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Posted to issues@spark.apache.org by "Fabian Gebert (JIRA)" <ji...@apache.org> on 2015/01/13 17:31:34 UTC
[jira] [Commented] (SPARK-4796) Spark does not remove temp files
[ https://issues.apache.org/jira/browse/SPARK-4796?page=com.atlassian.jira.plugin.system.issuetabpanels:comment-tabpanel&focusedCommentId=14275494#comment-14275494 ]
Fabian Gebert commented on SPARK-4796:
--------------------------------------
suffering from this issue as well and can't see any workaround
> Spark does not remove temp files
> --------------------------------
>
> Key: SPARK-4796
> URL: https://issues.apache.org/jira/browse/SPARK-4796
> Project: Spark
> Issue Type: Bug
> Components: Input/Output
> Affects Versions: 1.1.0
> Environment: I'm runnin spark on mesos and mesos slaves are docker containers. Spark 1.1.0, elasticsearch spark 2.1.0-Beta3, mesos 0.20.0, docker 1.2.0.
> Reporter: Ian Babrou
>
> I started a job that cannot fill into memory and got "no space left on device". That was fair, because docker containers only have 10gb of disk space and some is taken by OS already.
> But then I found out when job failed it didn't release any disk space and left container without any free disk space.
> Then I decided to check if spark removes temp files in any case, because many mesos slaves had /tmp/spark-local-*. Apparently some garbage stays after spark task is finished. I attached with strace to running job:
> [pid 30212] unlink("/tmp/spark-local-20141209091330-48b5/12/temp_8a73fcc2-4baa-499a-8add-0161f918de8a") = 0
> [pid 30212] unlink("/tmp/spark-local-20141209091330-48b5/31/temp_47efd04b-d427-4139-8f48-3d5d421e9be4") = 0
> [pid 30212] unlink("/tmp/spark-local-20141209091330-48b5/15/temp_619a46dc-40de-43f1-a844-4db146a607c6") = 0
> [pid 30212] unlink("/tmp/spark-local-20141209091330-48b5/05/temp_d97d90a7-8bc1-4742-ba9b-41d74ea73c36" <unfinished ...>
> [pid 30212] <... unlink resumed> ) = 0
> [pid 30212] unlink("/tmp/spark-local-20141209091330-48b5/36/temp_a2deb806-714a-457a-90c8-5d9f3247a5d7") = 0
> [pid 30212] unlink("/tmp/spark-local-20141209091330-48b5/04/temp_afd558f1-2fd0-48d7-bc65-07b5f4455b22") = 0
> [pid 30212] unlink("/tmp/spark-local-20141209091330-48b5/32/temp_a7add910-8dc3-482c-baf5-09d5a187c62a" <unfinished ...>
> [pid 30212] <... unlink resumed> ) = 0
> [pid 30212] unlink("/tmp/spark-local-20141209091330-48b5/21/temp_485612f0-527f-47b0-bb8b-6016f3b9ec19") = 0
> [pid 30212] unlink("/tmp/spark-local-20141209091330-48b5/12/temp_bb2b4e06-a9dd-408e-8395-f6c5f4e2d52f") = 0
> [pid 30212] unlink("/tmp/spark-local-20141209091330-48b5/1e/temp_825293c6-9d3b-4451-9cb8-91e2abe5a19d" <unfinished ...>
> [pid 30212] <... unlink resumed> ) = 0
> [pid 30212] unlink("/tmp/spark-local-20141209091330-48b5/15/temp_43fbb94c-9163-4aa7-ab83-e7693b9f21fc") = 0
> [pid 30212] unlink("/tmp/spark-local-20141209091330-48b5/3d/temp_37f3629c-1b09-4907-b599-61b7df94b898" <unfinished ...>
> [pid 30212] <... unlink resumed> ) = 0
> [pid 30212] unlink("/tmp/spark-local-20141209091330-48b5/35/temp_d18f49f6-1fb1-4c01-a694-0ee0a72294c0") = 0
> And after job is finished, some files are still there:
> /tmp/spark-local-20141209091330-48b5/
> /tmp/spark-local-20141209091330-48b5/11
> /tmp/spark-local-20141209091330-48b5/11/shuffle_0_1_4
> /tmp/spark-local-20141209091330-48b5/32
> /tmp/spark-local-20141209091330-48b5/04
> /tmp/spark-local-20141209091330-48b5/05
> /tmp/spark-local-20141209091330-48b5/0f
> /tmp/spark-local-20141209091330-48b5/0f/shuffle_0_1_2
> /tmp/spark-local-20141209091330-48b5/3d
> /tmp/spark-local-20141209091330-48b5/0e
> /tmp/spark-local-20141209091330-48b5/0e/shuffle_0_1_1
> /tmp/spark-local-20141209091330-48b5/15
> /tmp/spark-local-20141209091330-48b5/0d
> /tmp/spark-local-20141209091330-48b5/0d/shuffle_0_1_0
> /tmp/spark-local-20141209091330-48b5/36
> /tmp/spark-local-20141209091330-48b5/31
> /tmp/spark-local-20141209091330-48b5/12
> /tmp/spark-local-20141209091330-48b5/21
> /tmp/spark-local-20141209091330-48b5/10
> /tmp/spark-local-20141209091330-48b5/10/shuffle_0_1_3
> /tmp/spark-local-20141209091330-48b5/1e
> /tmp/spark-local-20141209091330-48b5/35
> If I look into my mesos slaves, there are mostly "shuffle" files, overall picture for single node:
> root@web338:~# find /tmp/spark-local-20141* -type f | fgrep shuffle | wc -l
> 781
> root@web338:~# find /tmp/spark-local-20141* -type f | fgrep -v shuffle | wc -l
> 10
> root@web338:~# find /tmp/spark-local-20141* -type f | fgrep -v shuffle
> /tmp/spark-local-20141119144512-67c4/2d/temp_9056f380-3edb-48d6-a7df-d4896f1e1cc3
> /tmp/spark-local-20141119144512-67c4/3d/temp_e005659b-eddf-4a34-947f-4f63fcddf111
> /tmp/spark-local-20141119144512-67c4/16/temp_71eba702-36b4-4e1a-aebc-20d2080f1705
> /tmp/spark-local-20141119144512-67c4/0d/temp_8037b9db-2d8a-4786-a554-a8cad922bf5e
> /tmp/spark-local-20141119144512-67c4/24/temp_f0e4cc43-6cc9-42a7-882d-f8a031fa4dc3
> /tmp/spark-local-20141119144512-67c4/29/temp_a8bbe2cb-f590-4b71-8ef8-9c0324beddc7
> /tmp/spark-local-20141119144512-67c4/3a/temp_9fc08519-f23a-40ac-a3fd-e58df6871460
> /tmp/spark-local-20141119144512-67c4/1e/temp_d66668ab-2999-48af-a136-84cfd6f5f6cb
> /tmp/spark-local-20141205110922-f78e/0a/temp_7409add5-e6ff-46e5-ae3f-6a4c7b2ddf8f
> /tmp/spark-local-20141205111026-0b53/01/temp_72024c94-7512-4692-8bd1-ef2417143d8c
> Conclusions:
> 1. Shuffle files should be removed, but they stay.
> 2. Temp files should always be removed, but they stay.
> Maybe we should unlink temp and shuffle files immediately after creation to remove them even if spark fails.
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