def test_dag_cached() -> None:
"""Test that DAG caching works."""
serv = MockServer()
with Fun(serv, defaults=options(distributed=False)):
dat = put(b"bla bla")
step1 = morph(lambda x: x.decode().upper().encode(), dat)
step2b = shell("echo 'not'", inp=dict(file1=step1))
merge = shell("cat file1 file2",
inp=dict(file1=step1, file2=step2b.stdout),
out=["file2"])
execute(merge)
with Fun(serv, defaults=options(distributed=False, evaluate=False)):
# Same as above, should run through with no evaluation
dat = put(b"bla bla")
step1 = morph(lambda x: x.decode().upper().encode(), dat)
step2b = shell("echo 'not'", inp=dict(file1=step1))
merge = shell("cat file1 file2",
inp=dict(file1=step1, file2=step2b.stdout),
out=["file2"])
execute(merge)
with Fun(serv, defaults=options(distributed=False, evaluate=False)):
dat = put(b"bla bla")
step1 = morph(lambda x: x.decode().upper().encode(), dat)
# DIFFERENT HERE: Trigger re-evaluation and raise
step2b = shell("echo 'knot'", inp=dict(file1=step1))
merge = shell("cat file1 file2",
inp=dict(file1=step1, file2=step2b.stdout),
out=["file2"])
with pytest.raises(RuntimeError):
execute(merge)
def test_dag_dump() -> None:
"""Test simple DAG dump to file."""
with Fun(MockServer(), options(distributed=False)) as db:
dat = put(b"bla bla")
dat2 = put(b"blaXbla")
errorstep = morph(raises, dat2)
step1 = morph(upper, dat)
step2 = shell("cat file1 file2", inp=dict(file1=step1, file2=dat))
step2b = utils.concat(step2.stdout, errorstep, strict=False)
step3 = shell("cat file1", inp=dict(file1=step2b))
step4 = shell("cat file1", inp=dict(file1=step1))
step4b = shell("cat file2", inp=dict(file2=step4.stdout))
out = utils.concat(step1, dat, step2.stdout, step3.stdout)
_dag.build_dag(db, out.hash)
execute(step2b)
execute(step4b)
wait_for(step4b, 1.0)
reset(step4)
nodes, artefacts, labels, links = _graphviz.export(
db, [out.hash, step4b.hash])
dot = _graphviz.format_dot(nodes, artefacts, labels, links,
[out.hash, step4b.hash])
assert len(dot) > 0
assert len(nodes) == 8
assert len(labels) == 8
# TODO pass through dot for testing?
with open("g.dot", "w") as f:
f.write(dot)
def test_concat() -> None:
"""Test concatenation."""
with Fun(MockServer()):
db, store = get_connection()
dat1 = put(b"bla")
dat2 = put(b"bla")
cat = utils.concat(dat1, dat2)
run_op(db, store, cat.parent)
assert take(cat) == b"blabla"
cat = utils.concat(dat1, dat1, dat1, join=b" ")
run_op(db, store, cat.parent)
assert take(cat) == b"bla bla bla"
def test_subgraph() -> None:
"""Test that we can isolate the required operators for parametrization."""
with Fun(MockServer(), options(distributed=False)) as db:
dat = put(b"bla bla")
step1 = morph(capitalize, dat)
step2 = shell("cat file1 file2", inp=dict(file1=step1, file2=dat))
# random not included ops
stepA = shell("echo 'bla'")
_ = concat(dat, dat)
_ = morph(capitalize, b"another word")
final = shell("cat file1 file2",
inp={
"file1": stepA.stdout,
"file2": step2.stdout
})
ops = _p._parametrize_subgraph(db, {"input": dat},
{"output": final.stdout})
assert len(ops) == 3
assert step1.parent in ops
assert step2.hash in ops
assert final.hash in ops
# get edges
edges = _p._subgraph_edges(db, ops)
print(edges)
def test_double_execution(nworkers: int) -> None:
"""Test multiple executions of the same task."""
