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Update Modin join benchmark to current state #162

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Update Modin join benchmark to current state #162

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8fcc89c
Updated Modin join benchmark to current state
gshimansky Oct 13, 2020
5a2df38
Replaced datatable with Modin's parallel read_csv
gshimansky Oct 13, 2020
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169 changes: 144 additions & 25 deletions modin/join-modin.py
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Original file line number Diff line number Diff line change
@@ -1,69 +1,188 @@
#!/usr/bin/env python

print("# join-modin.py")
print("# join-modin.py", flush=True)

# Uncomment following two lines if your /tmp is not large enough to
# hold all data and specify an alternative place where to hold plasma storage.
# import ray
# ray.init(_plasma_directory="/path/to/large/free/filesystem")

import os
import gc
import timeit
import modin
import modin.pandas as pd

exec(open("./helpers.py").read())

src_x = os.environ['SRC_X_LOCAL']
src_y = os.environ['SRC_Y_LOCAL']
exec(open("./_helpers/helpers.py").read())

ver = "" #pd.__version__
ver = modin.__version__
git = ""
task = "join"
question = "inner join"
l = [os.path.basename(src_x), os.path.basename(src_y)]
data_name = '-'.join(l)
solution = "modin"
fun = "merge"
cache = "TRUE"
on_disk = "FALSE"

print("loading datasets...")
data_name = os.environ['SRC_JN_LOCAL']
src_jn_x = os.path.join("data", data_name + ".csv")
y_data_name = join_to_tbls(data_name)
src_jn_y = [os.path.join("data", y_data_name[0]+".csv"), os.path.join("data", y_data_name[1]+".csv"), os.path.join("data", y_data_name[2]+".csv")]
if len(src_jn_y) != 3:
raise Exception("Something went wrong in preparing files used for join")

x = pd.read_csv(os.path.basename(src_x))
y = pd.read_csv(os.path.basename(src_y))
print("loading datasets " + data_name + ", " + y_data_name[0] + ", " + y_data_name[1] + ", " + y_data_name[2], flush=True)

x = pd.read_csv(src_jn_x)
x['id4'] = x['id4'].astype('category')
x['id5'] = x['id5'].astype('category')
x['id6'] = x['id6'].astype('category')
small = pd.read_csv(src_jn_y[0])
small['id4'] = small['id4'].astype('category')
medium = pd.read_csv(src_jn_y[1])
medium['id4'] = medium['id4'].astype('category')
medium['id5'] = medium['id5'].astype('category')
big = pd.read_csv(src_jn_y[2])
big['id4'] = big['id4'].astype('category')
big['id5'] = big['id5'].astype('category')
big['id6'] = big['id6'].astype('category')
print(len(x.index), flush=True)
print(len(small.index), flush=True)
print(len(medium.index), flush=True)
print(len(big.index), flush=True)

task_init = timeit.default_timer()
print("joining...")

# NotImplementedError: To contribute to Pandas on Ray, please visit github.com/modin-project/modin
question = "small inner on int" # q1
gc.collect()
t_start = timeit.default_timer()
ans = x.merge(small, on='id1')
print(ans.shape, flush=True)
t = timeit.default_timer() - t_start
m = memory_usage()
t_start = timeit.default_timer()
chk = [ans['v1'].sum(), ans['v2'].sum()]
chkt = timeit.default_timer() - t_start
write_log(task=task, data=data_name, in_rows=x.shape[0], question=question, out_rows=ans.shape[0], out_cols=ans.shape[1], solution=solution, version=ver, git=git, fun=fun, run=1, time_sec=t, mem_gb=m, cache=cache, chk=make_chk(chk), chk_time_sec=chkt, on_disk=on_disk)
del ans
gc.collect()
t_start = timeit.default_timer()
ans = x.merge(y, how='inner', on='KEY')
print(ans.shape)
ans = x.merge(small, on='id1')
print(ans.shape, flush=True)
t = timeit.default_timer() - t_start
m = memory_usage()
t_start = timeit.default_timer()
chk = [ans['X2'].sum(), ans['Y2'].sum()]
chk = [ans['v1'].sum(), ans['v2'].sum()]
chkt = timeit.default_timer() - t_start
write_log(task=task, data=data_name, in_rows=x.shape[0], question=question, out_rows=ans.shape[0], out_cols=ans.shape[1], solution=solution, version=ver, git=git, fun=fun, run=1, time_sec=t, mem_gb=m, cache=cache, chk=make_chk(chk), chk_time_sec=chkt)
write_log(task=task, data=data_name, in_rows=x.shape[0], question=question, out_rows=ans.shape[0], out_cols=ans.shape[1], solution=solution, version=ver, git=git, fun=fun, run=2, time_sec=t, mem_gb=m, cache=cache, chk=make_chk(chk), chk_time_sec=chkt, on_disk=on_disk)
print(ans.head(3), flush=True)
print(ans.tail(3), flush=True)
del ans

