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1313 lines (1144 loc) · 51.8 KB
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#include <charconv>
#include "pybind.hpp"
#include "crud.hpp"
#include "nlohmann.hpp"
#include "cast_args.hpp"
#include "algorithms/louvain.cpp"
using namespace unum::ustore::pyb;
using namespace unum::ustore;
using namespace unum;
inline ustore_key_t edge_id(ustore_key_t u, ustore_key_t v) {
return (u + v) * (u + v + 1) / 2 + u;
}
embedded_blobs_t read_attributes( //
docs_collection_t& collection,
strided_range_gt<ustore_key_t const> keys,
ustore_str_view_t field) {
status_t status;
ustore_length_t* found_offsets = nullptr;
ustore_length_t* found_lengths = nullptr;
ustore_bytes_ptr_t found_values = nullptr;
auto count = static_cast<ustore_size_t>(keys.size());
ustore_docs_read_t docs_read {};
docs_read.db = collection.db();
docs_read.error = status.member_ptr();
docs_read.options = ustore_option_dont_discard_memory_k;
docs_read.transaction = collection.txn();
docs_read.snapshot = collection.snap();
docs_read.arena = collection.member_arena();
docs_read.type = ustore_doc_field_json_k;
docs_read.tasks_count = count;
docs_read.collections = collection.member_ptr();
docs_read.keys = keys.begin().get();
docs_read.keys_stride = keys.stride();
docs_read.fields = &field;
docs_read.offsets = &found_offsets;
docs_read.lengths = &found_lengths;
docs_read.values = &found_values;
ustore_docs_read(&docs_read);
status.throw_unhandled();
return embedded_blobs_t {count, found_offsets, found_lengths, found_values};
}
template <graph_type_t type_ak>
void compute_degrees(py_graph_gt<type_ak>& graph,
strided_range_gt<ustore_key_t const> vertices,
ustore_vertex_role_t role,
ustore_str_view_t weight,
ustore_vertex_degree_t** degrees) {
status_t status;
ustore_key_t* edges_per_vertex = nullptr;
auto count = static_cast<ustore_size_t>(vertices.size());
ustore_graph_find_edges_t graph_find_edges {};
graph_find_edges.db = graph.index.db();
graph_find_edges.error = status.member_ptr();
graph_find_edges.transaction = graph.index.txn();
graph_find_edges.arena = graph.index.member_arena();
graph_find_edges.tasks_count = count;
graph_find_edges.collections = graph.index.member_ptr();
graph_find_edges.vertices = vertices.begin().get();
graph_find_edges.vertices_stride = vertices.stride();
graph_find_edges.roles = &role;
graph_find_edges.degrees_per_vertex = degrees;
graph_find_edges.edges_per_vertex = &edges_per_vertex;
ustore_graph_find_edges(&graph_find_edges);
status.throw_unhandled();
if (!weight)
return;
auto edges_begin = reinterpret_cast<edge_t*>(edges_per_vertex);
auto all_edges_count = transform_reduce_n(*degrees, count, 0ul, [](ustore_vertex_degree_t deg) {
return deg == ustore_vertex_degree_missing_k ? 0 : deg;
});
auto edges = edges_span_t {edges_begin, edges_begin + all_edges_count};
ustore_length_t* found_offsets = nullptr;
ustore_length_t* found_lengths = nullptr;
ustore_bytes_ptr_t found_values = nullptr;
auto values = read_attributes(graph.relations_attrs, edges.edge_ids.immutable(), weight);
auto value_iterator = values.begin();
for (std::size_t i = 0; i != count; ++i) {
auto edges_count = (*degrees)[i];
(*degrees)[i] = transform_reduce_n(value_iterator, edges_count, 0ul, [](value_view_t edge_weight) {
ustore_vertex_degree_t weight = 1;
std::from_chars(edge_weight.c_str(), edge_weight.c_str() + edge_weight.size(), weight);
return weight;
});
}
}
template <graph_type_t type_ak>
struct nodes_stream_t {
keys_stream_t native;
docs_collection_t& collection;
bool data;
std::string field;
std::string default_value;
embedded_blobs_t attrs;
ptr_range_gt<ustore_key_t const> nodes;
std::size_t index = 0;
nodes_stream_t(
keys_stream_t&& stream, docs_collection_t& col, bool data, std::string field, std::string default_value)
: native(std::move(stream)), collection(col), data(data), field(field), default_value(default_value) {
nodes = native.keys_batch();
if (data)
