Parallel Computing Problem
$begingroup$
The program runs out quickly(30 seconds) if I don't do parallel.But when I replace Table with ParallelTable,the Program will keep running,no output results.
My code
https://privatebin.net/?d1b1eeff435720eb#XWLsW2gY2EfTFnX+eQCXtCVBPN4budq3wQtVWaNwI4g=
parallelization
$endgroup$
add a comment |
$begingroup$
The program runs out quickly(30 seconds) if I don't do parallel.But when I replace Table with ParallelTable,the Program will keep running,no output results.
My code
https://privatebin.net/?d1b1eeff435720eb#XWLsW2gY2EfTFnX+eQCXtCVBPN4budq3wQtVWaNwI4g=
parallelization
$endgroup$
add a comment |
$begingroup$
The program runs out quickly(30 seconds) if I don't do parallel.But when I replace Table with ParallelTable,the Program will keep running,no output results.
My code
https://privatebin.net/?d1b1eeff435720eb#XWLsW2gY2EfTFnX+eQCXtCVBPN4budq3wQtVWaNwI4g=
parallelization
$endgroup$
The program runs out quickly(30 seconds) if I don't do parallel.But when I replace Table with ParallelTable,the Program will keep running,no output results.
My code
https://privatebin.net/?d1b1eeff435720eb#XWLsW2gY2EfTFnX+eQCXtCVBPN4budq3wQtVWaNwI4g=
parallelization
parallelization
asked 23 hours ago
guangyaguangya
192
192
add a comment |
add a comment |
2 Answers
2
active
oldest
votes
$begingroup$
Replace your t'
with anything legal, e.g. tp
will solve the problem. Assigning t'
is actually doing Derivative[1][t]=1
, which is not advisable.
The reason of this strange behavior is that SubValues
of derivative is not automatically distributed to kernels. Therefore you get 1'==0.6
for the main kernel, and 1'==0&
for the sub kernels, and the value of this constant becomes a function which fails the later calculation.
After making such replacement, and deleting the duplicated ParallelTable
in your F
definition, you can get the expected result:
ParallelTable[F[0, 0, k], {k, 1, 10}]; // AbsoluteTiming
{4.8858, Null}
Table[F[0, 0, k], {k, 1, 10}]; // AbsoluteTiming
{8.10208, Null}
$endgroup$
add a comment |
$begingroup$
Two things will provide for immense speed-up with parallel functions like ParallelTable:
Launch your kernels ahead of the initial parallel call with:
LaunchKernels["Number of Kernels, max available if left blank"]
Ensure each kernel has prior knowledge of the functions with:
DistributeDefinitions["context`"]
You should also see some increase in speed, due to a decrease in CPU need, if you were to provide assumptions for all of your defined variable functions. What I mean by this is something like:
f[x_?NumericQ,n_?IntegerQ]
Wherein x is always a numerical input and n is an integer.
I hope this helps you understand how to run parallel code better, it's a constant learning process, as we will continue to make more and more efficient ways that leave the previous best methods in the dust, and we will have to keep up :D
So, after discussing with @happy fish, I was able to test the code, and got this output, after replacing the second ParallelTable with Table:
{-0.463029, -0.463029, -0.463029, -0.463029, -0.463029, -0.463029, -0.463029, -0.463029, -0.463029, -0.463029}
There is something amiss with this, and I apologize that I cannot immediately parse what the issue is. I will take some time to check later and see if I can provide additional input, after satisfying my own duties prior ;) As for the rest:
The issue with using two ParallelTable calls is why you would not receive output for your addition of Parallel to the second Table, again, barring my lack of understanding. Additionally, you would assuredly benefit from a functional method of implementing this code. There are numerous inline reassignments which can likely be shortened, and I anticipate that is another issue imparting itself upon your long-running/non-functional parallel implementation.
$endgroup$
2
$begingroup$
Thanks for your answer, but I don't think it addresses the problem OP encountered.LaunchKernels
andDistributeDefinitions
are done automatically, there is no need of explicitly writing down. There won't be an "immense speed-up with parallel functions" in either case. Testing the parameter can avoid unnecessary symbolic computations, but won't help here since everything is numerical.