question = "medium inner on int" # q2
gc.collect()
t_start = timeit.default_timer()
ans = x.merge(medium, on='id2')
print(ans.shape, flush=True)
t = timeit.default_timer() - t_start
m = memory_usage()
t_start = timeit.default_timer()
chk = [ans['v1'].sum(), ans['v2'].sum()]
chkt = timeit.default_timer() - t_start
write_log(task=task, data=data_name, in_rows=x.shape[0], question=question, out_rows=ans.shape[0], out_cols=ans.shape[1], solution=solution, version=ver, git=git, fun=fun, run=1, time_sec=t, mem_gb=m, cache=cache, chk=make_chk(chk), chk_time_sec=chkt, on_disk=on_disk)
del ans
gc.collect()
t_start = timeit.default_timer()
ans = x.merge(y, how='inner', on='KEY')
print(ans.shape)
ans = x.merge(medium, on='id2')
print(ans.shape, flush=True)
t = timeit.default_timer() - t_start
m = memory_usage()
t_start = timeit.default_timer()
chk = [ans['X2'].sum(), ans['Y2'].sum()]
chk = [ans['v1'].sum(), ans['v2'].sum()]
chkt = timeit.default_timer() - t_start
write_log(task=task, data=data_name, in_rows=x.shape[0], question=question, out_rows=ans.shape[0], out_cols=ans.shape[1], solution=solution, version=ver, git=git, fun=fun, run=2, time_sec=t, mem_gb=m, cache=cache, chk=make_chk(chk), chk_time_sec=chkt)
write_log(task=task, data=data_name, in_rows=x.shape[0], question=question, out_rows=ans.shape[0], out_cols=ans.shape[1], solution=solution, version=ver, git=git, fun=fun, run=2, time_sec=t, mem_gb=m, cache=cache, chk=make_chk(chk), chk_time_sec=chkt, on_disk=on_disk)
print(ans.head(3), flush=True)
print(ans.tail(3), flush=True)
del ans

question = "medium outer on int" # q3
gc.collect()
t_start = timeit.default_timer()
ans = x.merge(medium, how='left', on='id2')
print(ans.shape, flush=True)
t = timeit.default_timer() - t_start
m = memory_usage()
t_start = timeit.default_timer()
chk = [ans['v1'].sum(), ans['v2'].sum()]
chkt = timeit.default_timer() - t_start
write_log(task=task, data=data_name, in_rows=x.shape[0], question=question, out_rows=ans.shape[0], out_cols=ans.shape[1], solution=solution, version=ver, git=git, fun=fun, run=1, time_sec=t, mem_gb=m, cache=cache, chk=make_chk(chk), chk_time_sec=chkt, on_disk=on_disk)
del ans
gc.collect()
t_start = timeit.default_timer()
ans = x.merge(y, how='inner', on='KEY')
print(ans.shape)
ans = x.merge(medium, how='left', on='id2')
print(ans.shape, flush=True)
t = timeit.default_timer() - t_start
m = memory_usage()
t_start = timeit.default_timer()
chk = [ans['X2'].sum(), ans['Y2'].sum()]
chk = [ans['v1'].sum(), ans['v2'].sum()]
chkt = timeit.default_timer() - t_start
write_log(task=task, data=data_name, in_rows=x.shape[0], question=question, out_rows=ans.shape[0], out_cols=ans.shape[1], solution=solution, version=ver, git=git, fun=fun, run=3, time_sec=t, mem_gb=m, cache=cache, chk=make_chk(chk), chk_time_sec=chkt)
write_log(task=task, data=data_name, in_rows=x.shape[0], question=question, out_rows=ans.shape[0], out_cols=ans.shape[1], solution=solution, version=ver, git=git, fun=fun, run=2, time_sec=t, mem_gb=m, cache=cache, chk=make_chk(chk), chk_time_sec=chkt, on_disk=on_disk)
print(ans.head(3), flush=True)
print(ans.tail(3), flush=True)
del ans

