项目文件夹

文件
Rhett Ying 099b173f6f [DistPart] expose timeout config for process group (#4532)
* [DistPart] expose timeout config for process group

* refine code

* Update tools/distpartitioning/data_proc_pipeline.py

Co-authored-by: Minjie Wang <wmjlyjemaine@gmail.com>

Co-authored-by: Minjie Wang <wmjlyjemaine@gmail.com>
2022-09-15 15:28:36 +08:00

692 行
34 KiB
Python

import os
import sys
import constants
import numpy as np
import math
import torch
import torch.distributed as dist
import torch.multiprocessing as mp
import dgl
import logging
from timeit import default_timer as timer
from datetime import timedelta
from dataset_utils import get_dataset
from utils import read_ntype_partition_files, read_json, get_node_types, \
augment_edge_data, get_gnid_range_map, \
write_dgl_objects, write_metadata_json, get_ntype_featnames, \
get_idranges
from gloo_wrapper import allgather_sizes, gather_metadata_json,\
alltoallv_cpu
from globalids import assign_shuffle_global_nids_nodes, \
assign_shuffle_global_nids_edges, \
lookup_shuffle_global_nids_edges
from convert_partition import create_dgl_object, create_metadata_json
from dist_lookup import DistLookupService
def gen_node_data(rank, world_size, id_lookup, ntid_ntype_map, schema_map):
'''
For this data processing pipeline, reading node files is not needed. All the needed information about
the nodes can be found in the metadata json file. This function generates the nodes owned by a given
process, using metis partitions.
Parameters:
-----------
rank : int
rank of the process
world_size : int
total no. of processes
id_lookup : instance of class DistLookupService
Distributed lookup service used to map global-nids to respective partition-ids and
shuffle-global-nids
ntid_ntype_map :
a dictionary where keys are node_type ids(integers) and values are node_type names(strings).
schema_map:
dictionary formed by reading the input metadata json file for the input dataset.
Please note that, it is assumed that for the input graph files, the nodes of a particular node-type are
split into `p` files (because of `p` partitions to be generated). On a similar node, edges of a particular
edge-type are split into `p` files as well.
#assuming m nodetypes present in the input graph
"num_nodes_per_chunk" : [
[a0, a1, a2, ... a<p-1>],
[b0, b1, b2, ... b<p-1>],
...
[m0, m1, m2, ... m<p-1>]
]
Here, each sub-list, corresponding a nodetype in the input graph, has `p` elements. For instance [a0, a1, ... a<p-1>]
where each element represents the number of nodes which are to be processed by a process during distributed partitioning.
In addition to the above key-value pair for the nodes in the graph, the node-features are captured in the
"node_data" key-value pair. In this dictionary the keys will be nodetype names and value will be a dictionary which
is used to capture all the features present for that particular node-type. This is shown in the following example:
"node_data" : {
"paper": { # node type
"feat": { # feature key
"format": {"name": "numpy"},
"data": ["node_data/paper-feat-part1.npy", "node_data/paper-feat-part2.npy"]
},
"label": { # feature key
"format": {"name": "numpy"},
"data": ["node_data/paper-label-part1.npy", "node_data/paper-label-part2.npy"]
},
"year": { # feature key
"format": {"name": "numpy"},
"data": ["node_data/paper-year-part1.npy", "node_data/paper-year-part2.npy"]
}
}
}
In the above textual description we have a node-type, which is paper, and it has 3 features namely feat, label and year.
Each feature has `p` files whose location in the filesystem is the list for the key "data" and "foramt" is used to
describe storage format.
