def _dump_trace(args):
"""Execute the 'dump trace' command."""
if (args.train or args.valid or args.test or args.truncate or args.job_id
or args.checkpoint or args.batch or args.example) and args.search:
sys.exit(
"--search and any of --train, --valid, --test, --truncate, --job_id,"
" --checkpoint, --batch, --example are mutually exclusive")
entry_type_specified = True
if not (args.train or args.valid or args.test or args.search):
entry_type_specified = False
args.train = True
args.valid = True
args.test = True
truncate_flag = False
truncate_epoch = None
if isinstance(args.truncate, bool) and args.truncate:
truncate_flag = True
elif not isinstance(args.truncate, bool):
if not args.truncate.isdigit():
sys.exit(
"Integer argument or no argument for --truncate must be used")
truncate_epoch = int(args.truncate)
checkpoint_path = None
if ".pt" in os.path.split(args.source)[-1]:
checkpoint_path = args.source
folder_path = os.path.split(args.source)[0]
else:
# determine job_id and epoch from last/best checkpoint automatically
if args.checkpoint:
checkpoint_path = Config.best_or_last_checkpoint_file(args.source)
folder_path = args.source
if not checkpoint_path and truncate_flag:
sys.exit(
"--truncate can only be used as a flag when a checkpoint is specified."
" Consider specifying a checkpoint or use an integer argument for the"
" --truncate option")
if checkpoint_path and args.job_id:
sys.exit(
"--job_id cannot be used together with a checkpoint as the checkpoint"
" already specifies the job_id")
trace = os.path.join(folder_path, "trace.yaml")
if not os.path.isfile(trace):
sys.exit(
f"No file 'trace.yaml' found at {os.path.abspath(folder_path)}")
# process additional keys from --keys and --keysfile
keymap = OrderedDict()
additional_keys = []
if args.keysfile:
with open(args.keysfile, "r") as keyfile:
additional_keys = keyfile.readlines()
if args.keys:
additional_keys += args.keys
for line in additional_keys:
line = line.rstrip("\n").replace(" ", "")
name_key = line.split("=")
if len(name_key) == 1:
name_key += name_key
keymap[name_key[0]] = name_key[1]
job_id = None
# use job_id and truncate_epoch from checkpoint
if checkpoint_path and truncate_flag:
checkpoint = torch.load(f=checkpoint_path, map_location="cpu")
job_id = checkpoint["job_id"]
truncate_epoch = checkpoint["epoch"]
# only use job_id from checkpoint
elif checkpoint_path:
checkpoint = torch.load(f=checkpoint_path, map_location="cpu")
job_id = checkpoint["job_id"]
# no checkpoint specified job_id might have been set manually
elif args.job_id:
job_id = args.job_id
# don't restrict epoch number in case it has not been specified yet
if not truncate_epoch:
truncate_epoch = float("inf")
entries, job_epochs = [], {}
if not args.search:
entries, job_epochs = Trace.grep_training_trace_entries(
tracefile=trace,
train=args.train,
test=args.test,
valid=args.valid,
example=args.example,
batch=args.batch,
job_id=job_id,
epoch_of_last=truncate_epoch,
)
if not entries and (args.search or not entry_type_specified):
entries = Trace.grep_entries(tracefile=trace,
conjunctions=[f"scope: train"])
truncate_epoch = None
if entries:
args.search = True
if not entries and entry_type_specified:
sys.exit(
"No relevant trace entries found. If this was a trace from a search"
" job, dont use any of --train --valid --test.")
elif not entries:
sys.exit("No relevant trace entries found.")
