def submit(hail_code: Commit,
benchmark_code: Commit,
test_names: Set[str],
n_replicates: int,
n_iters: int):
sync_check_shell(benchmark_code.checkout_script())
sys.path.insert(0, f'{benchmark_code.repo_dir()}/benchmark/python/benchmark_hail')
importlib.invalidate_caches # pylint: disable=pointless-statement
from benchmark_hail.run.resources import all_resources # pylint: disable=import-error, import-outside-toplevel
from benchmark_hail.run.utils import list_benchmarks # pylint: disable=import-error, import-outside-toplevel
output_file = f'gs://hail-benchmarks-2/benchmark/{hail_code.sha}-{benchmark_code.sha}.json'
b = hb.Batch(name=f'benchmark-{hail_code.sha}',
backend=hb.ServiceBackend(billing_project='hail'),
default_image=BENCHMARK_IMAGE,
default_cpu='2',
attributes={'output_file': output_file,
'n_replicates': str(n_replicates),
'n_iters': str(n_iters),
'image': str(BENCHMARK_IMAGE),
'hail_code': str(hail_code),
'benchmark_code': str(benchmark_code)})
build_hail = b.new_job('build_hail_wheel')
build_hail.command(f'''
set -ex
{ hail_code.checkout_script() }
cd hail
time ./gradlew --version
time make wheel
time (cd python && zip -r hail.zip hail hailtop)
(cd build/deploy/dist/ && tar -cvf wheel-container.tar hail-*-py3-none-any.whl)
cp build/deploy/dist/hail-*-py3-none-any.whl {build_hail.wheel}
''')
build_benchmark = b.new_job('build_benchmark_wheel')
build_benchmark.command(f'''
set -ex
{benchmark_code.checkout_script()}
make -C hail python/hail/hail_pip_version
export HAIL_VERSION=$(cat hail/python/hail/hail_pip_version)
export HAIL_BENCHMARK_VERSION=$HAIL_VERSION
cd benchmark/python/ && python3 setup.py -q bdist_wheel
python3 -m pip -q install dist/benchmark_hail-$HAIL_VERSION-py3-none-any.whl
cp dist/benchmark_hail-$HAIL_VERSION-py3-none-any.whl {build_benchmark.wheel}
''')
resource_jobs = {}
for r in all_resources:
j = b.new_job(f'create_resource_{r.name()}').cpu(4)
j.command(f'mv {build_hail.wheel} hail--py3-none-any.whl')
j.command('pip install hail--py3-none-any.whl')
j.command(f'mv {build_benchmark.wheel} benchmark_hail-$HAIL_VERSION-py3-none-any.whl')
j.command('pip install benchmark_hail-$HAIL_VERSION-py3-none-any.whl')
j.command(f'hail-bench create-resources --data-dir benchmark-resources --group {r.name()}')
j.command(f"time tar -cf {r.name()}.tar benchmark-resources/{r.name()} --exclude='*.crc'")
j.command(f'ls -lh {r.name()}.tar')
j.command(f'mv {r.name()}.tar {j.ofile}')
resource_jobs[r] = j
all_benchmarks = list_benchmarks()
assert len(all_benchmarks) > 0
all_output = []
n_passed_filter = 0
job_fs = []
for benchmark in all_benchmarks:
if benchmark.name in test_names:
n_passed_filter += 1
for replicate in range(n_replicates):
job_fs.append((benchmark.name, replicate, benchmark.groups))
log.info(f'generating {n_passed_filter} * {n_replicates} = {n_passed_filter * n_replicates} individual benchmark jobs')
random.shuffle(job_fs)
for name, replicate, groups in job_fs:
j = b.new_job(name=f'{name}_{replicate}')
j.command(f'mv {build_hail.wheel} hail--py3-none-any.whl')
j.command('pip install hail--py3-none-any.whl')
j.command(f'mv {build_benchmark.wheel} benchmark_hail--py3-none-any.whl')
j.command('pip install benchmark_hail--py3-none-any.whl')
j.command('mkdir -p benchmark-resources')
for resource_group in groups:
resource_job = resource_jobs[resource_group]
j.command(f'mv {resource_job.ofile} benchmark-resources/{resource_group.name()}.tar')
j.command(f'time tar -xf benchmark-resources/{resource_group.name()}.tar')
j.command(f'MKL_NUM_THREADS=1'
f'OPENBLAS_NUM_THREADS=1'
f'OMP_NUM_THREADS=1'
f'VECLIB_MAXIMUM_THREADS=1'
f'PYSPARK_SUBMIT_ARGS="--driver-memory 6G pyspark-shell" '
f'hail-bench run -o {j.ofile} -n {n_iters} --data-dir benchmark-resources -t {name}')
all_output.append(j.ofile)
combine_branch_factor = int(os.environ.get('BENCHMARK_BRANCH_FACTOR', 32))
phase_i = 1
while len(all_output) > combine_branch_factor:
new_output = []
job_i = 1
i = 0
while i < len(all_output):
combine = b.new_job(f'combine_output_phase{phase_i}_job{job_i}')
combine.command(f'mv {build_hail.wheel} hail--py3-none-any.whl')
combine.command('pip install hail--py3-none-any.whl')
combine.command(f'mv {build_benchmark.wheel} benchmark_hail--py3-none-any.whl')
combine.command('pip install benchmark_hail--py3-none-any.whl')
combine.command(
f'hail-bench combine -o {combine.ofile} ' + ' '.join(all_output[i:i + combine_branch_factor]))
new_output.append(combine.ofile)
i += combine_branch_factor
job_i += 1
phase_i += 1
all_output = new_output
combine = b.new_job('final_combine_output')
combine.command(f'mv {build_hail.wheel} hail--py3-none-any.whl')
combine.command('pip install hail--py3-none-any.whl')
combine.command(f'mv {build_benchmark.wheel} benchmark_hail--py3-none-any.whl')
combine.command('pip install benchmark_hail--py3-none-any.whl')
combine.command(f'hail-bench combine -o {combine.ofile} ' + ' '.join(all_output))
combine.command(f'cat {combine.ofile}')
log.info(f'writing output to {output_file}')
b.write_output(combine.ofile, output_file)
b.run()
def echo_check_call(cmd):
sync_check_shell(' '.join(cmd), echo=True)