Returns:
--------
dictionary :
dictionary where keys are column names and values are numpy arrays, these arrays are generated by
using information present in the metadata json file
'''
local_node_data = { constants.GLOBAL_NID : [],
constants.NTYPE_ID : [],
constants.GLOBAL_TYPE_NID : []
}
type_nid_dict, global_nid_dict = get_idranges(schema_map[constants.STR_NODE_TYPE],
schema_map[constants.STR_NUM_NODES_PER_CHUNK])
for ntype_id, ntype_name in ntid_ntype_map.items():
type_start, type_end = type_nid_dict[ntype_name][0][0], type_nid_dict[ntype_name][-1][1]
gnid_start, gnid_end = global_nid_dict[ntype_name][0, 0], global_nid_dict[ntype_name][0, 1]
node_partid_slice = id_lookup.get_partition_ids(np.arange(gnid_start, gnid_end, dtype=np.int64)) #exclusive
cond = node_partid_slice == rank
own_gnids = np.arange(gnid_start, gnid_end, dtype=np.int64)
own_gnids = own_gnids[cond]
own_tnids = np.arange(type_start, type_end, dtype=np.int64)
own_tnids = own_tnids[cond]
local_node_data[constants.NTYPE_ID].append(np.ones(own_gnids.shape, dtype=np.int64)*ntype_id)
local_node_data[constants.GLOBAL_NID].append(own_gnids)
local_node_data[constants.GLOBAL_TYPE_NID].append(own_tnids)
for k in local_node_data.keys():
local_node_data[k] = np.concatenate(local_node_data[k])
return local_node_data
def exchange_edge_data(rank, world_size, edge_data):
"""
Exchange edge_data among processes in the world.
Prepare list of sliced data targeting each process and trigger
alltoallv_cpu to trigger messaging api
Parameters:
-----------
rank : int
rank of the process
world_size : int
total no. of processes
edge_data : dictionary
edge information, as a dicitonary which stores column names as keys and values
as column data. This information is read from the edges.txt file.
Returns:
--------
dictionary :
the input argument, edge_data, is updated with the edge data received by other processes
in the world.
"""
input_list = []
start = timer()
for i in np.arange(world_size):
send_idx = (edge_data[constants.OWNER_PROCESS] == i)
send_idx = send_idx.reshape(edge_data[constants.GLOBAL_SRC_ID].shape[0])
filt_data = np.column_stack((edge_data[constants.GLOBAL_SRC_ID][send_idx == 1], \
edge_data[constants.GLOBAL_DST_ID][send_idx == 1], \
edge_data[constants.GLOBAL_TYPE_EID][send_idx == 1], \
edge_data[constants.ETYPE_ID][send_idx == 1], \
edge_data[constants.GLOBAL_EID][send_idx == 1]))
if(filt_data.shape[0] <= 0):
input_list.append(torch.empty((0,5), dtype=torch.int64))
else:
input_list.append(torch.from_numpy(filt_data))
end = timer()
dist.barrier ()
output_list = alltoallv_cpu(rank, world_size, input_list)
end = timer()
logging.info(f'[Rank: {rank}] Time to send/rcv edge data: {timedelta(seconds=end-start)}')
#Replace the values of the edge_data, with the received data from all the other processes.
rcvd_edge_data = torch.cat(output_list).numpy()
edge_data[constants.GLOBAL_SRC_ID] = rcvd_edge_data[:,0]
edge_data[constants.GLOBAL_DST_ID] = rcvd_edge_data[:,1]
edge_data[constants.GLOBAL_TYPE_EID] = rcvd_edge_data[:,2]
edge_data[constants.ETYPE_ID] = rcvd_edge_data[:,3]
edge_data[constants.GLOBAL_EID] = rcvd_edge_data[:,4]
edge_data.pop(constants.OWNER_PROCESS)
return edge_data
def exchange_node_features(rank, world_size, node_feature_tids, ntype_gnid_map, id_lookup, node_features):
"""
This function is used to shuffle node features so that each process will receive
all the node features whose corresponding nodes are owned by the same process.
The mapping procedure to identify the owner process is not straight forward. The
following steps are used to identify the owner processes for the locally read node-
features.
a. Compute the global_nids for the locally read node features. Here metadata json file
is used to identify the corresponding global_nids. Please note that initial graph input
nodes.txt files are sorted based on node_types.
b. Using global_nids and metis partitions owner processes can be easily identified.
c. Now each process sends the global_nids for which shuffle_global_nids are needed to be
retrieved.
d. After receiving the corresponding shuffle_global_nids these ids are added to the
node_data and edge_data dictionaries
This pipeline assumes all the input data in numpy format, except node/edge features which
are maintained as tensors throughout the various stages of the pipeline execution.