attrs = read_attributes(collection, nodes.strided(), field.size() ? field.c_str() : nullptr);
}
py::object next() {
if (index >= nodes.size()) {
if (native.is_end())
throw py::stop_iteration();
native.seek_to_next_batch();
nodes = native.keys_batch();
if (data)
attrs = read_attributes(collection, nodes.strided(), field.size() ? field.c_str() : nullptr);
index = 0;
}
py::object ret;
if (data) {
auto data = attrs[index] && !attrs[index].empty() ? attrs[index] : value_view_t(default_value);
ret = py::make_tuple(nodes[index], py::reinterpret_steal<py::object>(from_json(json_t::parse(data))));
}
else
ret = py::cast(nodes[index]);
++index;
return ret;
}
};
template <graph_type_t type_ak>
struct edges_stream_t {
graph_stream_t native;
docs_collection_t& collection;
bool keys;
bool data;
std::string field;
std::string default_value;
embedded_blobs_t attrs;
edges_span_t edges;
std::size_t index = 0;
edges_stream_t(graph_stream_t&& stream,
docs_collection_t& col,
bool keys,
bool data,
std::string field,
std::string default_value)
: native(std::move(stream)), collection(col), keys(keys), data(data), field(field),
default_value(default_value) {
edges = native.edges_batch();
if (data)
attrs = read_attributes(collection, edges.edge_ids.immutable(), field.size() ? field.c_str() : nullptr);
}
py::object next() {
if (index >= edges.size()) {
if (native.is_end())
throw py::stop_iteration();
native.seek_to_next_batch();
edges = native.edges_batch();
if (data)
attrs = read_attributes(collection, edges.edge_ids.immutable(), field.size() ? field.c_str() : nullptr);
index = 0;
}
auto edge = edges[index];
py::object ret;
if (data) {
auto data = attrs[index] && !attrs[index].empty() ? attrs[index] : value_view_t(default_value);
py::object json = py::reinterpret_steal<py::object>(from_json(json_t::parse(data)));
ret = keys ? py::make_tuple(edge.source_id, edge.target_id, edge.id, json)
: py::make_tuple(edge.source_id, edge.target_id, json);
}
else
ret = keys ? py::make_tuple(edge.source_id, edge.target_id, edge.id)
: py::make_tuple(edge.source_id, edge.target_id);
++index;
return ret;
}
};
template <graph_type_t type_ak>
struct edges_nbunch_iter_t {
edges_span_t edges;
embedded_blobs_t attrs;
bool keys;
bool data;
std::string default_value;
std::size_t index = 0;
edges_nbunch_iter_t(
edges_span_t edges_span, embedded_blobs_t attributes, bool keys, bool data, std::string default_value)
: edges(edges_span), attrs(attributes), keys(keys), data(data), default_value(default_value) {}
py::object next() {
if (index == edges.size())
throw py::stop_iteration();
edge_t edge = edges[index];
py::object ret;
if (data) {
value_view_t data = attrs[index] && !attrs[index].empty() ? attrs[index] : value_view_t(default_value);
py::object json = py::reinterpret_steal<py::object>(from_json(json_t::parse(data)));
ret = keys ? py::make_tuple(edge.source_id, edge.target_id, edge.id, json)
: py::make_tuple(edge.source_id, edge.target_id, json);
}
else
ret = keys ? py::make_tuple(edge.source_id, edge.target_id, edge.id)
: py::make_tuple(edge.source_id, edge.target_id);
++index;
return ret;
}
};
template <graph_type_t type_ak>
struct degrees_stream_t {
keys_stream_t keys_stream;
py_graph_gt<type_ak>& graph;
std::string weight_field;
ustore_vertex_role_t vertex_role;
ptr_range_gt<ustore_key_t const> fetched_nodes;
ustore_vertex_degree_t* degrees = nullptr;
std::size_t index = 0;
degrees_stream_t(keys_stream_t&& stream, py_graph_gt<type_ak>& net, std::string field, ustore_vertex_role_t role)
: keys_stream(std::move(stream)), graph(net), weight_field(field), vertex_role(role) {
fetched_nodes = keys_stream.keys_batch();
compute_degrees(graph,
fetched_nodes,
vertex_role,
weight_field.size() ? weight_field.c_str() : nullptr,
°rees);
}
py::object next() {
if (index >= fetched_nodes.size()) {
if (keys_stream.is_end())
throw py::stop_iteration();
keys_stream.seek_to_next_batch();
fetched_nodes = keys_stream.keys_batch();
compute_degrees(graph,
fetched_nodes,
vertex_role,