# This test will fail if a job is re-executed multiple times.
# external
from rq.job import get_current_job
def track_runs(inp: bytes) -> bytes:
job = get_current_job()
db: Redis[bytes] = job.connection
val = db.incrby("sentinel", 1)
time.sleep(0.5)
return str(val).encode()
with f.ManagedFun(nworkers=nworkers):
# wait_for_workers(db, nworkers)
dat = f.put(b"bla bla")
step1 = f.morph(track_runs, dat)
step1a = f.shell(
"cat file1",
inp=dict(file1=step1),
)
step1b = f.shell(
"cat file2",
inp=dict(file2=step1),
)
f.execute(step1a)
f.execute(step1b)
f.wait_for(step1a, timeout=10.0)
f.wait_for(step1b, timeout=10.0)
assert f.take(step1a.stdout) == b"1"
def test_subdag() -> None:
"""Test that subdags execute properly."""
def cap(inp: bytes) -> bytes:
return inp.upper()
def map_reduce(
inputs: dict[str, bytes]) -> dict[str, _graph.Artefact[bytes]]:
"""Basic map reduce."""
inp_data = inputs["inp"].split(b" ")
out: list[_graph.Artefact[bytes]] = []
for el in inp_data:
out += [morph(cap, el, opt=options(distributed=False))]
return {"out": concat(*out, join="-")}
with Fun(MockServer(), defaults=options(distributed=False)) as db:
dat = put(b"bla bla lol what")
inp = {"inp": dat}
cmd = _subdag.subdag_funsie(map_reduce, {"inp": Encoding.blob},
{"out": Encoding.blob})
operation = _graph.make_op(db, cmd, inp, options())
out = _graph.Artefact[bytes].grab(db, operation.out["out"])
final = shell(
"cat file1 file2",
inp=dict(file1=out, file2=b"something"),
)
execute(final)
data = take(final.stdout)
assert data == b"BLA-BLA-LOL-WHATsomething"
def test_toposort() -> None:
"""Test that we can topologically sort the subset."""
with Fun(MockServer(), options(distributed=False)) as db:
dat = put(b"bla bla")
step1 = morph(capitalize, dat)
step2 = shell("cat file1 file2", inp=dict(file1=step1, file2=dat))
# random not included ops
stepA = shell("echo 'bla'")
_ = concat(dat, dat)
_ = morph(capitalize, b"another word")
final = shell("cat file1 file2",
inp={
"file1": stepA.stdout,
"file2": step2.stdout
})
ops = _p._parametrize_subgraph(db, {"input": dat},
{"output": final.stdout})
edges = _p._subgraph_edges(db, ops)
sorted_ops = _p._subgraph_toposort(ops, edges)
assert sorted_ops[0] == step1.parent
assert sorted_ops[1] == step2.hash
assert sorted_ops[2] == final.hash
def test_dynamic_dump() -> None:
"""Test whether a dynamic DAG gets graphed properly."""
def split(a: bytes, b: bytes) -> list[dict[str, int]]:
a = a.split()
b = b.split()
out = []
for ia, ib in zip(a, b):
out += [{
"sum": int(ia.decode()) + int(ib.decode()),
"product": int(ia.decode()) * int(ib.decode()),
}]
return out
def apply(inp: Artefact[dict[str, Any]]) -> Artefact[str]:
out = funsies.morph(lambda x: f"{x['sum']}//{x['product']}", inp)
return out
def combine(inp: Sequence[Artefact[str]]) -> Artefact[bytes]:
def enc(inp: str) -> bytes:
return inp.encode()
out = [funsies.morph(enc, x, out=Encoding.blob) for x in inp]
return funsies.utils.concat(*out)
with funsies.ManagedFun(nworkers=1) as db:
num1 = funsies.put(b"1 2 3 4 5")
num2 = funsies.put(b"11 10 11 10 11")
outputs = dynamic.sac(
split,
apply,
combine,
num1,
num2,
out=Encoding.blob,
)
outputs = funsies.morph(lambda x: x, outputs)
nodes, artefacts, labels, links = _graphviz.export(db, [outputs.hash])
assert len(artefacts) == 4 # not yet generated subdag parents
print(len(artefacts))
funsies.execute(outputs)
funsies.wait_for(outputs, timeout=1.0)
nodes, artefacts, labels, links = _graphviz.export(db, [outputs.hash])
assert len(artefacts) == 22 # generated subdag parents
assert funsies.take(outputs) == b"12//1112//2014//3314//4016//55"
def test_truncate() -> None:
"""Test truncation."""