$endgroup$
– happy fish
20 hours ago
$begingroup$
@happyfish I'm not sure that is entirely accurate, unfortunately. Though it would be nice! My understanding is as follows: When you perform the first call on a parallel function, you will spend more time than subsequent calls, this being due to the need to launch all kernels. Additionally there is some time taken to distribute definitions, if this is indeed done automatically. I am curious if there is a part of the documentation you can point to for this? I am unable to have ParallelTable actually use all kernels unless you have done as I stated, otherwise they take about a second longer.
$endgroup$
– CA Trevillian
20 hours ago
1
$begingroup$
I agree with your general ideas on parallel evaluations. I am just saying that these theories don't localize for this particular problem. If you experiment on the problem you will find immediately that the bottleneck is not on where you focus: it's just distributing 10 difficult tasks to 6(by default) kernels, the overhead of subsequent calls and copying definitions is negligible. For the automatically distribute definition part, please refer to the first example in Options->DistributedContexts and mathematica.stackexchange.com/questions/39178/…
$endgroup$
– happy fish
20 hours ago
1
$begingroup$
Condensed matter physics.Bott index,is a kind of Chern number@CATrevillian
$endgroup$
– guangya
16 hours ago
1
$begingroup$
we use it to judge whether a substance is trivial topology or not@CATrevillian. Nobel Prize in 2016
$endgroup$
– guangya
16 hours ago
|
show 12 more comments
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2 Answers
2
active
oldest
votes
2 Answers
2
active
oldest
votes
active
oldest
votes
active
oldest
votes
$begingroup$
Replace your t'
with anything legal, e.g. tp
will solve the problem. Assigning t'
is actually doing Derivative[1][t]=1
, which is not advisable.
The reason of this strange behavior is that SubValues
of derivative is not automatically distributed to kernels. Therefore you get 1'==0.6
for the main kernel, and 1'==0&
for the sub kernels, and the value of this constant becomes a function which fails the later calculation.
After making such replacement, and deleting the duplicated ParallelTable
in your F
definition, you can get the expected result:
ParallelTable[F[0, 0, k], {k, 1, 10}]; // AbsoluteTiming
{4.8858, Null}
Table[F[0, 0, k], {k, 1, 10}]; // AbsoluteTiming
{8.10208, Null}
$endgroup$
add a comment |
$begingroup$
Replace your t'
with anything legal, e.g. tp
will solve the problem. Assigning t'
is actually doing Derivative[1][t]=1
, which is not advisable.
The reason of this strange behavior is that SubValues
of derivative is not automatically distributed to kernels. Therefore you get 1'==0.6
for the main kernel, and 1'==0&
for the sub kernels, and the value of this constant becomes a function which fails the later calculation.
After making such replacement, and deleting the duplicated ParallelTable
in your F
definition, you can get the expected result:
ParallelTable[F[0, 0, k], {k, 1, 10}]; // AbsoluteTiming
{4.8858, Null}
Table[F[0, 0, k], {k, 1, 10}]; // AbsoluteTiming
{8.10208, Null}
$endgroup$
add a comment |
$begingroup$
Replace your t'
with anything legal, e.g. tp
will solve the problem. Assigning t'
is actually doing Derivative[1][t]=1
, which is not advisable.
The reason of this strange behavior is that SubValues
of derivative is not automatically distributed to kernels. Therefore you get 1'==0.6
for the main kernel, and 1'==0&
for the sub kernels, and the value of this constant becomes a function which fails the later calculation.
After making such replacement, and deleting the duplicated ParallelTable
in your F
definition, you can get the expected result:
ParallelTable[F[0, 0, k], {k, 1, 10}]; // AbsoluteTiming
{4.8858, Null}
Table[F[0, 0, k], {k, 1, 10}]; // AbsoluteTiming
{8.10208, Null}
$endgroup$
Replace your t'
with anything legal, e.g. tp
will solve the problem. Assigning t'
is actually doing Derivative[1][t]=1
, which is not advisable.
The reason of this strange behavior is that SubValues
of derivative is not automatically distributed to kernels. Therefore you get 1'==0.6
for the main kernel, and 1'==0&
for the sub kernels, and the value of this constant becomes a function which fails the later calculation.