weight_field.size() ? weight_field.c_str() : nullptr,
°rees);
index = 0;
}
auto ret = py::make_tuple(fetched_nodes[index], degrees[index]);
++index;
return ret;
}
};
template <graph_type_t type_ak>
struct nodes_range_t : public std::enable_shared_from_this<nodes_range_t<type_ak>> {
keys_range_t native;
docs_collection_t& collection;
bool data = false;
std::string field;
std::string default_value;
nodes_range_t(keys_range_t n, docs_collection_t& c) : native(n), collection(c) {}
};
template <graph_type_t type_ak>
struct edges_range_t : public std::enable_shared_from_this<edges_range_t<type_ak>> {
std::weak_ptr<py_graph_gt<type_ak>> net_ptr;
std::vector<ustore_key_t> vertices;
bool keys = false;
bool data = false;
std::string field;
std::string default_value;
};
template <graph_type_t type_ak>
struct degree_view_t {
std::weak_ptr<py_graph_gt<type_ak>> net_ptr;
ustore_vertex_role_t roles = ustore_vertex_role_any_k;
std::string weight = "";
};
template <graph_type_t type_ak, typename element_at>
py::object wrap_into_buffer(py_graph_gt<type_ak>& g, strided_range_gt<element_at> range) {
py_buffer_memory_t& buf = g.last_buffer;
buf.strides[0] = range.stride();
buf.strides[1] = buf.strides[2] = 1;
buf.shape[0] = range.size();
buf.shape[1] = buf.shape[2] = 1;
// https://docs.python.org/3/c-api/buffer.html
buf.raw.buf = (void*)range.begin().get();
buf.raw.obj = NULL;
buf.raw.len = range.size() * sizeof(element_at);
buf.raw.itemsize = sizeof(element_at);
// https://docs.python.org/3/library/struct.html#format-characters
buf.raw.format = (char*)&format_code_gt<std::remove_const_t<element_at>>::value[0];
buf.raw.ndim = 1;
buf.raw.shape = &buf.shape[0];
buf.raw.strides = &buf.strides[0];
buf.raw.suboffsets = nullptr;
buf.raw.readonly = true;
buf.raw.internal = nullptr;
PyObject* obj = PyMemoryView_FromBuffer(&buf.raw);
return py::reinterpret_steal<py::object>(obj);
}
template <graph_type_t type_ak>
auto nodes_iter(nodes_range_t<type_ak>& range) {
return nodes_stream_t<type_ak> {std::move(range.native).begin(),
range.collection,
range.data,
range.field,
range.default_value};
}
template <graph_type_t type_ak>
auto nodes_call(nodes_range_t<type_ak>& range, bool data = false) {
range.data = data;
range.default_value = "{}";
return range.shared_from_this();
}
template <graph_type_t type_ak>
auto nodes_call_with_data(nodes_range_t<type_ak>& range, std::string& data, py::object def_value) {
range.data = true;
range.field = data;
std::string str;
to_string(def_value.ptr(), str);
range.default_value = std::move(str);
return range.shared_from_this();
}
template <graph_type_t type_ak>
auto edges_iter(edges_range_t<type_ak>& range) {
py_graph_gt<type_ak>& g = *range.net_ptr.lock().get();
if (range.vertices.size()) {
auto vertices = strided_range(range.vertices).immutable();
auto role = ustore_vertex_source_k;
auto edges = g.ref().edges_containing(vertices, {{&role}, 1}).throw_or_release();
auto attrs = read_attributes(g.relations_attrs,
edges.edge_ids.immutable(),
range.field.size() ? range.field.c_str() : nullptr);
return py::cast(edges_nbunch_iter_t<type_ak>(edges, attrs, range.keys, range.data, range.default_value));
}
auto edges = g.ref().edges(ustore_vertex_source_k).throw_or_release();
return py::cast(edges_stream_t<type_ak>(std::move(edges).begin(),
g.relations_attrs,
range.keys,
range.data,
range.field,
range.default_value));
}
template <graph_type_t type_ak>
auto edges_call(edges_range_t<type_ak>& range, bool keys = false, bool data = false) {
range.keys = keys;
if (type_ak == graph_k || type_ak == digraph_k)
range.keys = false;
range.data = data;
range.default_value = "{}";
return range.shared_from_this();
}
template <graph_type_t type_ak>
auto edges_call_with_data(edges_range_t<type_ak>& range, std::string& data, py::object def_value, bool keys = false) {
range.keys = keys;
if (type_ak == graph_k || type_ak == digraph_k)
range.keys = false;
range.data = true;
range.field = data;
std::string str;
to_string(def_value.ptr(), str);