with Fun(MockServer()):
db, store = get_connection()
inp = "\n".join([f"{k}" for k in range(10)])
dat1 = put(inp.encode())
trunc = utils.truncate(dat1, 2, 3)
run_op(db, store, trunc.parent)
assert take(trunc) == ("\n".join(inp.split("\n")[2:-3])).encode()
def test_parametric_store_recall() -> None:
"""Test storing and recalling parametrics."""
serv = MockServer()
with Fun(serv, options(distributed=False)):
a = put(3)
b = put(4)
s = reduce(lambda x, y: x + y, a, b)
s2 = morph(lambda x: 3 * x, s)
execute(s2)
assert take(s2) == 21
# parametrize
p.commit("math", inp=dict(a=a, b=b), out=dict(s=s, s2=s2))
with Fun(serv, options(distributed=False)):
out = p.recall("math", inp=dict(a=5, b=8))
execute(out["s2"])
assert take(out["s2"]) == 39
def test_parametric_eval() -> None:
"""Test that parametric evaluate properly."""
with Fun(MockServer(), options(distributed=False)) as db:
dat = put(b"bla bla")
step1 = morph(capitalize, dat)
step2 = shell("cat file1 file2", inp=dict(file1=step1, file2=dat))
final = shell("cat file1 file3",
inp={
"file1": step1,
"file3": step2.stdout
})
execute(final.stdout)
# b'BLA BLABLA BLAbla bla'
param = _p.make_parametric(db, "param", {"input": dat},
{"output": final.stdout})
dat2 = put(b"lol lol")
out = param.evaluate(db, {"input": dat2})
execute(out["output"])
assert take(out["output"]) == b"LOL LOLLOL LOLlol lol"
def test_dag_execute() -> None:
"""Test execution of a _dag."""
with Fun(MockServer(), defaults=options(distributed=False)):
dat = put(b"bla bla")
step1 = morph(lambda x: x.decode().upper().encode(), dat)
step2 = shell("cat file1 file2", inp=dict(file1=step1, file2=dat))
output = step2.stdout
# make queue
execute(output)
out = take(output)
assert out == b"BLA BLAbla bla"
def test_waiting_on_map_reduce() -> None:
"""Test waiting on the (linked) result of map-reduce."""
def split(a: bytes, b: bytes) -> list[dict[str, int]]:
a = a.split()
b = b.split()
out = []
for ia, ib in zip(a, b):
out += [{
"sum": int(ia.decode()) + int(ib.decode()),
"product": int(ia.decode()) * int(ib.decode()),
}]
return out
def apply(inp: Artefact) -> Artefact:
out = funsies.morph(lambda x: f"{x['sum']}//{x['product']}", inp)
return out
def combine(inp: Sequence[Artefact]) -> Artefact:
out = [
funsies.morph(lambda y: y.encode(), x, out=Encoding.blob)
for x in inp
]
return funsies.utils.concat(*out)
with funsies.ManagedFun(nworkers=1):
num1 = funsies.put(b"1 2 3 4 5")
num2 = funsies.put(b"11 10 11 10 11")
outputs = dynamic.sac(
split,
apply,
combine,
num1,
num2,
out=Encoding.blob,
)
funsies.execute(outputs)
funsies.wait_for(outputs, timeout=1.0)
assert funsies.take(outputs) == b"12//1112//2014//3314//4016//55"
def test_map_reduce() -> None:
"""Test simple map-reduce."""
def split(a: bytes, b: bytes) -> list[dict[str, int]]:
a = a.split()
b = b.split()
out = []
for ia, ib in zip(a, b):
out += [{
"sum": int(ia.decode()) + int(ib.decode()),
"product": int(ia.decode()) * int(ib.decode()),
}]
return out
def apply(inp: Artefact) -> Artefact:
out = funsies.morph(lambda x: f"{x['sum']}//{x['product']}", inp)
return out
def combine(inp: Sequence[Artefact]) -> Artefact:
out = [
funsies.morph(lambda y: y.encode(), x, out=Encoding.blob)
for x in inp
]
return funsies.utils.concat(*out)
with funsies.Fun(MockServer(), funsies.options(distributed=False)):
num1 = funsies.put(b"1 2 3 4 5")
num2 = funsies.put(b"11 10 11 10 11")
outputs = dynamic.sac(
split,
apply,
combine,
num1,
num2,
out=Encoding.blob,
)
funsies.execute(outputs)
assert funsies.take(outputs) == b"12//1112//2014//3314//4016//55"
def test_parametric_store_recall_optional() -> None:
"""Test storing a parametric with optional parameters."""