After making such replacement, and deleting the duplicated ParallelTable
in your F
definition, you can get the expected result:
ParallelTable[F[0, 0, k], {k, 1, 10}]; // AbsoluteTiming
{4.8858, Null}
Table[F[0, 0, k], {k, 1, 10}]; // AbsoluteTiming
{8.10208, Null}
edited 18 hours ago
answered 18 hours ago
happy fishhappy fish
5,57121546
5,57121546
add a comment |
add a comment |
$begingroup$
Two things will provide for immense speed-up with parallel functions like ParallelTable:
Launch your kernels ahead of the initial parallel call with:
LaunchKernels["Number of Kernels, max available if left blank"]
Ensure each kernel has prior knowledge of the functions with:
DistributeDefinitions["context`"]
You should also see some increase in speed, due to a decrease in CPU need, if you were to provide assumptions for all of your defined variable functions. What I mean by this is something like:
f[x_?NumericQ,n_?IntegerQ]
Wherein x is always a numerical input and n is an integer.
I hope this helps you understand how to run parallel code better, it's a constant learning process, as we will continue to make more and more efficient ways that leave the previous best methods in the dust, and we will have to keep up :D
So, after discussing with @happy fish, I was able to test the code, and got this output, after replacing the second ParallelTable with Table:
{-0.463029, -0.463029, -0.463029, -0.463029, -0.463029, -0.463029, -0.463029, -0.463029, -0.463029, -0.463029}
There is something amiss with this, and I apologize that I cannot immediately parse what the issue is. I will take some time to check later and see if I can provide additional input, after satisfying my own duties prior ;) As for the rest:
The issue with using two ParallelTable calls is why you would not receive output for your addition of Parallel to the second Table, again, barring my lack of understanding. Additionally, you would assuredly benefit from a functional method of implementing this code. There are numerous inline reassignments which can likely be shortened, and I anticipate that is another issue imparting itself upon your long-running/non-functional parallel implementation.
$endgroup$
2
$begingroup$
Thanks for your answer, but I don't think it addresses the problem OP encountered.LaunchKernels
andDistributeDefinitions
are done automatically, there is no need of explicitly writing down. There won't be an "immense speed-up with parallel functions" in either case. Testing the parameter can avoid unnecessary symbolic computations, but won't help here since everything is numerical.
$endgroup$
– happy fish
20 hours ago
$begingroup$
@happyfish I'm not sure that is entirely accurate, unfortunately. Though it would be nice! My understanding is as follows: When you perform the first call on a parallel function, you will spend more time than subsequent calls, this being due to the need to launch all kernels. Additionally there is some time taken to distribute definitions, if this is indeed done automatically. I am curious if there is a part of the documentation you can point to for this? I am unable to have ParallelTable actually use all kernels unless you have done as I stated, otherwise they take about a second longer.
$endgroup$
– CA Trevillian
20 hours ago
1
$begingroup$
I agree with your general ideas on parallel evaluations. I am just saying that these theories don't localize for this particular problem. If you experiment on the problem you will find immediately that the bottleneck is not on where you focus: it's just distributing 10 difficult tasks to 6(by default) kernels, the overhead of subsequent calls and copying definitions is negligible. For the automatically distribute definition part, please refer to the first example in Options->DistributedContexts and mathematica.stackexchange.com/questions/39178/…
$endgroup$
– happy fish
20 hours ago
1
$begingroup$
Condensed matter physics.Bott index,is a kind of Chern number@CATrevillian
$endgroup$
– guangya
16 hours ago
1
$begingroup$
we use it to judge whether a substance is trivial topology or not@CATrevillian. Nobel Prize in 2016
$endgroup$
– guangya
16 hours ago
|
show 12 more comments
$begingroup$
Two things will provide for immense speed-up with parallel functions like ParallelTable:
Launch your kernels ahead of the initial parallel call with:
LaunchKernels["Number of Kernels, max available if left blank"]
Ensure each kernel has prior knowledge of the functions with:
DistributeDefinitions["context`"]
You should also see some increase in speed, due to a decrease in CPU need, if you were to provide assumptions for all of your defined variable functions. What I mean by this is something like:
f[x_?NumericQ,n_?IntegerQ]
Wherein x is always a numerical input and n is an integer.