range.default_value = std::move(str);
return range.shared_from_this();
}
template <graph_type_t type_ak>
auto edges_call_with_array(edges_range_t<type_ak>& range, py::object vs, bool data = false, bool keys = false) {
range.keys = keys;
if (type_ak == graph_k || type_ak == digraph_k)
range.keys = false;
range.data = data;
range.default_value = "{}";
if (PyNumber_Check(vs.ptr()))
range.vertices.push_back(py_to_scalar<ustore_key_t>(vs.ptr()));
else {
range.vertices.resize(PySequence_Size(vs.ptr()));
py_transform_n(vs.ptr(), &py_to_scalar<ustore_key_t>, range.vertices.begin());
}
return range.shared_from_this();
}
template <graph_type_t type_ak>
auto edges_call_with_array_and_data(
edges_range_t<type_ak>& range, py::object vs, std::string data, py::object def_value, bool keys = false) {
range.keys = keys;
if (type_ak == graph_k || type_ak == digraph_k)
range.keys = false;
range.data = true;
range.field = data;
std::string str;
to_string(def_value.ptr(), str);
range.default_value = std::move(str);
if (PyNumber_Check(vs.ptr()))
range.vertices.push_back(py_to_scalar<ustore_key_t>(vs.ptr()));
else {
range.vertices.resize(PySequence_Size(vs.ptr()));
py_transform_n(vs.ptr(), &py_to_scalar<ustore_key_t>, range.vertices.begin());
}
return range.shared_from_this();
}
template <graph_type_t type_ak>
auto degs_getitem(degree_view_t<type_ak>& degs, ustore_key_t v) {
auto& g = *degs.net_ptr.lock().get();
auto result = g.ref().degree(v, degs.roles).throw_or_release();
return result;
}
template <graph_type_t type_ak>
auto degs_call_with_array(degree_view_t<type_ak>& degs, py::object vs, std::string weight = "") {
auto& g = *degs.net_ptr.lock().get();
ustore_vertex_degree_t* degrees;
if (PyObject_CheckBuffer(vs.ptr())) {
auto vs_handle = py_buffer(vs.ptr());
auto vertices = py_strided_range<ustore_key_t const>(vs_handle);
compute_degrees(g, vertices, degs.roles, weight.size() ? weight.c_str() : nullptr, °rees);
return wrap_into_buffer<type_ak, ustore_vertex_degree_t const>(
g,
strided_range<ustore_vertex_degree_t const>(degrees, degrees + vertices.size()));
}
if (!PySequence_Check(vs.ptr()))
throw std::invalid_argument("Nodes Must Be Sequence");
std::vector<ustore_key_t> vertices(PySequence_Size(vs.ptr()));
py_transform_n(vs.ptr(), &py_to_scalar<ustore_key_t>, vertices.begin());
compute_degrees(g,
strided_range(vertices).immutable(),
degs.roles,
weight.size() ? weight.c_str() : nullptr,
°rees);
py::list res(vertices.size());
for (std::size_t i = 0; i != vertices.size(); ++i)
res[i] = py::make_tuple(vertices[i], degrees[i]);
return py::object(res);
}
template <graph_type_t type_ak>
auto degs_call(degree_view_t<type_ak>& degs, std::string weight = "") {
degs.weight = weight;
return degs;
}
template <graph_type_t type_ak>
auto degs_iter(degree_view_t<type_ak>& degs) {
auto& g = *degs.net_ptr.lock().get();
blobs_range_t members(g.index.db(), g.index.txn(), 0, g.index);
keys_stream_t stream = keys_range_t({members}).begin();
return degrees_stream_t(std::move(stream), g, degs.weight, degs.roles);
}
template <graph_type_t type_ak, typename array_at>
void add_key_value( //
py_graph_gt<type_ak>& g,
strided_range_gt<ustore_key_t const> keys,
std::shared_ptr<arrow::Array> values,
std::string_view attr) {
auto numeric_values = std::static_pointer_cast<array_at>(values);
std::string jsons_str;
jsons_str.reserve(keys.size() * (attr.size() + 4));
std::vector<ustore_length_t> offsets(keys.size() + 1);
for (size_t idx = 0; idx != keys.size(); idx++) {
offsets[idx] = jsons_str.size();
fmt::format_to(std::back_inserter(jsons_str), "{{\"{}\": {}}}", attr.data(), numeric_values->Value(idx));
}
offsets.back() = jsons_str.size();
contents_arg_t contents {};
contents.offsets_begin = {offsets.data(), sizeof(ustore_length_t)};
auto vals_begin = reinterpret_cast<ustore_bytes_ptr_t>(jsons_str.data());
contents.contents_begin = {&vals_begin, 0};
g.relations_attrs[keys].merge(contents).throw_unhandled();
}
template <graph_type_t type_ak, typename array_at>
