Numpy mmap and kubernetes RAM limits
I'm trying to load a large (~40GB) file with np.load(path, mmap_mode='r') on a kubernetes cluster which allows very high short-term memory use but much lower indefinitely. I have 24GB "requested" memory with a much higher limit. np.load() detects that memory resources are available, so it automatically loads the entire file into RAM (my understanding is numpy automatically uses the memory mapping to the extent it needs to given available memory). Because the pod is dramatically exceeding requested memory, it is automatically killed when others request memory. If I set the memory limit to something low, the pod is 100M killed because mmap again doesn't detect the limitation and plows right past the ceiling. Is there any way around this without a lot of memory micromanaging?
python numpy machine-learning kubernetes
edited Nov 14 '18 at 8:35
Aqueous Carlos
352314
asked Nov 14 '18 at 4:45
Hugh RunyanHugh Runyan
11
add a comment |
I'm trying to load a large (~40GB) file with np.load(path, mmap_mode='r') on a kubernetes cluster which allows very high short-term memory use but much lower indefinitely. I have 24GB "requested" memory with a much higher limit. np.load() detects that memory resources are available, so it automatically loads the entire file into RAM (my understanding is numpy automatically uses the memory mapping to the extent it needs to given available memory). Because the pod is dramatically exceeding requested memory, it is automatically killed when others request memory. If I set the memory limit to something low, the pod is 100M killed because mmap again doesn't detect the limitation and plows right past the ceiling. Is there any way around this without a lot of memory micromanaging?
python numpy machine-learning kubernetes
edited Nov 14 '18 at 8:35
Aqueous Carlos
352314
asked Nov 14 '18 at 4:45
Hugh RunyanHugh Runyan
11
add a comment |
I'm trying to load a large (~40GB) file with np.load(path, mmap_mode='r') on a kubernetes cluster which allows very high short-term memory use but much lower indefinitely. I have 24GB "requested" memory with a much higher limit. np.load() detects that memory resources are available, so it automatically loads the entire file into RAM (my understanding is numpy automatically uses the memory mapping to the extent it needs to given available memory). Because the pod is dramatically exceeding requested memory, it is automatically killed when others request memory. If I set the memory limit to something low, the pod is 100M killed because mmap again doesn't detect the limitation and plows right past the ceiling. Is there any way around this without a lot of memory micromanaging?
python numpy machine-learning kubernetes
edited Nov 14 '18 at 8:35
Aqueous Carlos
352314
asked Nov 14 '18 at 4:45
Hugh RunyanHugh Runyan
11
I'm trying to load a large (~40GB) file with np.load(path, mmap_mode='r') on a kubernetes cluster which allows very high short-term memory use but much lower indefinitely. I have 24GB "requested" memory with a much higher limit. np.load() detects that memory resources are available, so it automatically loads the entire file into RAM (my understanding is numpy automatically uses the memory mapping to the extent it needs to given available memory). Because the pod is dramatically exceeding requested memory, it is automatically killed when others request memory. If I set the memory limit to something low, the pod is 100M killed because mmap again doesn't detect the limitation and plows right past the ceiling. Is there any way around this without a lot of memory micromanaging?