serv = MockServer()
with Fun(serv, options(distributed=False)):
a = put(3)
b = put("fun")
s = reduce(lambda x, y: x * y, a, b)
s2 = morph(lambda x: x.upper(), s)
# parametrize
p.commit("fun", inp=dict(a=a, b=b), out=dict(s=s2))
with Fun(serv, options(distributed=False)):
out = p.recall("fun", inp=dict(a=5))
execute(out["s"])
assert take(out["s"]) == "FUNFUNFUNFUNFUN"
# nested
out = p.recall("fun", inp=dict(b="lol"))
out = p.recall("fun", inp=dict(b=out["s"], a=2))
execute(out["s"])
assert take(out["s"]) == "LOLLOLLOLLOLLOLLOL"
def test_infer_errs() -> None:
"""Test inference applied to functions."""
with f.Fun(MockServer()):
a = f.put(b"bla bla")
b = f.put(3)
with pytest.raises(TypeError):
f.py(lambda x, y, z: (x, y), a, a, b)
# should NOT raise
f.py(
lambda x, y, z: (x, y),
a,
a,
b,
out=[types.Encoding.blob, types.Encoding.blob],
)
def i1o2(x: bytes) -> Tuple[bytes, bytes]:
return x, x
def i2o1(x: bytes, y: bytes) -> bytes:
return x
with pytest.raises(TypeError):
out = f.morph(i1o2, a) # type:ignore # noqa:F841
with pytest.raises(TypeError):
out = f.reduce(i1o2, a) # type:ignore # noqa:F841
with pytest.raises(TypeError):
out = f.reduce(lambda x, y: x, a, b) # type:ignore # noqa:F841
# If we pass out= then the inference is skipped
out = f.morph(i1o2, a,
out=types.Encoding.blob) # type:ignore # noqa:F841
out = f.reduce(i1o2, a,
out=types.Encoding.blob) # type:ignore # noqa:F841
def test_parametrize() -> None:
"""Test that parametrization works."""
with Fun(MockServer(), options(distributed=False)) as db:
dat = put(b"bla bla")
dat2 = put(b"bla bla bla")
step1 = morph(capitalize, dat)
step2 = shell("cat file1 file2", inp=dict(file1=step1, file2=dat))
final = shell("cat file1 file3",
inp={
"file1": step1,
"file3": step2.stdout
})
pinp = {"input": dat}
pout = {"final.stdout": final.stdout, "step1": step1}
new_inp = {"input": dat2}
ops = _p._parametrize_subgraph(db, pinp, pout)
edges = _p._subgraph_edges(db, ops)
sorted_ops = _p._subgraph_toposort(ops, edges)
pinp2 = dict([(k, v.hash) for k, v in pinp.items()])
pout2 = dict([(k, v.hash) for k, v in pout.items()])
new_out = _p._do_parametrize(db, sorted_ops, pinp2, pout2, new_inp)
# re-run with dat2, check if the same.
step1 = morph(capitalize, dat2)
step2 = shell("cat file1 file2", inp=dict(file1=step1, file2=dat2))
final = shell("cat file1 file3",
inp={
"file1": step1,
"file3": step2.stdout
})
assert new_out["final.stdout"] == final.stdout
assert new_out["step1"] == step1
def test_data_race(nworkers: int) -> None:
"""Test a data race when execute calls are interleaved."""
with f.ManagedFun(nworkers=nworkers):
dat = f.put(b"bla bla")
step1 = f.morph(lambda x: x.decode().upper().encode(), dat)
step2 = f.shell(
"cat file1 file2; grep 'bla' file2 file1 > file3; date >> file3",
inp=dict(file1=step1, file2=dat),
out=["file2", "file3"],
)
f.execute(step1)
f.execute(step2)
f.wait_for(step1, timeout=20.0)
f.wait_for(step2, timeout=20.0)
def test_dag_execute_same_root() -> None:
"""Test execution of two dags that share the same origin."""