void add_key_value_binary( //
py_graph_gt<type_ak>& g,
strided_range_gt<ustore_key_t const> keys,
std::shared_ptr<arrow::Array> values,
std::string_view attr) {
auto binary_values = std::static_pointer_cast<arrow::BinaryArray>(values);
std::string jsons_str;
jsons_str.reserve(keys.size() * (attr.size() + 4));
std::vector<ustore_length_t> offsets(keys.size() + 1);
for (size_t idx = 0; idx != keys.size(); idx++) {
offsets[idx] = jsons_str.size();
auto value = binary_values->Value(idx);
fmt::format_to(std::back_inserter(jsons_str),
"{{\"{}\":\"{}\"}}",
attr.data(),
std::string_view(value.data(), value.size()));
}
offsets.back() = jsons_str.size();
contents_arg_t contents {};
contents.offsets_begin = {offsets.data(), sizeof(ustore_length_t)};
auto vals_begin = reinterpret_cast<ustore_bytes_ptr_t>(jsons_str.data());
contents.contents_begin = {&vals_begin, 0};
g.relations_attrs[keys].merge(contents).throw_unhandled();
}
template <graph_type_t type_ak>
auto graph_init(std::shared_ptr<py_db_t> py_db,
std::optional<std::string> index,
std::optional<std::string> vertices_attrs,
std::optional<std::string> relations_attrs) {
if (!py_db)
return std::shared_ptr<py_graph_gt<type_ak>> {};
auto net_ptr = std::make_shared<py_graph_gt<type_ak>>();
net_ptr->py_db_ptr = py_db;
// Attach the primary collection
database_t& db = py_db->native;
net_ptr->index = db.find_or_create(index ? index->c_str() : "").throw_or_release();
// Attach the additional collections
if (vertices_attrs)
net_ptr->vertices_attrs = db.find_or_create<docs_collection_t>(vertices_attrs->c_str()).throw_or_release();
if (relations_attrs)
net_ptr->relations_attrs = db.find_or_create<docs_collection_t>(relations_attrs->c_str()).throw_or_release();
return net_ptr;
}
template <graph_type_t type_ak>
auto degree(py_graph_gt<type_ak>& g) {
auto degs_ptr = std::make_unique<degree_view_t<type_ak>>();
degs_ptr->net_ptr = g.shared_from_this();
degs_ptr->roles = ustore_vertex_role_any_k;
return degs_ptr;
}
template <graph_type_t type_ak>
auto in_degree(py_graph_gt<type_ak>& g) {
auto degs_ptr = std::make_unique<degree_view_t<type_ak>>();
degs_ptr->net_ptr = g.shared_from_this();
degs_ptr->roles = ustore_vertex_target_k;
return degs_ptr;
}
template <graph_type_t type_ak>
auto out_degree(py_graph_gt<type_ak>& g) {
auto degs_ptr = std::make_unique<degree_view_t<type_ak>>();
degs_ptr->net_ptr = g.shared_from_this();
degs_ptr->roles = ustore_vertex_source_k;
return degs_ptr;
}
template <graph_type_t type_ak>
auto size(py_graph_gt<type_ak>& g, std::string weight) {
if (!weight.size())
return g.ref().number_of_edges();
std::size_t size = 0;
auto stream = g.ref().edges(ustore_vertex_source_k).throw_or_release().begin();
while (!stream.is_end()) {
auto edge_ids = stream.edges_batch().edge_ids.immutable();
auto attrs = read_attributes(g.relations_attrs, edge_ids, weight.c_str());
for (std::size_t i = 0; i != edge_ids.size(); ++i) {
if (attrs[i] && attrs[i].size()) {
std::size_t number = 0;
auto result = std::from_chars((char*)attrs[i].begin(), (char*)attrs[i].end(), number);
if (result.ec == std::errc())
size += number;
else if (result.ec == std::errc::invalid_argument)
throw std::runtime_error("Unsupported Type");
else
throw std::runtime_error("Failed To Read Attribute");
}
else
size += 1;
}
stream.seek_to_next_batch();
}
return size;
}
template <graph_type_t type_ak>
auto number_of_edges_between(py_graph_gt<type_ak>& g, ustore_key_t v1, ustore_key_t v2) {
return g.ref().edges_between(v1, v2).throw_or_release().size();
}
template <graph_type_t type_ak>
auto number_of_edges(py_graph_gt<type_ak>& g) {
return g.ref().number_of_edges();
}
template <graph_type_t type_ak>
auto nodes(py_graph_gt<type_ak>& g) {
blobs_range_t members(g.index.db(), g.index.txn(), 0, g.index);
keys_range_t keys {members};
auto range = std::make_shared<nodes_range_t<type_ak>>(keys, g.vertices_attrs);
return range;
}
template <graph_type_t type_ak>
auto contains(py_graph_gt<type_ak>& g, ustore_key_t v) {