Parameters:
-----------
rank : int
rank of the current process
world_size : int
total no. of participating processes.
node_feature_tids : dictionary
dictionary with keys as node-type names and value is a dictionary. This dictionary
contains information about node-features associated with a given node-type and value
is a list. This list contains a of indexes, like [starting-idx, ending-idx) which
can be used to index into the node feature tensors read from corresponding input files.
ntypes_gnid_map : dictionary
mapping between node type names and global_nids which belong to the keys in this dictionary
id_lookup : instance of class DistLookupService
Distributed lookup service used to map global-nids to respective partition-ids and
shuffle-global-nids
node_feautres: dicitonary
dictionry where node_features are stored and this information is read from the appropriate
node features file which belongs to the current process
Returns:
--------
dictionary :
node features are returned as a dictionary where keys are node type names and node feature names
and values are tensors
dictionary :
a dictionary of global_nids for the nodes whose node features are received during the data shuffle
process
"""
start = timer()
own_node_features = {}
own_global_nids = {}
#To iterate over the node_types and associated node_features
for ntype_name, ntype_info in node_feature_tids.items():
#To iterate over the node_features, of a given node_type
#ntype_info is a list of 3 elements
#[node-feature-name, starting-idx, ending-idx]
#node-feature-name is the name given to the node-feature, read from the input metadata file
#[starting-idx, ending-idx) specifies the range of indexes associated with the node-features read from
#the associated input file. Note that the rows of node-features read from the input file should be same
#as specified with this range. So no. of rows = ending-idx - starting-idx.
for feat_info in ntype_info:
#determine the owner process for these node features.
node_feats_per_rank = []
global_nid_per_rank = []
feat_name = feat_info[0]
feat_key = ntype_name+'/'+feat_name
logging.info(f'[Rank: {rank}] processing node feature: {feat_key}')
#compute the global_nid range for this node features
type_nid_start = int(feat_info[1])
type_nid_end = int(feat_info[2])
begin_global_nid = ntype_gnid_map[ntype_name][0]
gnid_start = begin_global_nid + type_nid_start
gnid_end = begin_global_nid + type_nid_end
#type_nids for this feature subset on the current rank
gnids_feat = np.arange(gnid_start, gnid_end)
tnids_feat = np.arange(type_nid_start, type_nid_end)
local_idx = np.arange(0, type_nid_end - type_nid_start)
#check if node features exist for this ntype_name + feat_name
#this check should always pass, because node_feature_tids are built
#by reading the input metadata json file for existing node features.
assert(feat_key in node_features)
node_feats = node_features[feat_key]
for part_id in range(world_size):
partid_slice = id_lookup.get_partition_ids(np.arange(gnid_start, gnid_end, dtype=np.int64))
cond = (partid_slice == part_id)
gnids_per_partid = gnids_feat[cond]
tnids_per_partid = tnids_feat[cond]
local_idx_partid = local_idx[cond]
if (gnids_per_partid.shape[0] == 0):
node_feats_per_rank.append(torch.empty((0,1), dtype=torch.float))
global_nid_per_rank.append(np.empty((0,1), dtype=np.int64))
else:
node_feats_per_rank.append(node_feats[local_idx_partid])
global_nid_per_rank.append(torch.from_numpy(gnids_per_partid).type(torch.int64))
#features (and global nids) per rank to be sent out are ready
#for transmission, perform alltoallv here.
output_feat_list = alltoallv_cpu(rank, world_size, node_feats_per_rank)
output_nid_list = alltoallv_cpu(rank, world_size, global_nid_per_rank)
#stitch node_features together to form one large feature tensor
own_node_features[feat_key] = torch.cat(output_feat_list)
own_global_nids[feat_key] = torch.cat(output_nid_list).numpy()
end = timer()
logging.info(f'[Rank: {rank}] Total time for node feature exchange: {timedelta(seconds = end - start)}')
return own_node_features, own_global_nids
def exchange_graph_data(rank, world_size, node_features, node_feat_tids, edge_data,
id_lookup, ntypes_ntypeid_map, ntypes_gnid_range_map, ntid_ntype_map, schema_map):
"""
Wrapper function which is used to shuffle graph data on all the processes.