if args.list_keys:
all_trace_keys = set()
if not args.yaml:
csv_writer = csv.writer(sys.stdout)
# dict[new_name] = (lookup_name, where)
# if where=="config"/"trace" it will be looked up automatically
# if where=="sep" it must be added in in the write loop separately
if args.no_default_keys:
default_attributes = OrderedDict()
else:
default_attributes = OrderedDict([
("job_id", ("job_id", "sep")),
("dataset", ("dataset.name", "config")),
("model", ("model", "sep")),
("reciprocal", ("reciprocal", "sep")),
("job", ("job", "sep")),
("job_type", ("type", "trace")),
("split", ("split", "sep")),
("epoch", ("epoch", "trace")),
("avg_loss", ("avg_loss", "trace")),
("avg_penalty", ("avg_penalty", "trace")),
("avg_cost", ("avg_cost", "trace")),
("metric_name", ("valid.metric", "config")),
("metric", ("metric", "sep")),
])
if args.search:
default_attributes["child_folder"] = ("folder", "trace")
default_attributes["child_job_id"] = ("child_job_id", "sep")
if not (args.no_header or args.list_keys):
csv_writer.writerow(
list(default_attributes.keys()) +
[key for key in keymap.keys()])
# store configs for job_id's s.t. they need to be loaded only once
configs = {}
warning_shown = False
for entry in entries:
current_epoch = entry.get("epoch")
job_type = entry.get("job")
job_id = entry.get("job_id")
if truncate_epoch and not current_epoch <= float(truncate_epoch):
continue
# filter out entries not relevant to the unique training sequence determined
# by the options; not relevant for search
if job_type == "train":
if current_epoch > job_epochs[job_id]:
continue
elif job_type == "eval":
if "resumed_from_job_id" in entry:
if current_epoch > job_epochs[entry.get(
"resumed_from_job_id")]:
continue
elif "parent_job_id" in entry:
if current_epoch > job_epochs[entry.get("parent_job_id")]:
continue
# find relevant config file
child_job_id = entry.get(
"child_job_id") if "child_job_id" in entry else None
config_key = (entry.get("folder") + "/" +
str(child_job_id) if args.search else job_id)
if config_key in configs.keys():
config = configs[config_key]
else:
if args.search:
if not child_job_id and not warning_shown:
# This warning is from Dec 19, 2019. TODO remove
print(
"Warning: You are dumping the trace of an older search job. "
"This is fine only if "
"the config.yaml files in each subfolder have not been modified "
"after running the corresponding training job.",
file=sys.stderr,
)
warning_shown = True
config = get_config_for_job_id(
child_job_id, os.path.join(folder_path,
entry.get("folder")))
entry["type"] = config.get("train.type")
else:
config = get_config_for_job_id(job_id, folder_path)
configs[config_key] = config
if args.list_keys:
all_trace_keys.update(entry.keys())
continue
new_attributes = OrderedDict()
# when training was reciprocal, use the base_model as model
if config.get_default("model") == "reciprocal_relations_model":
model = config.get_default(
"reciprocal_relations_model.base_model.type")
# the string that substitutes $base_model in keymap if it exists
subs_model = "reciprocal_relations_model.base_model"
reciprocal = 1
else:
model = config.get_default("model")
subs_model = model
reciprocal = 0
# search for the additional keys from --keys and --keysfile
for new_key in keymap.keys():
lookup = keymap[new_key]
# search for special keys
value = None
if lookup == "$folder":
value = os.path.abspath(folder_path)
elif lookup == "$checkpoint" and checkpoint_path:
value = os.path.abspath(checkpoint_path)
elif lookup == "$machine":
value = socket.gethostname()
if "$base_model" in lookup:
lookup = lookup.replace("$base_model", subs_model)
# search for ordinary keys; start searching in trace entry then config
if not value:
value = entry.get(lookup)
if not value:
try:
value = config.get_default(lookup)
except:
pass # value stays None; creates empty field in csv
if value and isinstance(value, bool):
value = 1
elif not value and isinstance(value, bool):
value = 0
new_attributes[new_key] = value
if not args.yaml:
# find the actual values for the default attributes
actual_default = default_attributes.copy()
for new_key in default_attributes.keys():
lookup, where = default_attributes[new_key]
if where == "config":
actual_default[new_key] = config.get(lookup)
elif where == "trace":
actual_default[new_key] = entry.get(lookup)
# keys with separate treatment
# "split" in {train,test,valid} for the datatype
# "job" in {train,eval,valid,search}
if job_type == "train":
if "split" in entry:
actual_default["split"] = entry.get("split")
else:
actual_default["split"] = "train"
actual_default["job"] = "train"
elif job_type == "eval":
if "split" in entry:
actual_default["split"] = entry.get(
"split") # test or valid
else:
# deprecated
actual_default["split"] = entry.get(
"data") # test or valid
if entry.get("resumed_from_job_id"):
actual_default["job"] = "eval" # from "kge eval"
else:
actual_default["job"] = "valid" # child of training job
else:
actual_default["job"] = job_type
if "split" in entry:
actual_default["split"] = entry.get("split")
else:
# deprecated
actual_default["split"] = entry.get(
"data") # test or valid
actual_default["job_id"] = job_id.split("-")[0]
actual_default["model"] = model
actual_default["reciprocal"] = reciprocal
# lookup name is in config value is in trace
actual_default["metric"] = entry.get(
config.get_default("valid.metric"))
if args.search:
actual_default["child_job_id"] = entry.get(
"child_job_id").split("-")[0]
for key in list(actual_default.keys()):
if key not in default_attributes:
del actual_default[key]
csv_writer.writerow(
[actual_default[new_key]
for new_key in actual_default.keys()] +
[new_attributes[new_key] for new_key in new_attributes.keys()])
else:
entry.update({"reciprocal": reciprocal, "model": model})
if keymap:
entry.update(new_attributes)
print(entry)
if args.list_keys:
# only one config needed
config = configs[list(configs.keys())[0]]
options = Config.flatten(config.options)
options = sorted(filter(lambda opt: "+++" not in opt, options),
key=lambda opt: opt.lower())
if isinstance(args.list_keys, bool):
sep = ", "
else:
sep = args.list_keys
print("Default keys for CSV: ")
print(*default_attributes.keys(), sep=sep)
print("")
print("Special keys: ")
print(*["$folder", "$checkpoint", "$machine", "$base_model"], sep=sep)
print("")
print("Keys found in trace: ")
print(*sorted(all_trace_keys), sep=sep)
print("")
print("Keys found in config: ")
print(*options, sep=sep)
def _dump_trace(args):
""" Executes the 'dump trace' command."""