return g.ref().contains(v).throw_or_release();
}
template <graph_type_t type_ak>
auto getitem(py_graph_gt<type_ak>& g, ustore_key_t n) {
return wrap_into_buffer(g, g.ref().neighbors(n).throw_or_release());
}
template <graph_type_t type_ak>
auto len(py_graph_gt<type_ak>& g) {
return g.index.size();
}
template <graph_type_t type_ak>
auto number_of_nodes(py_graph_gt<type_ak>& g) {
return g.index.size();
}
template <graph_type_t type_ak>
auto has_node(py_graph_gt<type_ak>& g, ustore_key_t v) {
auto maybe = g.ref().contains(v);
maybe.throw_unhandled();
return *maybe;
}
template <graph_type_t type_ak>
auto has_edge(py_graph_gt<type_ak>& g, ustore_key_t v1, ustore_key_t v2) {
if (type_ak == digraph_k || type_ak == multidigraph_k)
return g.ref().edges_between(v1, v2).throw_or_release().size() != 0;
return g.ref().edges_between(v1, v2).throw_or_release().size() != 0 ||
g.ref().edges_between(v2, v1).throw_or_release().size() != 0;
}
template <graph_type_t type_ak>
auto has_edge_with_id(py_graph_gt<type_ak>& g, ustore_key_t v1, ustore_key_t v2, ustore_key_t e) {
auto ids = g.ref().edges_between(v1, v2).throw_or_release().edge_ids;
return std::find(ids.begin(), ids.end(), e) != ids.end();
}
template <graph_type_t type_ak>
auto get_edges(py_graph_gt<type_ak>& g) {
auto edges_ptr = std::make_shared<edges_range_t<type_ak>>();
edges_ptr->net_ptr = g.shared_from_this();
return edges_ptr;
}
template <graph_type_t type_ak>
auto neighbors(py_graph_gt<type_ak>& g, ustore_key_t n) {
if (type_ak == graph_k || type_ak == multigraph_k)
return wrap_into_buffer(g, g.ref().neighbors(n).throw_or_release());
return wrap_into_buffer(g, g.ref().neighbors(n, ustore_vertex_source_k).throw_or_release());
}
template <graph_type_t type_ak>
auto successors(py_graph_gt<type_ak>& g, ustore_key_t n) {
return wrap_into_buffer(g, g.ref().successors(n).throw_or_release());
}
template <graph_type_t type_ak>
auto predecessors(py_graph_gt<type_ak>& g, ustore_key_t n) {
return wrap_into_buffer(g, g.ref().predecessors(n).throw_or_release());
}
template <graph_type_t type_ak>
auto community_louvain(py_graph_gt<type_ak>& g) {
graph_collection_t graph = g.ref();
auto partition = best_partition(graph);
return py::cast(partition);
}
template <graph_type_t type_ak>
void set_node_attributes(py_graph_gt<type_ak>& g, py::object obj, std::optional<std::string> name) {
std::string json_to_merge;
if (PyDict_Check(obj.ptr())) {
PyObject *key, *value;
Py_ssize_t pos = 0;
while (PyDict_Next(obj.ptr(), &pos, &key, &value)) {
json_to_merge.clear();
auto vertex = py_to_scalar<ustore_key_t>(key);
if (!PyDict_Check(value)) {
fmt::format_to(std::back_inserter(json_to_merge), "{{\"{}\":", name.value());
to_string(value, json_to_merge);
json_to_merge += "}";
}
else
to_string(value, json_to_merge);
g.vertices_attrs[vertex].merge(json_to_merge.c_str());
}
}
else {
if (!name)
throw std::invalid_argument("Invalid Argument");
fmt::format_to(std::back_inserter(json_to_merge), "{{\"{}\":", name.value());
to_string(obj.ptr(), json_to_merge);
json_to_merge += "}";
auto stream = g.ref().vertex_stream().throw_or_release();
while (!stream.is_end()) {
g.vertices_attrs[stream.keys_batch().strided()].merge(json_to_merge.c_str());
stream.seek_to_next_batch();
}
}
}
template <graph_type_t type_ak>
auto get_node_attributes(py_graph_gt<type_ak>& g, std::string& name) {
std::unordered_map<ustore_key_t, py::object> map;
auto stream = g.ref().vertex_stream().throw_or_release();
while (!stream.is_end()) {
auto keys = stream.keys_batch().strided();
auto attrs = read_attributes(g.vertices_attrs, keys, name.c_str());
for (std::size_t i = 0; i != keys.size(); ++i)
map[keys[i]] = py::reinterpret_steal<py::object>(from_json(json_t::parse(attrs[i])));
stream.seek_to_next_batch();
}
return py::cast(map);
}
template <graph_type_t type_ak>
auto get_edge_data(py_graph_gt<type_ak>& g, ustore_key_t v1, ustore_key_t v2, py::object default_value) -> py::object {
std::string default_value_str;