Parameters:
-----------
rank : int
rank of the current process
world_size : int
total no. of participating processes.
node_feautres: dicitonary
dictionry where node_features are stored and this information is read from the appropriate
node features file which belongs to the current process
node_feat_tids: dictionary
in which keys are node-type names and values are triplets. Each triplet has node-feature name
and the starting and ending type ids of the node-feature data read from the corresponding
node feature data file read by current process. Each node type may have several features and
hence each key may have several triplets.
edge_data : dictionary
dictionary which is used to store edge information as read from the edges.txt file assigned
to each process.
id_lookup : instance of class DistLookupService
Distributed lookup service used to map global-nids to respective partition-ids and
shuffle-global-nids
ntypes_ntypeid_map : dictionary
mappings between node type names and node type ids
ntypes_gnid_range_map : dictionary
mapping between node type names and global_nids which belong to the keys in this dictionary
ntid_ntype_map : dictionary
mapping between node type id and no of nodes which belong to each node_type_id
schema_map : dictionary
is the data structure read from the metadata json file for the input graph
Returns:
--------
dictionary :
the input argument, node_data dictionary, is updated with the node data received from other processes
in the world. The node data is received by each rank in the process of data shuffling.
dictionary :
node features dictionary which has node features for the nodes which are owned by the current
process
dictionary :
list of global_nids for the nodes whose node features are received when node features shuffling was
performed in the `exchange_node_features` function call
dictionary :
the input argument, edge_data dictionary, is updated with the edge data received from other processes
in the world. The edge data is received by each rank in the process of data shuffling.
"""
rcvd_node_features, rcvd_global_nids = exchange_node_features(rank, world_size, node_feat_tids, \
ntypes_gnid_range_map, id_lookup, node_features)
logging.info(f'[Rank: {rank}] Done with node features exchange.')
node_data = gen_node_data(rank, world_size, id_lookup, ntid_ntype_map, schema_map)
edge_data = exchange_edge_data(rank, world_size, edge_data)
return node_data, rcvd_node_features, rcvd_global_nids, edge_data
def read_dataset(rank, world_size, id_lookup, params, schema_map):
"""
This function gets the dataset and performs post-processing on the data which is read from files.
Additional information(columns) are added to nodes metadata like owner_process, global_nid which
are later used in processing this information. For edge data, which is now a dictionary, we add new columns
like global_edge_id and owner_process. Augmenting these data structure helps in processing these data structures
when data shuffling is performed.
Parameters:
-----------
rank : int
rank of the current process
world_size : int
total no. of processes instantiated
id_lookup : instance of class DistLookupService
Distributed lookup service used to map global-nids to respective partition-ids and
shuffle-global-nids
params : argparser object
argument parser object to access command line arguments
schema_map : dictionary
dictionary created by reading the input graph metadata json file
Returns :
---------
dictionary
in which keys are node-type names and values are are tuples representing the range of ids
for nodes to be read by the current process
dictionary
node features which is a dictionary where keys are feature names and values are feature
data as multi-dimensional tensors
dictionary
in which keys are node-type names and values are triplets. Each triplet has node-feature name
and the starting and ending type ids of the node-feature data read from the corresponding
node feature data file read by current process. Each node type may have several features and
hence each key may have several triplets.
dictionary
edge data information is read from edges.txt and additional columns are added such as
owner process for each edge.
dictionary
edge features which is also a dictionary, similar to node features dictionary
"""
edge_features = {}
#node_tids, node_features, edge_datadict, edge_tids
node_tids, node_features, node_feat_tids, edge_data, edge_tids = \
get_dataset(params.input_dir, params.graph_name, rank, world_size, schema_map)
logging.info(f'[Rank: {rank}] Done reading dataset deom {params.input_dir}')
edge_data = augment_edge_data(edge_data, id_lookup, edge_tids, rank, world_size)
logging.info(f'[Rank: {rank}] Done augmenting edge_data: {len(edge_data)}, {edge_data[constants.GLOBAL_SRC_ID].shape}')
return node_tids, node_features, node_feat_tids, edge_data, edge_features
def gen_dist_partitions(rank, world_size, params):
"""
Function which will be executed by all Gloo processes to begin execution of the pipeline.