start = time.time()
if (args.train or args.valid or args.test) and args.search:
print(
"--search and --train, --valid, --test are mutually exclusive",
file=sys.stderr,
)
exit(1)
entry_type_specified = True
if not (args.train or args.valid or args.test or args.search):
entry_type_specified = False
args.train = True
args.valid = True
args.test = True
checkpoint_path = None
if ".pt" in os.path.split(args.source)[-1]:
checkpoint_path = args.source
folder_path = os.path.split(args.source)[0]
else:
# determine job_id and epoch from last/best checkpoint automatically
if args.checkpoint:
checkpoint_path = Config.get_best_or_last_checkpoint(args.source)
folder_path = args.source
if not args.checkpoint and args.truncate:
raise ValueError(
"You can only use --truncate when a checkpoint is specified."
"Consider using --checkpoint or provide a checkpoint file as source"
)
trace = os.path.join(folder_path, "trace.yaml")
if not os.path.isfile(trace):
sys.stderr.write("No trace found at {}\n".format(trace))
exit(1)
keymap = OrderedDict()
additional_keys = []
if args.keysfile:
with open(args.keysfile, "r") as keyfile:
additional_keys = keyfile.readlines()
if args.keys:
additional_keys += args.keys
for line in additional_keys:
line = line.rstrip("\n").replace(" ", "")
name_key = line.split("=")
if len(name_key) == 1:
name_key += name_key
keymap[name_key[0]] = name_key[1]
job_id = None
epoch = int(args.max_epoch)
# use job_id and epoch from checkpoint
if checkpoint_path and args.truncate:
checkpoint = torch.load(f=checkpoint_path, map_location="cpu")
job_id = checkpoint["job_id"]
epoch = checkpoint["epoch"]
# only use job_id from checkpoint
elif checkpoint_path:
checkpoint = torch.load(f=checkpoint_path, map_location="cpu")
job_id = checkpoint["job_id"]
# override job_id and epoch with user arguments
if args.job_id:
job_id = args.job_id
if not epoch:
epoch = float("inf")
entries, job_epochs = [], {}
if not args.search:
entries, job_epochs = Trace.grep_training_trace_entries(
tracefile=trace,
train=args.train,
test=args.test,
valid=args.valid,
example=args.example,
batch=args.batch,
job_id=job_id,
epoch_of_last=epoch,
)
if not entries and (args.search or not entry_type_specified):
entries = Trace.grep_entries(tracefile=trace,
conjunctions=[f"scope: train"])
epoch = None
if entries:
args.search = True
if not entries:
print("No relevant trace entries found.", file=sys.stderr)
exit(1)
middle = time.time()
if not args.yaml:
csv_writer = csv.writer(sys.stdout)
# dict[new_name] = (lookup_name, where)
# if where=="config"/"trace" it will be looked up automatically
# if where=="sep" it must be added in in the write loop separately
if args.no_default_keys:
default_attributes = OrderedDict()
else:
default_attributes = OrderedDict([
("job_id", ("job_id", "sep")),
("dataset", ("dataset.name", "config")),
("model", ("model", "sep")),
("reciprocal", ("reciprocal", "sep")),
("job", ("job", "sep")),
("job_type", ("type", "trace")),
("split", ("split", "sep")),
("epoch", ("epoch", "trace")),
("avg_loss", ("avg_loss", "trace")),
("avg_penalty", ("avg_penalty", "trace")),
("avg_cost", ("avg_cost", "trace")),
("metric_name", ("valid.metric", "config")),
("metric", ("metric", "sep")),
])
if args.search:
default_attributes["child_folder"] = ("folder", "trace")
default_attributes["child_job_id"] = ("child_job_id", "sep")
if not args.no_header:
csv_writer.writerow(
list(default_attributes.keys()) +
[key for key in keymap.keys()])
# store configs for job_id's s.t. they need to be loaded only once
configs = {}
warning_shown = False
for entry in entries:
if epoch and not entry.get("epoch") <= float(epoch):
continue
# filter out not needed entries from a previous job when
# a job was resumed from the middle
if entry.get("job") == "train":