I hope this helps you understand how to run parallel code better, it's a constant learning process, as we will continue to make more and more efficient ways that leave the previous best methods in the dust, and we will have to keep up :D
So, after discussing with @happy fish, I was able to test the code, and got this output, after replacing the second ParallelTable with Table:
{-0.463029, -0.463029, -0.463029, -0.463029, -0.463029, -0.463029, -0.463029, -0.463029, -0.463029, -0.463029}
There is something amiss with this, and I apologize that I cannot immediately parse what the issue is. I will take some time to check later and see if I can provide additional input, after satisfying my own duties prior ;) As for the rest:
The issue with using two ParallelTable calls is why you would not receive output for your addition of Parallel to the second Table, again, barring my lack of understanding. Additionally, you would assuredly benefit from a functional method of implementing this code. There are numerous inline reassignments which can likely be shortened, and I anticipate that is another issue imparting itself upon your long-running/non-functional parallel implementation.
$endgroup$
2
$begingroup$
Thanks for your answer, but I don't think it addresses the problem OP encountered.LaunchKernels
andDistributeDefinitions
are done automatically, there is no need of explicitly writing down. There won't be an "immense speed-up with parallel functions" in either case. Testing the parameter can avoid unnecessary symbolic computations, but won't help here since everything is numerical.
$endgroup$
– happy fish
20 hours ago
$begingroup$
@happyfish I'm not sure that is entirely accurate, unfortunately. Though it would be nice! My understanding is as follows: When you perform the first call on a parallel function, you will spend more time than subsequent calls, this being due to the need to launch all kernels. Additionally there is some time taken to distribute definitions, if this is indeed done automatically. I am curious if there is a part of the documentation you can point to for this? I am unable to have ParallelTable actually use all kernels unless you have done as I stated, otherwise they take about a second longer.
$endgroup$
– CA Trevillian
20 hours ago
1
$begingroup$
I agree with your general ideas on parallel evaluations. I am just saying that these theories don't localize for this particular problem. If you experiment on the problem you will find immediately that the bottleneck is not on where you focus: it's just distributing 10 difficult tasks to 6(by default) kernels, the overhead of subsequent calls and copying definitions is negligible. For the automatically distribute definition part, please refer to the first example in Options->DistributedContexts and mathematica.stackexchange.com/questions/39178/…
$endgroup$
– happy fish
20 hours ago
1
$begingroup$
Condensed matter physics.Bott index,is a kind of Chern number@CATrevillian
$endgroup$
– guangya
16 hours ago
1
$begingroup$
we use it to judge whether a substance is trivial topology or not@CATrevillian. Nobel Prize in 2016
$endgroup$
– guangya
16 hours ago
|
show 12 more comments
$begingroup$
Two things will provide for immense speed-up with parallel functions like ParallelTable:
Launch your kernels ahead of the initial parallel call with:
LaunchKernels["Number of Kernels, max available if left blank"]
Ensure each kernel has prior knowledge of the functions with:
DistributeDefinitions["context`"]
You should also see some increase in speed, due to a decrease in CPU need, if you were to provide assumptions for all of your defined variable functions. What I mean by this is something like:
f[x_?NumericQ,n_?IntegerQ]
Wherein x is always a numerical input and n is an integer.
I hope this helps you understand how to run parallel code better, it's a constant learning process, as we will continue to make more and more efficient ways that leave the previous best methods in the dust, and we will have to keep up :D
So, after discussing with @happy fish, I was able to test the code, and got this output, after replacing the second ParallelTable with Table:
{-0.463029, -0.463029, -0.463029, -0.463029, -0.463029, -0.463029, -0.463029, -0.463029, -0.463029, -0.463029}
There is something amiss with this, and I apologize that I cannot immediately parse what the issue is. I will take some time to check later and see if I can provide additional input, after satisfying my own duties prior ;) As for the rest:
The issue with using two ParallelTable calls is why you would not receive output for your addition of Parallel to the second Table, again, barring my lack of understanding. Additionally, you would assuredly benefit from a functional method of implementing this code. There are numerous inline reassignments which can likely be shortened, and I anticipate that is another issue imparting itself upon your long-running/non-functional parallel implementation.