This function expects the input dataset is split across multiple file format.
Input dataset and its file structure is described in metadata json file which is also part of the
input dataset. On a high-level, this metadata json file contains information about the following items
a) Nodes metadata, It is assumed that nodes which belong to each node-type are split into p files
(wherer `p` is no. of partitions).
b) Similarly edge metadata contains information about edges which are split into p-files.
c) Node and Edge features, it is also assumed that each node (and edge) feature, if present, is also
split into `p` files.
For example, a sample metadata json file might be as follows: :
(In this toy example, we assume that we have "m" node-types, "k" edge types, and for node_type = ntype0-name
we have two features namely feat0-name and feat1-name. Please note that the node-features are also split into
`p` files. This will help in load-balancing during data-shuffling phase).
Terminology used to identify any particular "id" assigned to nodes, edges or node features. Prefix "global" is
used to indicate that this information is either read from the input dataset or autogenerated based on the information
read from input dataset files. Prefix "type" is used to indicate a unique id assigned to either nodes or edges.
For instance, type_node_id means that a unique id, with a given node type, assigned to a node. And prefix "shuffle"
will be used to indicate a unique id, across entire graph, assigned to either a node or an edge. For instance,
SHUFFLE_GLOBAL_NID means a unique id which is assigned to a node after the data shuffle is completed.
Some high-level notes on the structure of the metadata json file.
1. path(s) mentioned in the entries for nodes, edges and node-features files can be either absolute or relative.
if these paths are relative, then it is assumed that they are relative to the folder from which the execution is
launched.
2. The id_startx and id_endx represent the type_node_id and type_edge_id respectively for nodes and edge data. This
means that these ids should match the no. of nodes/edges read from any given file. Since these are type_ids for
the nodes and edges in any given file, their global_ids can be easily computed as well.
{
"graph_name" : xyz,
"node_type" : ["ntype0-name", "ntype1-name", ....], #m node types
"num_nodes_per_chunk" : [
[a0, a1, ...a<p-1>], #p partitions
[b0, b1, ... b<p-1>],
....
[c0, c1, ..., c<p-1>] #no, of node types
],
"edge_type" : ["src_ntype:edge_type:dst_ntype", ....], #k edge types
"num_edges_per_chunk" : [
[a0, a1, ...a<p-1>], #p partitions
[b0, b1, ... b<p-1>],
....
[c0, c1, ..., c<p-1>] #no, of edge types
],
"node_data" : {
"ntype0-name" : {
"feat0-name" : {
"format" : {"name": "numpy"},
"data" : [ #list of lists
["<path>/feat-0.npy", 0, id_end0],
["<path>/feat-1.npy", id_start1, id_end1],
....
["<path>/feat-<p-1>.npy", id_start<p-1>, id_end<p-1>]
]
},
"feat1-name" : {
"format" : {"name": "numpy"},
"data" : [ #list of lists
["<path>/feat-0.npy", 0, id_end0],
["<path>/feat-1.npy", id_start1, id_end1],
....
["<path>/feat-<p-1>.npy", id_start<p-1>, id_end<p-1>]
]
}
}
},
"edges": { #k edge types
"src_ntype:etype0-name:dst_ntype" : {
"format": {"name" : "csv", "delimiter" : " "},
"data" : [
["<path>/etype0-name-0.txt", 0, id_end0], #These are type_edge_ids for edges of this type
["<path>/etype0-name-1.txt", id_start1, id_end1],
...,
["<path>/etype0-name-<p-1>.txt", id_start<p-1>, id_end<p-1>]
]
},
...,
"src_ntype:etype<k-1>-name:dst_ntype" : {
"format": {"name" : "csv", "delimiter" : " "},
"data" : [
["<path>/etype<k-1>-name-0.txt", 0, id_end0],
["<path>/etype<k-1>-name-1.txt", id_start1, id_end1],
...,
["<path>/etype<k-1>-name-<p-1>.txt", id_start<p-1>, id_end<p-1>]
]
},
},
}
The function performs the following steps:
1. Reads the metis partitions to identify the owner process of all the nodes in the entire graph.
2. Reads the input data set, each partitipating process will map to a single file for the edges,
node-features and edge-features for each node-type and edge-types respectively. Using nodes metadata
information, nodes which are owned by a given process are generated to optimize communication to some
extent.
