentEncoding(segment_encoding);
std::vector<std::shared_ptr<arrow::Array>> dictionaries;
return std::make_shared<ds::HivePartitioning>(schm, dictionaries, options);
}
// [[dataset::export]]
std::shared_ptr<ds::PartitioningFactory> dataset___HivePartitioning__MakeFactory(
const std::string& null_fallback, const std::string& segment_encoding) {
ds::HivePartitioningFactoryOptions options;
options.null_fallback = null_fallback;
options.segment_encoding = GetSegmentEncoding(segment_encoding);
return ds::HivePartitioning::MakeFactory(options);
}
// ScannerBuilder, Scanner
// [[dataset::export]]
void dataset___ScannerBuilder__ProjectNames(const std::shared_ptr<ds::ScannerBuilder>& sb,
const std::vector<std::string>& cols) {
StopIfNotOk(sb->Project(cols));
}
// [[dataset::export]]
void dataset___ScannerBuilder__ProjectExprs(
const std::shared_ptr<ds::ScannerBuilder>& sb,
const std::vector<std::shared_ptr<compute::Expression>>& exprs,
const std::vector<std::string>& names) {
// We have shared_ptrs of expressions but need the Expressions
std::vector<compute::Expression> expressions;
for (auto expr : exprs) {
expressions.push_back(*expr);
}
StopIfNotOk(sb->Project(expressions, names));
}
// [[dataset::export]]
void dataset___ScannerBuilder__Filter(const std::shared_ptr<ds::ScannerBuilder>& sb,
const std::shared_ptr<compute::Expression>& expr) {
StopIfNotOk(sb->Filter(*expr));
}
// [[dataset::export]]
void dataset___ScannerBuilder__UseThreads(const std::shared_ptr<ds::ScannerBuilder>& sb,
bool threads) {
StopIfNotOk(sb->UseThreads(threads));
}
// [[dataset::export]]
void dataset___ScannerBuilder__UseAsync(const std::shared_ptr<ds::ScannerBuilder>& sb,
bool use_async) {
StopIfNotOk(sb->UseAsync(use_async));
}
// [[dataset::export]]
void dataset___ScannerBuilder__BatchSize(const std::shared_ptr<ds::ScannerBuilder>& sb,
int64_t batch_size) {
StopIfNotOk(sb->BatchSize(batch_size));
}
// [[dataset::export]]
void dataset___ScannerBuilder__FragmentScanOptions(
const std::shared_ptr<ds::ScannerBuilder>& sb,
const std::shared_ptr<ds::FragmentScanOptions>& options) {
StopIfNotOk(sb->FragmentScanOptions(options));
}
// [[dataset::export]]
std::shared_ptr<arrow::Schema> dataset___ScannerBuilder__schema(
const std::shared_ptr<ds::ScannerBuilder>& sb) {
return sb->schema();
}
// [[dataset::export]]
std::shared_ptr<ds::Scanner> dataset___ScannerBuilder__Finish(
const std::shared_ptr<ds::ScannerBuilder>& sb) {
return ValueOrStop(sb->Finish());
}
// [[dataset::export]]
std::shared_ptr<arrow::Table> dataset___Scanner__ToTable(
const std::shared_ptr<ds::Scanner>& scanner) {
return ValueOrStop(scanner->ToTable());
}
// [[dataset::export]]
cpp11::list dataset___Scanner__ScanBatches(const std::shared_ptr<ds::Scanner>& scanner) {
auto it = ValueOrStop(scanner->ScanBatches());
arrow::RecordBatchVector batches;
StopIfNotOk(it.Visit([&](ds::TaggedRecordBatch tagged_batch) {
batches.push_back(std::move(tagged_batch.record_batch));
return arrow::Status::OK();
}));
return arrow::r::to_r_list(batches);
}
// [[dataset::export]]
std::shared_ptr<arrow::RecordBatchReader> dataset___Scanner__ToRecordBatchReader(
const std::shared_ptr<ds::Scanner>& scanner) {
return ValueOrStop(scanner->ToRecordBatchReader());
}
// [[dataset::export]]
std::shared_ptr<arrow::Table> dataset___Scanner__head(
const std::shared_ptr<ds::Scanner>& scanner, int n) {
// TODO: make this a full Slice with offset > 0
return ValueOrStop(scanner->Head(n));
}
// [[dataset::export]]
std::shared_ptr<arrow::Schema> dataset___Scanner__schema(
const std::shared_ptr<ds::Scanner>& sc) {
return sc->options()->projected_schema;
}
// [[dataset::export]]
cpp11::list dataset___ScanTask__get_batches(
const std::shared_ptr<ds::ScanTask>& scan_task) {
arrow::RecordBatchIterator rbi;
rbi = ValueOrStop(scan_task->Execute());
std::vector<std::shared_ptr<arrow::RecordBatch>> out;
std::shared_ptr<arrow::RecordBatch> batch;
for (auto b : rbi) {
batch = ValueOrStop(b);
out.push_back(batch);
}
return arrow::r::to_r_list(out);
}
// [[dataset::export]]
void dataset___Dataset__Write(
const std::shared_ptr<ds::FileWriteOptions>& file_write_options,
const std::shared_ptr<fs::FileSystem>& filesystem, std::string base_dir,
const std::shared_ptr<ds::Partitioning>& partitioning, std::string basename_template,
const std::shared_ptr<ds::Scanner>& scanner) {
ds::FileSystemDatasetWriteOptions opts;
opts.file_write_options = file_write_options;
opts.filesystem = filesystem;
opts.base_dir = base_dir;
opts.partitioning = partitioning;
opts.basename_template = basename_template;
StopIfNotOk(ds::FileSystemDataset::Write(opts, scanner));
}
// [[dataset::export]]
std::shared_ptr<arrow::Table> dataset___Scanner__TakeRows(
const std::shared_ptr<ds::Scanner>& scanner,
const std::shared_ptr<arrow::Array>& indices) {
return ValueOrStop(scanner->TakeRows(*indices));
}
// [[dataset::export]]
int64_t dataset___Scanner__CountRows(const std::shared_ptr<ds::Scanner>& scanner) {
return ValueOrStop(scanner->CountRows());
}
#endif