with Fun(MockServer(), defaults=options(distributed=False)):
dat = put(b"bla bla")
step1 = morph(lambda x: x.decode().upper().encode(), dat)
step2 = shell("cat file1 file2", inp=dict(file1=step1, file2=dat))
step2b = shell("cat file1", inp=dict(file1=step1))
execute(step2)
out = take(step2.stdout)
assert out == b"BLA BLAbla bla"
execute(step2b)
out = take(step2b.stdout)
assert out == b"BLA BLA"
def test_parametric() -> None:
"""Test that parametric DAGs work."""
with Fun(MockServer(), options(distributed=False)) as db:
dat = put(b"bla bla")
step1 = morph(capitalize, dat)
step2 = shell("cat file1 file2", inp=dict(file1=step1, file2=dat))
final = shell("cat file1 file3",
inp={
"file1": step1,
"file3": step2.stdout
})
param = _p.make_parametric(db, "param", {"input": dat},
{"output": final.stdout})
param2 = _p.Parametric.grab(db, param.hash)
assert param == param2
def test_dag_large() -> None:
"""Test that DAG building doesn't do extra work for large operations."""
with Fun(MockServer()) as db:
outputs = []
for i in range(100):
dat = put(f"bla{i}".encode())
step1 = morph(lambda x: x.decode().upper().encode(), dat)
step2 = shell(
"cat file1 file2",
inp=dict(file1=step1, file2="something"),
out=["file2"],
)
outputs += [concat(step1, step1, step2.stdout, join=b" ")]
final = concat(*outputs, join=b"\n")
_dag.build_dag(db, final.hash)
assert len(_dag._dag_dependents(db, final.hash, hash_t("root"))) == 100
def test_template_complicated() -> None:
"""Test templating with funky types."""
with Fun(MockServer()):
db, store = get_connection()
t = "wazzaa, {{ mustache }}!"
result = template(t, {"mustache": put(b"people")})
run_op(db, store, result.parent)
assert take(result) == b"wazzaa, people!"
t = "{{a}}{{b}}{{c}}"
result = template(t, dict(a=2, b="cool", c="4me"))
run_op(db, store, result.parent)
assert take(result) == b"2cool4me"
t = ""
result = template(t, dict(a=2, b="cool", c="4me"))
run_op(db, store, result.parent)
assert take(result) == b""
def test_dag_build() -> None:
"""Test simple DAG build."""
with Fun(MockServer()) as db:
dat = put(b"bla bla")
step1 = morph(lambda x: x.decode().upper().encode(), dat)
step2 = shell("cat file1 file2", inp=dict(file1=step1, file2=dat))
output = step2.stdout
_dag.build_dag(db, output.hash)
assert len(db.smembers(join(DAG_OPERATIONS, output.hash))) == 2
# test deletion
_dag.delete_all_dags(db)
assert len(db.smembers(join(DAG_OPERATIONS, output.hash))) == 0
# test new _dag
_dag.build_dag(db, step1.hash)
assert len(db.smembers(join(DAG_OPERATIONS, step1.hash))) == 1
assert len(_dag.descendants(db, step1.parent)) == 1
def test_exec_all() -> None:
"""Test execute_all."""
with Fun(MockServer(), defaults=options(distributed=False)):
results = []
def div_by(x: float) -> float:
return 10.0 / x
for i in range(10, -1, -1):
val = put(float(i))
results += [morph(div_by, val)]
with pytest.raises(UnwrapError):
take(results[0])
err = utils.execute_all(results)
print(take(results[0]))
v = take(err, strict=False)
assert isinstance(v, Error)
assert v.kind == ErrorKind.ExceptionRaised
def test_artefact_disk_distributed() -> None:
"""Test whether artefacts on disk works on different nodes."""
