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clp-s: Add option to record metadata about decompressed archive chunks. #485

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merged 7 commits into from
Jul 23, 2024
Merged

clp-s: Add option to record metadata about decompressed archive chunks. #485

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b665de2
Record decompression metadata to mongodb during ordered decompression
gibber9809 Jul 18, 2024
e3a899b
Make metadata output options visible
gibber9809 Jul 18, 2024
a9e320c
Add comment
gibber9809 Jul 22, 2024
f6f9f10
Fix bug where mongocxx::instance not instantiated before needed in de…
gibber9809 Jul 22, 2024
b413080
Apply suggestions from code review
gibber9809 Jul 23, 2024
a643c4a
Address review comments
gibber9809 Jul 23, 2024
f916270
Update components/core/src/clp_s/JsonConstructor.hpp
gibber9809 Jul 23, 2024
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27 changes: 27 additions & 0 deletions components/core/src/clp_s/CommandLineArguments.cpp
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Original file line number Diff line number Diff line change
Expand Up @@ -286,6 +286,20 @@ CommandLineArguments::parse_arguments(int argc, char const** argv) {
);
extraction_options.add(input_options);

po::options_description metadata_options("Metadata Options");
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// clang-format off
metadata_options.add_options()(
"mongodb-uri",
po::value<std::string>(&m_mongodb_uri),
"The mongodb database used to record decompression metadata"
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)(
"mongodb-collection",
po::value<std::string>(&m_mongodb_collection),
"The collection used to record decompression metadata"
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);
// clang-format on
extraction_options.add(metadata_options);

po::options_description decompression_options("Decompression Options");
// clang-format off
decompression_options.add_options()(
Expand Down Expand Up @@ -333,6 +347,7 @@ CommandLineArguments::parse_arguments(int argc, char const** argv) {
visible_options.add(general_options);
visible_options.add(input_options);
visible_options.add(decompression_options);
visible_options.add(metadata_options);
std::cerr << visible_options << std::endl;
return ParsingResult::InfoCommand;
}
Expand All @@ -349,6 +364,18 @@ CommandLineArguments::parse_arguments(int argc, char const** argv) {
throw std::invalid_argument("ordered-chunk-size must be used with ordered argument"
);
}

if (m_mongodb_uri.empty() ^ m_mongodb_collection.empty()) {
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Can you add a brief comment on why you use "xor"? like "either be both unspecified, or must be both specified"

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Sure, I'll add a comment

throw std::invalid_argument(
"mongodb-uri and mongodb-collection must both be non-empty"
);
}

if (false == m_mongodb_uri.empty() && false == m_ordered_decompression) {
throw std::invalid_argument(
"recording decompression metadata only supported for ordered decompression"
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);
}
} else if ((char)Command::Search == command_input) {
std::string archives_dir;
std::string query;
Expand Down
75 changes: 62 additions & 13 deletions components/core/src/clp_s/JsonConstructor.cpp
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Expand Up @@ -5,19 +5,19 @@
#include <system_error>

#include <fmt/core.h>
#include <mongocxx/client.hpp>
#include <mongocxx/collection.hpp>
#include <mongocxx/exception/exception.hpp>
#include <mongocxx/uri.hpp>

#include "archive_constants.hpp"
#include "ErrorCode.hpp"
#include "ReaderUtils.hpp"
#include "SchemaTree.hpp"
#include "TraceableException.hpp"

namespace clp_s {
JsonConstructor::JsonConstructor(JsonConstructorOption const& option)
: m_output_dir(option.output_dir),
m_archives_dir(option.archives_dir),
m_ordered{option.ordered},
m_archive_id(option.archive_id),
m_ordered_chunk_size(option.ordered_chunk_size) {
JsonConstructor::JsonConstructor(JsonConstructorOption const& option) : m_option{option} {
std::error_code error_code;
if (false == std::filesystem::create_directory(option.output_dir, error_code) && error_code) {
throw OperationFailed(
Expand All @@ -32,8 +32,8 @@ JsonConstructor::JsonConstructor(JsonConstructorOption const& option)
);
}