3. Now each process shuffles the data by identifying the respective owner processes using metis
partitions.
a. To identify owner processes for nodes, metis partitions will be used.
b. For edges, the owner process of the destination node will be the owner of the edge as well.
c. For node and edge features, identifying the owner process is a little bit involved.
For this purpose, graph metadata json file is used to first map the locally read node features
to their global_nids. Now owner process is identified using metis partitions for these global_nids
to retrieve shuffle_global_nids. A similar process is used for edge_features as well.
d. After all the data shuffling is done, the order of node-features may be different when compared to
their global_type_nids. Node- and edge-data are ordered by node-type and edge-type respectively.
And now node features and edge features are re-ordered to match the order of their node- and edge-types.
4. Last step is to create the DGL objects with the data present on each of the processes.
a. DGL objects for nodes, edges, node- and edge- features.
b. Metadata is gathered from each process to create the global metadata json file, by process rank = 0.
Parameters:
----------
rank : int
integer representing the rank of the current process in a typical distributed implementation
world_size : int
integer representing the total no. of participating processes in a typical distributed implementation
params : argparser object
this object, key value pairs, provides access to the command line arguments from the runtime environment
"""
global_start = timer()
logging.info(f'[Rank: {rank}] Starting distributed data processing pipeline...')
#init processing
schema_map = read_json(os.path.join(params.input_dir, params.schema))
#Initialize distributed lookup service for partition-id and shuffle-global-nids mappings
#for global-nids
_, global_nid_ranges = get_idranges(schema_map[constants.STR_NODE_TYPE],
schema_map[constants.STR_NUM_NODES_PER_CHUNK])
id_map = dgl.distributed.id_map.IdMap(global_nid_ranges)
id_lookup = DistLookupService(os.path.join(params.input_dir, params.partitions_dir),\
schema_map[constants.STR_NODE_TYPE],\
id_map, rank, world_size)
ntypes_ntypeid_map, ntypes, ntypeid_ntypes_map = get_node_types(schema_map)
logging.info(f'[Rank: {rank}] Initialized metis partitions and node_types map...')
#read input graph files and augment these datastructures with
#appropriate information (global_nid and owner process) for node and edge data
node_tids, node_features, node_feat_tids, edge_data, edge_features = \
read_dataset(rank, world_size, id_lookup, params, schema_map)
logging.info(f'[Rank: {rank}] Done augmenting file input data with auxilary columns')
#send out node and edge data --- and appropriate features.
#this function will also stitch the data recvd from other processes
#and return the aggregated data
ntypes_gnid_range_map = get_gnid_range_map(node_tids)
node_data, rcvd_node_features, rcvd_global_nids, edge_data = \
exchange_graph_data(rank, world_size, node_features, node_feat_tids, \
edge_data, id_lookup, ntypes_ntypeid_map, ntypes_gnid_range_map, \
ntypeid_ntypes_map, schema_map)
logging.info(f'[Rank: {rank}] Done with data shuffling...')
#sort node_data by ntype
idx = node_data[constants.NTYPE_ID].argsort()
for k, v in node_data.items():
node_data[k] = v[idx]
logging.info(f'[Rank: {rank}] Sorted node_data by node_type')
#resolve global_ids for nodes
assign_shuffle_global_nids_nodes(rank, world_size, node_data)
logging.info(f'[Rank: {rank}] Done assigning global-ids to nodes...')