# funsies
import funsies as f
with tempfile.TemporaryDirectory() as td:
with f.ManagedFun(nworkers=1, data_url=f"file://{td}"):
dat = f.put(b"bla bla")
step1 = f.morph(lambda x: x.decode().upper().encode(), dat)
step2 = f.shell("cat file1 file2",
inp=dict(file1=step1, file2=dat))
step2b = f.shell("cat file1", inp=dict(file1=step1))
f.execute(step2)
f.wait_for(step2, 1.0)
out = f.take(step2.stdout)
assert out == b"BLA BLAbla bla"
f.execute(step2b)
f.wait_for(step2b, 1.0)
out = f.take(step2b.stdout)
assert out == b"BLA BLA"
def test_dag_efficient() -> None:
"""Test that DAG building doesn't do extra work."""
with Fun(MockServer()) as db:
dat = put(b"bla bla")
step1 = morph(lambda x: x.decode().upper().encode(), dat)
step2 = shell("cat file1 file2",
inp=dict(file1=step1, file2=dat),
out=["file2"])
step2b = shell("echo 'not'", inp=dict(file1=step1))
merge = shell("cat file1 file2",
inp=dict(file1=step1, file2=step2b.stdout),
out=["file2"])
_dag.build_dag(db, step2.stdout.hash)
# check that step2 only has stdout has no dependents
assert len(_dag._dag_dependents(db, step2.stdout.hash,
step2.hash)) == 0
assert len(_dag._dag_dependents(db, step2.stdout.hash,
step1.parent)) == 1
_dag.build_dag(db, merge.hash)
# check that however, the merged one has two dependents for step1
assert len(_dag._dag_dependents(db, merge.hash, step1.parent)) == 2
# Recursive application of merge sort
# split -> generates two list or raises
# recurse(x) for each values of split
# merge(left, right)
split,
lambda element: funsies_mergesort(element),
lambda lr: f.reduce(merge, lr[0], lr[1]), # type:ignore
art,
out=Encoding.json,
)
return f.reduce(
# if the subdag fails, it's because split raised. In this case, we
# just forward the arguments
ignore_error,
result,
art,
strict=False,
out=Encoding.json,
)
# run the workflow
to_be_sorted = [random.randint(0, 99) for _ in range(120)]
with f.Fun():
inp = f.put(to_be_sorted)
out = funsies_mergesort(inp)
print("output:", out.hash)
f.execute(out)
f.wait_for(out)
print(f.take(out))
def test_integration(reference: str, nworkers: int) -> None:
"""Test full integration."""
# make a temp file and copy reference database
dir = tempfile.mkdtemp()
if not make_reference:
shutil.copy(os.path.join(ref_dir, reference, "appendonly.aof"), dir)
shutil.copytree(os.path.join(ref_dir, reference, "data"),
os.path.join(dir, "data"))
shutil.copy(os.path.join(ref_dir, "redis.conf"), dir)
# data url
datadir = f"file://{os.path.join(dir, 'data')}"
# Dictionary for test data
test_data: dict[str, Any] = {}
def update_data(a: dict[int, int], b: list[int]) -> dict[int, int]:
for i in b:
a[i] = a.get(i, 0) + 1
return a
def sum_data(x: dict[int, int]) -> int:
return sum([int(k) * v for k, v in x.items()])
def make_secret(x: int) -> str:
return secrets.token_hex(x)
# Start funsie script
with ManagedFun(
nworkers=nworkers,
directory=dir,
data_url=datadir,
redis_args=["redis.conf"],
) as db:
integers = put([5, 4, 8, 9, 9, 10, 1, 3])
init_data = put({100: 9})
test_data["init_data"] = init_data
nbytes = put(4)
s1 = reduce(update_data, init_data, integers)
num = morph(sum_data, s1)
date = shell("date").stdout
test_data["date"] = date
rand = morph(make_secret, nbytes)
s4 = template(
"date:{{date}}\n" + "some random bytes:{{random}}\n" +
"a number: {{num}}\n" + "a string: {{string}}\n",
{
"date": date,
"random": rand,
"num": num,
"string": "wazza"
},
name="a template",
)
test_data["s4"] = s4
execute(s4)
wait_for(s4, 5)
# check that the db doesn't itself include data
for k in db.keys():