std::filesystem::path archive_path{m_archives_dir};
archive_path /= m_archive_id;
std::filesystem::path archive_path{m_option.archives_dir};
archive_path /= m_option.archive_id;
if (false == std::filesystem::is_directory(archive_path)) {
throw OperationFailed(
ErrorCodeFailure,
Expand All @@ -46,12 +46,12 @@ JsonConstructor::JsonConstructor(JsonConstructorOption const& option)

void JsonConstructor::store() {
m_archive_reader = std::make_unique<ArchiveReader>();
m_archive_reader->open(m_archives_dir, m_archive_id);
m_archive_reader->open(m_option.archives_dir, m_option.archive_id);
m_archive_reader->read_dictionaries_and_metadata();
if (false == m_ordered) {
if (false == m_option.ordered) {
FileWriter writer;
writer.open(
m_output_dir + "/original",
m_option.output_dir + "/original",
FileWriter::OpenMode::CreateIfNonexistentForAppending
);
m_archive_reader->store(writer);
Expand All @@ -78,10 +78,24 @@ void JsonConstructor::construct_in_order() {
epochtime_t first_timestamp{0};
epochtime_t last_timestamp{0};
size_t num_records_marshalled{0};
auto src_path = std::filesystem::path(m_output_dir) / m_archive_id;
auto src_path = std::filesystem::path(m_option.output_dir) / m_option.archive_id;
FileWriter writer;
writer.open(src_path, FileWriter::OpenMode::CreateForWriting);

mongocxx::client client;
mongocxx::collection collection;

if (m_option.metadata_db.has_value()) {
try {
auto const mongo_uri{mongocxx::uri(m_option.metadata_db->mongodb_uri)};
client = mongocxx::client{mongo_uri};
collection = client[mongo_uri.database()][m_option.metadata_db->mongodb_collection];
} catch (mongocxx::exception const& e) {
throw OperationFailed(ErrorCodeBadParamDbUri, __FILE__, __LINE__, e.what());
}
}

std::vector<bsoncxx::document::value> results;
auto finalize_chunk = [&](bool open_new_writer) {
writer.close();
std::string new_file_name = src_path.string() + "_" + std::to_string(first_timestamp) + "_"
Expand All @@ -93,6 +107,31 @@ void JsonConstructor::construct_in_order() {
throw OperationFailed(ErrorCodeFailure, __FILE__, __LINE__, ec.message());
}

if (m_option.metadata_db.has_value()) {
results.emplace_back(std::move(bsoncxx::builder::basic::make_document(
bsoncxx::builder::basic::kvp(
constants::results_cache::decompression::cPath,
new_file_path.filename()
),
bsoncxx::builder::basic::kvp(
constants::results_cache::decompression::cOrigFileId,
m_option.archive_id
),
bsoncxx::builder::basic::kvp(
constants::results_cache::decompression::cBeginMsgIx,
static_cast<int64_t>(first_timestamp)
),
bsoncxx::builder::basic::kvp(
constants::results_cache::decompression::cEndMsgIx,
static_cast<int64_t>(last_timestamp)
),
bsoncxx::builder::basic::kvp(
constants::results_cache::decompression::cIsLastIrChunk,
false == open_new_writer
)
)));
}

if (open_new_writer) {
writer.open(src_path, FileWriter::OpenMode::CreateForWriting);
}
Expand All @@ -112,7 +151,9 @@ void JsonConstructor::construct_in_order() {
writer.write(buffer.c_str(), buffer.length());
num_records_marshalled += 1;

if (0 != m_ordered_chunk_size && num_records_marshalled >= m_ordered_chunk_size) {
if (0 != m_option.ordered_chunk_size
&& num_records_marshalled >= m_option.ordered_chunk_size)
{
finalize_chunk(true);
num_records_marshalled = 0;
}
Expand All @@ -128,5 +169,13 @@ void JsonConstructor::construct_in_order() {
throw OperationFailed(ErrorCodeFailure, __FILE__, __LINE__, ec.message());
}
}

if (false == results.empty()) {
try {
collection.insert_many(results);
} catch (mongocxx::exception const& e) {
throw OperationFailed(ErrorCodeFailureDbBulkWrite, __FILE__, __LINE__, e.what());
}
}
}
} // namespace clp_s
18 changes: 10 additions & 8 deletions components/core/src/clp_s/JsonConstructor.hpp
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@@ -1,6 +1,7 @@
#ifndef CLP_S_JSONCONSTRUCTOR_HPP
#define CLP_S_JSONCONSTRUCTOR_HPP