$endgroup$
Two things will provide for immense speed-up with parallel functions like ParallelTable:
Launch your kernels ahead of the initial parallel call with:
LaunchKernels["Number of Kernels, max available if left blank"]
Ensure each kernel has prior knowledge of the functions with:
DistributeDefinitions["context`"]
You should also see some increase in speed, due to a decrease in CPU need, if you were to provide assumptions for all of your defined variable functions. What I mean by this is something like:
f[x_?NumericQ,n_?IntegerQ]
Wherein x is always a numerical input and n is an integer.
I hope this helps you understand how to run parallel code better, it's a constant learning process, as we will continue to make more and more efficient ways that leave the previous best methods in the dust, and we will have to keep up :D
So, after discussing with @happy fish, I was able to test the code, and got this output, after replacing the second ParallelTable with Table:
{-0.463029, -0.463029, -0.463029, -0.463029, -0.463029, -0.463029, -0.463029, -0.463029, -0.463029, -0.463029}
There is something amiss with this, and I apologize that I cannot immediately parse what the issue is. I will take some time to check later and see if I can provide additional input, after satisfying my own duties prior ;) As for the rest:
The issue with using two ParallelTable calls is why you would not receive output for your addition of Parallel to the second Table, again, barring my lack of understanding. Additionally, you would assuredly benefit from a functional method of implementing this code. There are numerous inline reassignments which can likely be shortened, and I anticipate that is another issue imparting itself upon your long-running/non-functional parallel implementation.
edited 19 hours ago
answered 21 hours ago
CA TrevillianCA Trevillian
538
538
2
$begingroup$
Thanks for your answer, but I don't think it addresses the problem OP encountered.LaunchKernels
andDistributeDefinitions
are done automatically, there is no need of explicitly writing down. There won't be an "immense speed-up with parallel functions" in either case. Testing the parameter can avoid unnecessary symbolic computations, but won't help here since everything is numerical.
$endgroup$
– happy fish
20 hours ago
$begingroup$
@happyfish I'm not sure that is entirely accurate, unfortunately. Though it would be nice! My understanding is as follows: When you perform the first call on a parallel function, you will spend more time than subsequent calls, this being due to the need to launch all kernels. Additionally there is some time taken to distribute definitions, if this is indeed done automatically. I am curious if there is a part of the documentation you can point to for this? I am unable to have ParallelTable actually use all kernels unless you have done as I stated, otherwise they take about a second longer.
$endgroup$
– CA Trevillian
20 hours ago
1
$begingroup$
I agree with your general ideas on parallel evaluations. I am just saying that these theories don't localize for this particular problem. If you experiment on the problem you will find immediately that the bottleneck is not on where you focus: it's just distributing 10 difficult tasks to 6(by default) kernels, the overhead of subsequent calls and copying definitions is negligible. For the automatically distribute definition part, please refer to the first example in Options->DistributedContexts and mathematica.stackexchange.com/questions/39178/…
$endgroup$
– happy fish
20 hours ago
1
$begingroup$
Condensed matter physics.Bott index,is a kind of Chern number@CATrevillian
$endgroup$
– guangya
16 hours ago
1
$begingroup$
we use it to judge whether a substance is trivial topology or not@CATrevillian. Nobel Prize in 2016
$endgroup$
– guangya
16 hours ago
|
show 12 more comments
2
$begingroup$
Thanks for your answer, but I don't think it addresses the problem OP encountered.LaunchKernels
andDistributeDefinitions
are done automatically, there is no need of explicitly writing down. There won't be an "immense speed-up with parallel functions" in either case. Testing the parameter can avoid unnecessary symbolic computations, but won't help here since everything is numerical.
$endgroup$
– happy fish
20 hours ago
$begingroup$
@happyfish I'm not sure that is entirely accurate, unfortunately. Though it would be nice! My understanding is as follows: When you perform the first call on a parallel function, you will spend more time than subsequent calls, this being due to the need to launch all kernels. Additionally there is some time taken to distribute definitions, if this is indeed done automatically. I am curious if there is a part of the documentation you can point to for this? I am unable to have ParallelTable actually use all kernels unless you have done as I stated, otherwise they take about a second longer.