assert b"data" not in k
if make_reference:
folder = os.path.join(ref_dir, reference)
os.makedirs(folder, exist_ok=True)
for name, artefact in test_data.items():
with open(os.path.join(folder, name), "wb") as f:
execute(artefact)
wait_for(artefact, 10.0)
out = take(artefact)
data2 = _serdes.encode(artefact.kind, out)
assert isinstance(data2, bytes)
f.write(data2)
shutil.copy(
os.path.join(dir, "appendonly.aof"),
os.path.join(folder, "appendonly.aof"),
)
shutil.copytree(
os.path.join(dir, "data"),
os.path.join(folder, "data"),
)
else:
# Test against reference dbs
for name, artefact in test_data.items():
execute(artefact)
wait_for(artefact, 10.0)
with open(os.path.join(ref_dir, reference, name), "rb") as f:
data = f.read()
out = take(artefact)
data_ref = _serdes.encode(artefact.kind, out)
assert isinstance(data_ref, bytes)
assert data == data_ref
# delete tempdir
shutil.rmtree(dir)
return {"structure": as_str, "energy": energy}
def sort_by_energy(*elements: dict[str, Any]) -> list[dict[str, Any]]:
out = [el for el in elements]
out = sorted(out, key=lambda x: x["energy"]) # type:ignore
return out
out = []
for s in structures:
out += [f.morph(to_dict, s, out=Encoding.json)] # elements to dicts
return f.reduce(sort_by_energy, *out) # transform to a sorted list
with f.Fun():
# put smiles in db
smiles = f.put(b"C(O)CCCC(O)")
# Generate 3d conformers with openbabel
gen3d = f.shell(
"obabel input.smi --gen3d --ff mmff94 --minimize -O struct.mol",
inp={"input.smi": smiles},
out=["struct.mol"],
)
# abort if molecule is empty
struct = not_empty(gen3d.out["struct.mol"])
# Generate conformers.
confab = f.shell(
"obabel input.mol -O conformers.xyz --confab --verbose",
inp={"input.mol": struct},
out=["conformers.xyz"],
def test_nested_map_reduce(nworkers: int) -> None:
"""Test nested map-reduce."""
# ------------------------------------------------------------------------
# Inner
def sum_inputs(*inp: int) -> int:
out = 0
for el in inp:
out += el
return out
def split_inner(inp: str) -> list[int]:
a = inp.split(" ")
return [int(el) for el in a]
def apply_inner(inp: Artefact) -> Artefact:
return funsies.reduce(sum_inputs, inp, 1)
def combine_inner(inp: Sequence[Artefact]) -> Artefact:
return funsies.reduce(sum_inputs, *inp)
# ------------------------------------------------------------------------
# outer
def split_outer(inp: list[str], fac: int) -> list[str]:
out = [x + f" {fac}" for x in inp]
return out
def apply_outer(inp: Artefact) -> Artefact:
outputs = dynamic.sac(
split_inner,
apply_inner,
combine_inner,
inp,
out=Encoding.json,
)
return outputs
def combine_outer(inp: Sequence[Artefact]) -> Artefact:
out = [
funsies.morph(lambda y: f"{y}".encode(), x, out=Encoding.blob)
for x in inp
]
return funsies.utils.concat(*out, join=b",,")
with funsies.ManagedFun(nworkers=nworkers):
num1 = funsies.put("1 2 3 4 5")
outputs = dynamic.sac(split_inner,
apply_inner,
combine_inner,
num1,
out=Encoding.json)
funsies.execute(outputs)
funsies.wait_for(outputs, timeout=30.0)
assert funsies.take(outputs) == 20
# Now try the nested one
num = funsies.put(["1 2", "3 4 7", "10 12", "1"])
factor = funsies.put(-2)
# split -> 1 2 -2|3 4 7 -2|10 12 -2| 1 -2
# apply -> split2 -> 1, 2,-2 | 3,4,7,-2|10,12,-2|1,-2
# apply2 -> 2, 3,-1 | 4,5,8,-1|11,13,-1|2,-1
# combine2 -> 4|16|23|1
# combine -> 4,,16,,23,,1
ans = b"4,,16,,23,,1"
outputs = dynamic.sac(
split_outer,
apply_outer,
combine_outer,
num,
factor,
out=Encoding.blob,
)
funsies.execute(outputs)
funsies.wait_for(outputs, timeout=30.0)
assert funsies.take(outputs) == ans