#include <optional>
#include <set>
#include <string>
#include <utility>
Expand All @@ -15,12 +16,18 @@
#include "TraceableException.hpp"

namespace clp_s {
struct MetadataDbOption {
std::string mongodb_uri;
std::string mongodb_collection;
};

struct JsonConstructorOption {
std::string archives_dir;
std::string archive_id;
std::string output_dir;
bool ordered;
size_t ordered_chunk_size;
bool ordered{false};
size_t ordered_chunk_size{0};
std::optional<MetadataDbOption> metadata_db;
};

class JsonConstructor {
Expand Down Expand Up @@ -59,12 +66,7 @@ class JsonConstructor {
*/
void construct_in_order();

std::string m_archives_dir;
std::string m_archive_id;
std::string m_output_dir;
bool m_ordered{false};
size_t m_ordered_chunk_size{0};

JsonConstructorOption m_option{};
std::unique_ptr<ArchiveReader> m_archive_reader;
};
} // namespace clp_s
Expand Down
9 changes: 9 additions & 0 deletions components/core/src/clp_s/archive_constants.hpp
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Expand Up @@ -15,5 +15,14 @@ constexpr char cArchiveArrayDictFile[] = "/array.dict";
constexpr char cArchiveLogDictFile[] = "/log.dict";
constexpr char cArchiveTimestampDictFile[] = "/timestamp.dict";
constexpr char cArchiveVarDictFile[] = "/var.dict";

namespace results_cache { namespace decompression {
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Is there a chance that we can use constant defined in https://github.com/y-scope/clp/blob/main/components/core/src/clp/clo/constants.hpp?

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I thought about it, and the way that would probably make sense if we did want to share this stuff between clo/clp-s is to just have a utility class that creates the required BSON objects and hides these field names. Right now we do take some classes from clp, but it's in a kind of nasty way where we have to manually add all of the required files to our build target. Really what we should do is have a build target that builds a library of utilities that all of our different binaries can use.

Since that's a bit of a bigger refactor I wanted to avoid including it in this PR. Plus the namespace styles used by clo are inconsistent with what we do here, and I want to avoid mixing styles.

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Sure

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constexpr char cPath[]{"path"};
constexpr char cOrigFileId[]{"orig_file_id"};
constexpr char cBeginMsgIx[]{"begin_msg_ix"};
constexpr char cEndMsgIx[]{"end_msg_ix"};
constexpr char cIsLastIrChunk[]{"is_last_ir_chunk"};
}} // namespace results_cache::decompression

} // namespace clp_s::constants
#endif // CLP_S_ARCHIVE_CONSTANTS_HPP
7 changes: 6 additions & 1 deletion components/core/src/clp_s/clp-s.cpp
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Expand Up @@ -269,11 +269,16 @@ int main(int argc, char const* argv[]) {
return 1;
}

clp_s::JsonConstructorOption option;
clp_s::JsonConstructorOption option{};
option.output_dir = command_line_arguments.get_output_dir();
option.ordered = command_line_arguments.get_ordered_decompression();
option.archives_dir = archives_dir;
option.ordered_chunk_size = command_line_arguments.get_ordered_chunk_size();
if (false == command_line_arguments.get_mongodb_uri().empty()) {
option.metadata_db
= {command_line_arguments.get_mongodb_uri(),
command_line_arguments.get_mongodb_collection()};
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}
try {
auto const& archive_id = command_line_arguments.get_archive_id();
if (false == archive_id.empty()) {
Expand Down
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