python numpy machine-learning kubernetes
python numpy machine-learning kubernetes
edited Nov 14 '18 at 8:35
Aqueous Carlos
352314
asked Nov 14 '18 at 4:45
Hugh RunyanHugh Runyan
11
edited Nov 14 '18 at 8:35
Aqueous Carlos
352314
asked Nov 14 '18 at 4:45
Hugh RunyanHugh Runyan
11
edited Nov 14 '18 at 8:35
Aqueous Carlos
352314
edited Nov 14 '18 at 8:35
Aqueous Carlos
352314
edited Nov 14 '18 at 8:35
Aqueous Carlos
352314
352314
asked Nov 14 '18 at 4:45
Hugh RunyanHugh Runyan
11
asked Nov 14 '18 at 4:45
Hugh RunyanHugh Runyan
11
asked Nov 14 '18 at 4:45
Hugh RunyanHugh Runyan
11
11
add a comment |
add a comment |
0
active
oldest
votes
Your Answer
StackExchange.ifUsing("editor", function ()
StackExchange.using("externalEditor", function ()
StackExchange.using("snippets", function ()
StackExchange.snippets.init();
);
);
, "code-snippets");
StackExchange.ready(function()
var channelOptions =
tags: "".split(" "),
id: "1"
;
initTagRenderer("".split(" "), "".split(" "), channelOptions);
StackExchange.using("externalEditor", function()
// Have to fire editor after snippets, if snippets enabled
if (StackExchange.settings.snippets.snippetsEnabled)
StackExchange.using("snippets", function()
createEditor();
);
else
createEditor();
);
function createEditor()
StackExchange.prepareEditor(
heartbeatType: 'answer',
autoActivateHeartbeat: false,
convertImagesToLinks: true,
noModals: true,
showLowRepImageUploadWarning: true,
reputationToPostImages: 10,
bindNavPrevention: true,
postfix: "",
imageUploader:
brandingHtml: "Powered by u003ca class="icon-imgur-white" href="https://imgur.com/"u003eu003c/au003e",
contentPolicyHtml: "User contributions licensed under u003ca href="https://creativecommons.org/licenses/by-sa/3.0/"u003ecc by-sa 3.0 with attribution requiredu003c/au003e u003ca href="https://stackoverflow.com/legal/content-policy"u003e(content policy)u003c/au003e",
allowUrls: true
,
onDemand: true,
discardSelector: ".discard-answer"
,immediatelyShowMarkdownHelp:true
);
);
Sign up or log in
StackExchange.ready(function ()
StackExchange.helpers.onClickDraftSave('#login-link');
);
Sign up using Google
Sign up using Facebook
Sign up using Email and Password
Post as a guest
Required, but never shown
StackExchange.ready(
function ()
StackExchange.openid.initPostLogin('.new-post-login', 'https%3a%2f%2fstackoverflow.com%2fquestions%2f53293329%2fnumpy-mmap-and-kubernetes-ram-limits%23new-answer', 'question_page');
);
Post as a guest
Required, but never shown
0
active
oldest
votes
0
active
oldest
votes
active
oldest
votes
active
oldest
votes
Thanks for contributing an answer to Stack Overflow!
- Please be sure to answer the question. Provide details and share your research!
But avoid …
- Asking for help, clarification, or responding to other answers.
- Making statements based on opinion; back them up with references or personal experience.
To learn more, see our tips on writing great answers.
Sign up or log in
StackExchange.ready(function ()
StackExchange.helpers.onClickDraftSave('#login-link');
);
Sign up using Google
Sign up using Facebook
Sign up using Email and Password
Post as a guest
Required, but never shown
StackExchange.ready(
function ()
StackExchange.openid.initPostLogin('.new-post-login', 'https%3a%2f%2fstackoverflow.com%2fquestions%2f53293329%2fnumpy-mmap-and-kubernetes-ram-limits%23new-answer', 'question_page');
);
Post as a guest
Required, but never shown
Sign up or log in
StackExchange.ready(function ()
StackExchange.helpers.onClickDraftSave('#login-link');
);
Sign up using Google
Sign up using Facebook
Sign up using Email and Password
Post as a guest
Required, but never shown
Sign up or log in
StackExchange.ready(function ()
StackExchange.helpers.onClickDraftSave('#login-link');
);
Sign up using Google
Sign up using Facebook
Sign up using Email and Password
Post as a guest
Required, but never shown
Sign up or log in
StackExchange.ready(function ()
StackExchange.helpers.onClickDraftSave('#login-link');
);
Sign up using Google
Sign up using Facebook
Sign up using Email and Password
Sign up using Google
Sign up using Facebook
Sign up using Email and Password
Post as a guest
Required, but never shown
Required, but never shown
Required, but never shown
Required, but never shown
Required, but never shown
Required, but never shown
Required, but never shown
Required, but never shown
Required, but never shown