$endgroup$
– CA Trevillian
20 hours ago
1
$begingroup$
I agree with your general ideas on parallel evaluations. I am just saying that these theories don't localize for this particular problem. If you experiment on the problem you will find immediately that the bottleneck is not on where you focus: it's just distributing 10 difficult tasks to 6(by default) kernels, the overhead of subsequent calls and copying definitions is negligible. For the automatically distribute definition part, please refer to the first example in Options->DistributedContexts and mathematica.stackexchange.com/questions/39178/…
$endgroup$
– happy fish
20 hours ago
1
$begingroup$
Condensed matter physics.Bott index,is a kind of Chern number@CATrevillian
$endgroup$
– guangya
16 hours ago
1
$begingroup$
we use it to judge whether a substance is trivial topology or not@CATrevillian. Nobel Prize in 2016
$endgroup$
– guangya
16 hours ago
2
2
$begingroup$
Thanks for your answer, but I don't think it addresses the problem OP encountered.
LaunchKernels
and DistributeDefinitions
are done automatically, there is no need of explicitly writing down. There won't be an "immense speed-up with parallel functions" in either case. Testing the parameter can avoid unnecessary symbolic computations, but won't help here since everything is numerical.$endgroup$
– happy fish
20 hours ago
$begingroup$
Thanks for your answer, but I don't think it addresses the problem OP encountered.
LaunchKernels
and DistributeDefinitions
are done automatically, there is no need of explicitly writing down. There won't be an "immense speed-up with parallel functions" in either case. Testing the parameter can avoid unnecessary symbolic computations, but won't help here since everything is numerical.$endgroup$
– happy fish
20 hours ago
$begingroup$
@happyfish I'm not sure that is entirely accurate, unfortunately. Though it would be nice! My understanding is as follows: When you perform the first call on a parallel function, you will spend more time than subsequent calls, this being due to the need to launch all kernels. Additionally there is some time taken to distribute definitions, if this is indeed done automatically. I am curious if there is a part of the documentation you can point to for this? I am unable to have ParallelTable actually use all kernels unless you have done as I stated, otherwise they take about a second longer.
$endgroup$
– CA Trevillian
20 hours ago
$begingroup$
@happyfish I'm not sure that is entirely accurate, unfortunately. Though it would be nice! My understanding is as follows: When you perform the first call on a parallel function, you will spend more time than subsequent calls, this being due to the need to launch all kernels. Additionally there is some time taken to distribute definitions, if this is indeed done automatically. I am curious if there is a part of the documentation you can point to for this? I am unable to have ParallelTable actually use all kernels unless you have done as I stated, otherwise they take about a second longer.
$endgroup$
– CA Trevillian
20 hours ago
1
1
$begingroup$
I agree with your general ideas on parallel evaluations. I am just saying that these theories don't localize for this particular problem. If you experiment on the problem you will find immediately that the bottleneck is not on where you focus: it's just distributing 10 difficult tasks to 6(by default) kernels, the overhead of subsequent calls and copying definitions is negligible. For the automatically distribute definition part, please refer to the first example in Options->DistributedContexts and mathematica.stackexchange.com/questions/39178/…
$endgroup$
– happy fish
20 hours ago
$begingroup$
I agree with your general ideas on parallel evaluations. I am just saying that these theories don't localize for this particular problem. If you experiment on the problem you will find immediately that the bottleneck is not on where you focus: it's just distributing 10 difficult tasks to 6(by default) kernels, the overhead of subsequent calls and copying definitions is negligible. For the automatically distribute definition part, please refer to the first example in Options->DistributedContexts and mathematica.stackexchange.com/questions/39178/…
$endgroup$
– happy fish
20 hours ago
1
1
$begingroup$
Condensed matter physics.Bott index,is a kind of Chern number@CATrevillian
$endgroup$
– guangya
16 hours ago
$begingroup$
Condensed matter physics.Bott index,is a kind of Chern number@CATrevillian
$endgroup$
– guangya
16 hours ago
1
1
$begingroup$
we use it to judge whether a substance is trivial topology or not@CATrevillian. Nobel Prize in 2016
$endgroup$
– guangya
16 hours ago
$begingroup$
we use it to judge whether a substance is trivial topology or not@CATrevillian. Nobel Prize in 2016
$endgroup$
– guangya
16 hours ago
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show 12 more comments
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