to_string(default_value.ptr(), default_value_str);
auto edges = g.ref().edges_between(v1, v2).throw_or_release();
if (!edges.size())
return py::none();
auto edge_ids = edges.edge_ids.immutable();
auto attrs = read_attributes(g.relations_attrs, edge_ids, nullptr);
if (attrs[0] && attrs[0].size())
return py::reinterpret_steal<py::object>(from_json(json_t::parse(attrs[0])));
if (default_value_str.size())
return py::reinterpret_steal<py::object>(from_json(json_t::parse(default_value_str)));
return py::dict();
}
template <graph_type_t type_ak>
auto get_edge_attributes(py_graph_gt<type_ak>& g, std::string& name) {
auto hash = [](py::tuple const& tuple) {
return py_to_scalar<ustore_key_t>(PyTuple_GetItem(tuple.ptr(), 2));
};
std::unordered_map<py::tuple, py::object, decltype(hash)> map(0, hash);
auto stream = g.ref().edges().throw_or_release().begin();
while (!stream.is_end()) {
auto edges = stream.edges_batch();
map.reserve(edges.size());
auto sources = edges.source_ids;
auto targets = edges.target_ids;
auto edge_ids = edges.edge_ids.immutable();
auto attrs = read_attributes(g.relations_attrs, edge_ids, name.c_str());
for (std::size_t i = 0; i != edge_ids.size(); ++i) {
auto key = py::make_tuple(sources[i], targets[i], edge_ids[i]);
if (attrs[i] && attrs[i].size())
map[key] = py::reinterpret_steal<py::object>(from_json(json_t::parse(attrs[i])));
else
map[key] = py::dict();
}
stream.seek_to_next_batch();
}
return py::cast(map);
}
template <graph_type_t type_ak>
void set_edge_attributes(py_graph_gt<type_ak>& g, py::object obj, std::optional<std::string> name) {
std::string json_to_merge;
if (PyDict_Check(obj.ptr())) {
PyObject *key, *value;
Py_ssize_t pos = 0;
while (PyDict_Next(obj.ptr(), &pos, &key, &value)) {
json_to_merge.clear();
if (!PyTuple_Check(key) || PyTuple_Size(key) != 3)
throw std::invalid_argument("Invalid Argument");
auto attr_key = py_to_scalar<ustore_key_t>(PyTuple_GetItem(key, 2));
if (!PyDict_Check(value)) {
fmt::format_to(std::back_inserter(json_to_merge), "{{\"{}\":", name.value());
to_string(value, json_to_merge);
json_to_merge += "}";
}
else
to_string(value, json_to_merge);
g.relations_attrs[attr_key].merge(json_to_merge.c_str());
}
}
else {
if (!name)
throw std::invalid_argument("Invalid Argument");
fmt::format_to(std::back_inserter(json_to_merge), "{{\"{}\":", name.value());
to_string(obj.ptr(), json_to_merge);
json_to_merge += "}";
auto stream = g.ref().edges().throw_or_release().begin();
while (!stream.is_end()) {
g.relations_attrs[stream.edges_batch().edge_ids].merge(json_to_merge.c_str());
stream.seek_to_next_batch();
}
}
}
template <graph_type_t type_ak>
auto nbunch_iter(py_graph_gt<type_ak>& g, PyObject* vs) {
auto ids_handle = py_buffer(vs);
auto ids = py_strided_range<ustore_key_t const>(ids_handle);
auto result = g.ref().contains(ids).throw_or_release();
py::array_t<ustore_key_t> res_array(ids.size());
size_t j = 0;
for (size_t i = 0; i < ids.size(); i++)
if (result[i])
res_array.mutable_at(j++) = ids[i];
res_array.resize(py::array::ShapeContainer({std::max<size_t>(j, 1) - 1}));
return res_array;
}
template <graph_type_t type_ak>
void add_node(py_graph_gt<type_ak>& g, ustore_key_t v, py::kwargs const& attrs) {
g.ref().upsert_vertex(v).throw_unhandled();
if (!attrs.size())
return;
std::string json_str;
to_string(attrs.ptr(), json_str);
g.vertices_attrs[v].assign(value_view_t(json_str)).throw_unhandled();
}
template <graph_type_t type_ak>
void add_edge(
py_graph_gt<type_ak>& g, ustore_key_t v1, ustore_key_t v2, std::optional<ustore_key_t> e, py::kwargs const& attrs) {
ustore_key_t key;
if (!e) {
if (type_ak == multigraph_k || type_ak == multidigraph_k) {
key = g.get_key();
auto had_keys = g.ref().edges_between(v1, v2).throw_or_release().edge_ids;
while (std::find(had_keys.begin(), had_keys.end(), key) != std::end(had_keys))
key = g.get_key();
}
else
key = edge_id(v1, v2);
}
else
key = *e;
g.ref().upsert_edge(edge_t {v1, v2, key}).throw_unhandled();
if (!attrs.size())
return;
std::string json_str;