job_id = entry.get("job_id")
if entry.get("epoch") > job_epochs[job_id]:
continue
# find relevant config file
child_job_id = entry.get(
"child_job_id") if "child_job_id" in entry else None
config_key = (entry.get("folder") + "/" + str(child_job_id)
if args.search else entry.get("job_id"))
if config_key in configs.keys():
config = configs[config_key]
else:
if args.search:
if not child_job_id and not warning_shown:
# This warning is from Dec 19, 2019. TODO remove
print(
"Warning: You are dumping the trace of an older search job. "
"This is fine only if "
"the config.yaml files in each subfolder have not been modified "
"after running the corresponding training job.",
file=sys.stderr,
)
warning_shown = True
config = get_config_for_job_id(
child_job_id, os.path.join(folder_path,
entry.get("folder")))
entry["type"] = config.get("train.type")
else:
config = get_config_for_job_id(entry.get("job_id"),
folder_path)
configs[config_key] = config
new_attributes = OrderedDict()
if config.get_default("model") == "reciprocal_relations_model":
model = config.get_default(
"reciprocal_relations_model.base_model.type")
# the string that substitutes $base_model in keymap if it exists
subs_model = "reciprocal_relations_model.base_model"
reciprocal = 1
else:
model = config.get_default("model")
subs_model = model
reciprocal = 0
for new_key in keymap.keys():
lookup = keymap[new_key]
if "$base_model" in lookup:
lookup = lookup.replace("$base_model", subs_model)
try:
if lookup == "$folder":
val = os.path.abspath(folder_path)
elif lookup == "$checkpoint":
val = os.path.abspath(checkpoint_path)
elif lookup == "$machine":
val = socket.gethostname()
else:
val = config.get_default(lookup)
except:
# creates empty field if key is not existing
val = entry.get(lookup)
if type(val) == bool and val:
val = 1
elif type(val) == bool and not val:
val = 0
new_attributes[new_key] = val
if not args.yaml:
# find the actual values for the default attributes
actual_default = default_attributes.copy()
for new_key in default_attributes.keys():
lookup, where = default_attributes[new_key]
if where == "config":
actual_default[new_key] = config.get(lookup)
elif where == "trace":
actual_default[new_key] = entry.get(lookup)
# keys with separate treatment
# "split" in {train,test,valid} for the datatype
# "job" in {train,eval,valid,search}
if entry.get("job") == "train":
actual_default["split"] = "train"
actual_default["job"] = "train"
elif entry.get("job") == "eval":
actual_default["split"] = entry.get("data") # test or valid
if entry.get("resumed_from_job_id"):
actual_default["job"] = "eval" # from "kge eval"
else:
actual_default["job"] = "valid" # child of training job
else:
actual_default["job"] = entry.get("job")
actual_default["split"] = entry.get("data")
actual_default["job_id"] = entry.get("job_id").split("-")[0]
actual_default["model"] = model
actual_default["reciprocal"] = reciprocal
# lookup name is in config value is in trace
actual_default["metric"] = entry.get(
config.get_default("valid.metric"))
if args.search:
actual_default["child_job_id"] = entry.get(
"child_job_id").split("-")[0]
for key in list(actual_default.keys()):
if key not in default_attributes:
del actual_default[key]
csv_writer.writerow(
[actual_default[new_key]
for new_key in actual_default.keys()] +
[new_attributes[new_key] for new_key in new_attributes.keys()])
else:
entry.update({"reciprocal": reciprocal, "model": model})
if keymap:
entry.update(new_attributes)
sys.stdout.write(re.sub("[{}']", "", str(entry)))
sys.stdout.write("\n")
end = time.time()
if args.timeit:
sys.stdout.write("Grep + processing took {} \n".format(middle - start))
sys.stdout.write("Writing took {}".format(end - middle))