File size: 6,977 Bytes
6288873 | 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41 42 43 44 45 46 47 48 49 50 51 52 53 54 55 56 57 58 59 60 61 62 63 64 65 66 67 68 69 70 71 72 73 74 75 76 77 78 79 80 81 82 83 84 85 86 87 88 89 90 91 92 93 94 95 96 97 98 99 100 101 102 103 104 105 106 107 108 109 110 111 112 113 114 115 116 117 118 119 120 121 122 123 124 125 126 127 128 129 130 131 132 133 134 135 136 137 138 139 140 141 142 143 144 145 146 147 148 149 150 151 152 153 154 155 156 157 158 159 160 161 162 163 164 165 166 167 168 169 170 171 172 173 174 175 176 177 178 179 180 181 182 183 184 185 186 187 188 189 190 191 192 193 194 195 196 197 198 199 200 201 202 203 204 205 206 207 208 209 210 211 212 213 214 215 216 217 218 219 220 221 222 223 224 225 226 227 228 229 230 | import datetime
import math
import os
import pathlib
import sys
import subprocess
import textwrap
class SlurmUtils:
@staticmethod
def parse_special_fields(job_data):
job_data = job_data.copy()
for field in (
"SubmitTime",
"EligibleTime",
"AccrueTime",
"StartTime",
"EndTime",
"LastSchedEval",
"PreemptEligibleTime",
):
if (entry := job_data.get(field)) is not None and entry != "Unknown":
job_data[field] = datetime.datetime.fromisoformat(entry)
for field in ("RunTime", "TimeLimit", "DelayBoot"):
if (entry := job_data.get(field)) is not None:
entry = entry.split("-")
if len(entry) == 2:
days, time = entry
else:
(time,) = entry
days = 0
hours, minutes, seconds = time.split(":")
job_data[field] = datetime.timedelta(
days=int(days),
hours=int(hours),
minutes=int(minutes),
seconds=int(seconds),
)
for field in ("TRES", "ReqTRES", "AllocTRES"):
if (entry := job_data.get(field)) is not None:
entry = entry.split(",")
if len(entry) > 0:
job_data[field] = dict(e.split("=", 1) for e in entry)
for field in job_data:
try:
entry = int(job_data[field])
job_data[field] = entry
except (ValueError, TypeError):
pass
try:
entry = job_data[field]
if not isinstance(entry, int):
entry = float(entry)
job_data[field] = entry
except (ValueError, TypeError):
pass
return job_data
@classmethod
def get_job_data(cls, job_id):
job_id = int(job_id)
p = subprocess.run(
["scontrol", "show", "job", f"{job_id:d}"], capture_output=True, text=True
)
if p.returncode != 0:
return None
job_data = p.stdout.split()
slice_comb_list = []
for i, e in enumerate(job_data):
if "=" not in e:
slice_comb_list[-1] = slice(slice_comb_list[-1].start, i + 1)
else:
slice_comb_list.append(slice(i, i + 1))
job_data = ["".join(job_data[s]) for s in slice_comb_list]
job_data = dict(e.split("=", 1) for e in job_data)
job_data = cls.parse_special_fields(job_data)
return job_data
@classmethod
def get_own_job_data(cls):
if (job_id := os.environ.get("SLURM_JOB_ID")) is not None:
return cls.get_job_data(job_id)
return None
@staticmethod
def run_slurm_script(path, cwd=None):
cwd = pathlib.Path(cwd).absolute()
prog_env = {
k: v
for k, v in os.environ.items()
if not (k.startswith("SBATCH_") or k.startswith("SLURM_"))
}
p = subprocess.run(
["sbatch", "--export=NONE", str(path)],
capture_output=True,
text=True,
cwd=cwd,
env=prog_env,
)
if p.returncode != 0:
return None
try:
job_id = int(p.stdout.split()[-1])
except ValueError:
job_id = None
return job_id
@staticmethod
def generate_restart_scripts(
slurm_script_path,
python_script_path,
restart_state_file,
slurm_data,
executable=None,
):
TEMPLATE_PYTHON = textwrap.dedent("""\
#!/usr/bin/env python3
import argparse
import pathlib
import varipeps
parser = argparse.ArgumentParser()
parser.add_argument('filename', type=pathlib.Path)
args = parser.parse_args()
varipeps.optimization.restart_from_state_file(args.filename)
""")
TEMPLATE_SLURM = textwrap.dedent("""\
#!/bin/bash
#SBATCH --partition={partition}
#SBATCH --qos={qos}
#SBATCH --job-name={job_name}
#SBATCH --ntasks={ntasks:d}
#SBATCH --nodes={nodes:d}
#SBATCH --cpus-per-task={ncpus:d}
#SBATCH --mem={mem}
#SBATCH --time={time_limit}
{mail_type}
{mail_user}
"{executable}" "{python_script}" "{state_file}"
""")
python_script_path = pathlib.Path(python_script_path).resolve()
restart_state_file = pathlib.Path(restart_state_file).resolve()
if executable is None:
executable = pathlib.Path(sys.executable).absolute()
if (tres := slurm_data.get("ReqTRES")) is not None:
mem = tres["mem"]
else:
tres = slurm_data["TRES"]
mem = tres["mem"]
time_limit = slurm_data["TimeLimit"]
if time_limit.days > 0:
time_limit_diff = time_limit - datetime.timedelta(days=time_limit.days)
else:
time_limit_diff = time_limit
time_limit_hours = math.floor(time_limit_diff / datetime.timedelta(hours=1))
time_limit_diff -= datetime.timedelta(hours=time_limit_hours)
time_limit_minutes = math.floor(time_limit_diff / datetime.timedelta(minutes=1))
time_limit_diff -= datetime.timedelta(minutes=time_limit_minutes)
time_limit_seconds = math.floor(time_limit_diff.total_seconds())
if time_limit.days > 0:
time_limit_str = f"{time_limit.days}-{time_limit_hours:02d}:{time_limit_minutes:02d}:{time_limit_seconds:02d}"
else:
time_limit_str = f"{time_limit_hours:02d}:{time_limit_minutes:02d}:{time_limit_seconds:02d}"
if (mail_type := slurm_data.get("MailType")) is not None:
mail_type = f"#SBATCH --mail-type={mail_type}"
else:
mail_type = ""
if (mail_user := slurm_data.get("MailUser")) is not None:
mail_user = f"#SBATCH --mail-user={mail_user}"
else:
mail_user = ""
slurm_file_content = TEMPLATE_SLURM.format(
partition=slurm_data["Partition"],
qos=slurm_data["QOS"],
job_name=f"{slurm_data['JobName']}_restarted",
ntasks=slurm_data["NumTasks"],
nodes=slurm_data["NumNodes"],
ncpus=slurm_data["CPUs/Task"],
mem=mem,
time_limit=time_limit_str,
mail_type=mail_type,
mail_user=mail_user,
executable=str(executable),
python_script=str(python_script_path),
state_file=restart_state_file,
)
with python_script_path.open("w") as f:
f.write(TEMPLATE_PYTHON)
with pathlib.Path(slurm_script_path).open("w") as f:
f.write(slurm_file_content)
|