to_string(attrs.ptr(), json_str);
g.relations_attrs[key].merge(value_view_t(json_str)).throw_unhandled();
}
template <graph_type_t type_ak>
void remove_node(py_graph_gt<type_ak>& g, ustore_key_t v) {
g.ref().remove_vertex(v).throw_unhandled();
if (g.vertices_attrs.db())
g.vertices_attrs[v].clear().throw_unhandled();
}
template <graph_type_t type_ak>
void remove_edge(py_graph_gt<type_ak>& g, ustore_key_t v1, ustore_key_t v2, std::optional<ustore_key_t> e) {
ustore_key_t key;
if (!e) {
if (type_ak == multigraph_k || type_ak == multidigraph_k) {
auto edge_ids = g.ref().edges_between(v1, v2).throw_or_release().edge_ids;
key = edge_ids[edge_ids.size() - 1];
}
else
key = edge_id(v1, v2);
}
else
key = *e;
g.ref().remove_edge(edge_t {v1, v2, key}).throw_unhandled();
if (g.relations_attrs.db())
g.relations_attrs[key].clear().throw_unhandled();
}
template <graph_type_t type_ak>
void add_nodes_from(py_graph_gt<type_ak>& g, py::object vs, py::kwargs const& attrs) {
if (PyObject_CheckBuffer(vs.ptr())) {
py_buffer_t buf = py_buffer(vs.ptr());
if (!can_cast_internal_scalars<ustore_key_t>(buf))
throw std::invalid_argument("Expecting @c ustore_key_t scalars in zero-copy interface");
auto vertices = py_strided_range<ustore_key_t const>(buf);
g.ref().upsert_vertices(vertices).throw_unhandled();
if (!attrs.size())
return;
std::string json_str;
to_string(attrs.ptr(), json_str);
g.vertices_attrs[vertices].assign(value_view_t(json_str)).throw_unhandled();
}
else {
if (!PySequence_Check(vs.ptr()))
throw std::invalid_argument("Nodes Must Be Sequence");
std::vector<ustore_key_t> vertices(PySequence_Size(vs.ptr()));
py_transform_n(vs.ptr(), &py_to_scalar<ustore_key_t>, vertices.begin());
g.ref().upsert_vertices(vertices).throw_unhandled();
if (!attrs.size())
return;
std::string json_str;
to_string(attrs.ptr(), json_str);
g.vertices_attrs[vertices].assign(value_view_t(json_str)).throw_unhandled();
}
}
template <graph_type_t type_ak>
void add_edges_from_adjacency_list(py_graph_gt<type_ak>& g, py::object adjacency_list) {
g.ref().upsert_edges(parsed_adjacency_list_t(adjacency_list.ptr())).throw_unhandled();
}
template <graph_type_t type_ak>
void remove_nodes_from(py_graph_gt<type_ak>& g, py::object vs) {
if (PyObject_CheckBuffer(vs.ptr())) {
py_buffer_t buf = py_buffer(vs.ptr());
if (!can_cast_internal_scalars<ustore_key_t>(buf))
throw std::invalid_argument("Expecting @c ustore_key_t scalars in zero-copy interface");
auto vertices = py_strided_range<ustore_key_t const>(buf);
g.ref().remove_vertices(vertices).throw_unhandled();
if (g.vertices_attrs.db())
g.vertices_attrs[vertices].clear().throw_unhandled();
}
else {
if (!PySequence_Check(vs.ptr()))
throw std::invalid_argument("Nodes Must Be Sequence");
std::vector<ustore_key_t> vertices(PySequence_Size(vs.ptr()));
py_transform_n(vs.ptr(), &py_to_scalar<ustore_key_t>, vertices.begin());
g.ref().remove_vertices(vertices).throw_unhandled();
if (g.vertices_attrs.db())
g.vertices_attrs[vertices].clear().throw_unhandled();
}
}
template <graph_type_t type_ak>
void remove_edges_from_adjacency_list(py_graph_gt<type_ak>& g, py::object adjacency_list) {
g.ref().remove_edges(parsed_adjacency_list_t(adjacency_list.ptr())).throw_unhandled();
}
template <graph_type_t type_ak>
void add_edges_from_arrays(py_graph_gt<type_ak>& g, py::object v1s, py::object v2s, py::kwargs const& attrs) {
auto graph = g.ref();
edges_view_t edges = parsed_adjacency_list_t(v1s.ptr(), v2s.ptr(), Py_None);
auto length = edges.size();
std::vector<ustore_key_t> keys(length);
if (type_ak == multigraph_k || type_ak == multidigraph_k) {
for (std::size_t i = 0; i != length; ++i) {
auto key = g.get_key();
auto had_keys = graph.edges_between(edges.source_ids[i], edges.target_ids[i]).throw_or_release().edge_ids;
while (std::find(had_keys.begin(), had_keys.end(), key) != std::end(had_keys))
key = g.get_key();
keys[i] = key;
}
}
else
for (std::size_t i = 0; i != length; ++i)
keys[i] = edge_id(edges.source_ids[i], edges.target_ids[i]);