question = "medium inner on factor" # q4
gc.collect()
t_start = timeit.default_timer()
ans = x.merge(medium, on='id5')
print(ans.shape, flush=True)
t = timeit.default_timer() - t_start
m = memory_usage()
t_start = timeit.default_timer()
chk = [ans['v1'].sum(), ans['v2'].sum()]
chkt = timeit.default_timer() - t_start
write_log(task=task, data=data_name, in_rows=x.shape[0], question=question, out_rows=ans.shape[0], out_cols=ans.shape[1], solution=solution, version=ver, git=git, fun=fun, run=1, time_sec=t, mem_gb=m, cache=cache, chk=make_chk(chk), chk_time_sec=chkt, on_disk=on_disk)
del ans
gc.collect()
t_start = timeit.default_timer()
ans = x.merge(medium, on='id5')
print(ans.shape, flush=True)
t = timeit.default_timer() - t_start
m = memory_usage()
t_start = timeit.default_timer()
chk = [ans['v1'].sum(), ans['v2'].sum()]
chkt = timeit.default_timer() - t_start
write_log(task=task, data=data_name, in_rows=x.shape[0], question=question, out_rows=ans.shape[0], out_cols=ans.shape[1], solution=solution, version=ver, git=git, fun=fun, run=2, time_sec=t, mem_gb=m, cache=cache, chk=make_chk(chk), chk_time_sec=chkt, on_disk=on_disk)
print(ans.head(3), flush=True)
print(ans.tail(3), flush=True)
del ans

question = "big inner on int" # q5
gc.collect()
t_start = timeit.default_timer()
ans = x.merge(big, on='id3')
print(ans.shape, flush=True)
t = timeit.default_timer() - t_start
m = memory_usage()
t_start = timeit.default_timer()
chk = [ans['v1'].sum(), ans['v2'].sum()]
chkt = timeit.default_timer() - t_start
write_log(task=task, data=data_name, in_rows=x.shape[0], question=question, out_rows=ans.shape[0], out_cols=ans.shape[1], solution=solution, version=ver, git=git, fun=fun, run=1, time_sec=t, mem_gb=m, cache=cache, chk=make_chk(chk), chk_time_sec=chkt, on_disk=on_disk)
del ans
gc.collect()
t_start = timeit.default_timer()
ans = x.merge(big, on='id3')
print(ans.shape, flush=True)
t = timeit.default_timer() - t_start
m = memory_usage()
t_start = timeit.default_timer()
chk = [ans['v1'].sum(), ans['v2'].sum()]
chkt = timeit.default_timer() - t_start
write_log(task=task, data=data_name, in_rows=x.shape[0], question=question, out_rows=ans.shape[0], out_cols=ans.shape[1], solution=solution, version=ver, git=git, fun=fun, run=2, time_sec=t, mem_gb=m, cache=cache, chk=make_chk(chk), chk_time_sec=chkt, on_disk=on_disk)
print(ans.head(3), flush=True)
print(ans.tail(3), flush=True)
del ans

print("joining finished, took %0.fs" % (timeit.default_timer()-task_init), flush=True)

exit(0)