#shuffle node feature according to the node order on each rank.
for ntype_name in ntypes:
featnames = get_ntype_featnames(ntype_name, schema_map)
for featname in featnames:
#if a feature name exists for a node-type, then it should also have
#feature data as well. Hence using the assert statement.
assert(ntype_name+'/'+featname in rcvd_global_nids)
global_nids = rcvd_global_nids[ntype_name+'/'+featname]
common, idx1, idx2 = np.intersect1d(node_data[constants.GLOBAL_NID], global_nids, return_indices=True)
shuffle_global_ids = node_data[constants.SHUFFLE_GLOBAL_NID][idx1]
feature_idx = shuffle_global_ids.argsort()
rcvd_node_features[ntype_name+'/'+featname] = rcvd_node_features[ntype_name+'/'+featname][feature_idx]
#sort edge_data by etype
sorted_idx = edge_data[constants.ETYPE_ID].argsort()
for k, v in edge_data.items():
edge_data[k] = v[sorted_idx]
shuffle_global_eid_start = assign_shuffle_global_nids_edges(rank, world_size, edge_data)
logging.info(f'[Rank: {rank}] Done assigning global_ids to edges ...')
#determine global-ids for edge end-points
edge_data = lookup_shuffle_global_nids_edges(rank, world_size, edge_data, id_lookup, node_data)
logging.info(f'[Rank: {rank}] Done resolving orig_node_id for local node_ids...')
#create dgl objects here
start = timer()
num_nodes = 0
num_edges = shuffle_global_eid_start
graph_obj, ntypes_map_val, etypes_map_val, ntypes_ntypeid_map, etypes_map = create_dgl_object(\
params.graph_name, params.num_parts, \
schema_map, rank, node_data, edge_data, num_nodes, num_edges)
write_dgl_objects(graph_obj, rcvd_node_features, edge_features, params.output, rank)
#get the meta-data
json_metadata = create_metadata_json(params.graph_name, len(node_data[constants.NTYPE_ID]), len(edge_data[constants.ETYPE_ID]), \
rank, world_size, ntypes_map_val, \
etypes_map_val, ntypes_ntypeid_map, etypes_map, params.output)
if (rank == 0):
#get meta-data from all partitions and merge them on rank-0
metadata_list = gather_metadata_json(json_metadata, rank, world_size)
metadata_list[0] = json_metadata
write_metadata_json(metadata_list, params.output, params.graph_name)
else:
#send meta-data to Rank-0 process
gather_metadata_json(json_metadata, rank, world_size)
end = timer()
logging.info(f'[Rank: {rank}] Time to create dgl objects: {timedelta(seconds = end - start)}')
global_end = timer()
logging.info(f'[Rank: {rank}] Total execution time of the program: {timedelta(seconds = global_end - global_start)}')
def single_machine_run(params):
""" Main function for distributed implementation on a single machine
Parameters:
-----------
params : argparser object
Argument Parser structure with pre-determined arguments as defined
at the bottom of this file.
"""
log_params(params)
processes = []
mp.set_start_method("spawn")
#Invoke `target` function from each of the spawned process for distributed
#implementation
for rank in range(params.world_size):
p = mp.Process(target=run, args=(rank, params.world_size, gen_dist_partitions, params))
p.start()
processes.append(p)
for p in processes:
p.join()
def run(rank, world_size, func_exec, params, backend="gloo"):
"""
Init. function which is run by each process in the Gloo ProcessGroup
Parameters:
-----------
rank : integer
rank of the process
world_size : integer
number of processes configured in the Process Group
proc_exec : function name
function which will be invoked which has the logic for each process in the group
params : argparser object
argument parser object to access the command line arguments
backend : string
string specifying the type of backend to use for communication
"""
os.environ["MASTER_ADDR"] = '127.0.0.1'
os.environ["MASTER_PORT"] = '29500'
#create Gloo Process Group
dist.init_process_group(backend, rank=rank, world_size=world_size, timeout=timedelta(seconds=5*60))
#Invoke the main function to kick-off each process
func_exec(rank, world_size, params)
def multi_machine_run(params):
"""
Function to be invoked when executing data loading pipeline on multiple machines
Parameters:
-----------
params : argparser object
argparser object providing access to command line arguments.
"""
rank = int(os.environ["RANK"])
#init the gloo process group here.
dist.init_process_group(
backend="gloo",
rank=rank,
world_size=params.world_size,
timeout=timedelta(seconds=params.process_group_timeout))
logging.info(f'[Rank: {rank}] Done with process group initialization...')
#invoke the main function here.
gen_dist_partitions(rank, params.world_size, params)
logging.info(f'[Rank: {rank}] Done with Distributed data processing pipeline processing.')