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Possibly expensive SQL Query on determining files to process #144

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kriegerse opened this issue Oct 2, 2024 · 7 comments
Closed

Possibly expensive SQL Query on determining files to process #144

kriegerse opened this issue Oct 2, 2024 · 7 comments
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enhancement New feature or request

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@kriegerse
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kriegerse commented Oct 2, 2024

Description

Hey it's me again :-D

I've recognized a high load on my Maria DB Instance. It took me a while to identify what cause the load but the MariaDB slow log is very clear about the SQL Statement and I suspect to trace it down to the GData VaaS App.

It looks like the GData VaaS makes an uncomfortable SQL Query to the Database not performing well.

Reproduce

  • Install Nextcloud

  • Install gdatavaas App

  • Possibly have a lot of files + folder in your nextcloud and/or oc_filecache table - I count:

    • ~293491 in my nc/oc data dir (overall)
      • ~27351 in my (sinlge) userdir
      • ~265999 in my appdata folder (including previews)
    • ~ 349134 in oc_filecache table
  • Hardware simple NAS with:

    • Intel(R) Celeron(R) J4105 CPU @ 1.50GHz
    • 32GB RAM

For sure no enterprise grade hardware but also no numbers of files like enterprises have.

Log(s) & Analysis

  • MariaDB Slow Log - I see a couple of them in my slow.log but average run of the query is always around ~800 seconds (~14 Minutes)
# Time: 241002 18:45:26
# User@Host: oc_XXXXXX[oc_XXXXXX] @  [XXX.XXX.XXX.XXX]
# Thread_id: 32250  Schema: XXX-owncloud  QC_hit: No
# Query_time: 908.723772  Lock_time: 0.000139  Rows_sent: 10000  Rows_examined: 505241
# Rows_affected: 0  Bytes_sent: 120089
SET timestamp=1727894726;
SELECT `f`.`fileid` FROM `oc_filecache` `f` LEFT JOIN `oc_systemtag_object_mapping` `o` ON `f`.`fileid` = CAST(o.objectid AS UNSIGNED) LEFT JOIN `oc_mimetypes` `m` ON `f`.`mimetype` = `m`.`id` WHERE ((`o`.`systemtagid` NOT IN (248, 249, 251, 250, 252)) OR (`o`.`systemtagid` IS NULL)) AND (`m`.`mimetype` NOT LIKE '%unix-directory%') AND ((`f`.`path` LIKE 'files/%') OR (`f`.`path` LIKE '__groupfolders/%')) ORDER BY `f`.`fileid` DESC LIMIT 10000;
  • MariaDB - Explain: about the statement
MariaDB [XXX-owncloud]> EXPLAIN SELECT `f`.`fileid` FROM `oc_filecache` `f` LEFT JOIN `oc_systemtag_object_mapping` `o` ON `f`.`fileid` = CAST(o.objectid AS UNSIGNED) LEFT JOIN `oc_mimetypes` `m` ON `f`.`mimetype` = `m`.`id` WHERE ((`o`.`systemtagid` NOT IN (248, 249, 251, 250, 252)) OR (`o`.`systemtagid` IS NULL)) AND (`m`.`mimetype` NOT LIKE '%unix-directory%') AND ((`f`.`path` LIKE 'files/%') OR (`f`.`path` LIKE '__groupfolders/%')) ORDER BY `f`.`fileid` DESC LIMIT 10000;
+------+-------------+-------+--------+---------------+---------+---------+----------------------------+--------+--------------------------------------------------------------+
| id   | select_type | table | type   | possible_keys | key     | key_len | ref                        | rows   | Extra                                                        |
+------+-------------+-------+--------+---------------+---------+---------+----------------------------+--------+--------------------------------------------------------------+
|    1 | SIMPLE      | f     | ALL    | NULL          | NULL    | NULL    | NULL                       | 118467 | Using where; Using temporary; Using filesort                 |
|    1 | SIMPLE      | m     | eq_ref | PRIMARY       | PRIMARY | 8       | XXX-owncloud.f.mimetype    | 1      | Using where                                                  |
|    1 | SIMPLE      | o     | index  | NULL          | PRIMARY | 524     | NULL                       | 7758   | Using where; Using index; Using join buffer (flat, BNL join) |
+------+-------------+-------+--------+---------------+---------+---------+----------------------------+--------+--------------------------------------------------------------+
3 rows in set (0.001 sec)

Not an MariaDB/SQL Expert but it looks like for the first part of the query with oc_filecache table no index can be utilized and endup in a expensive full table scan

  • Simple Select of first oc_filecache is able to utilize index
MariaDB [XXX-owncloud]> EXPLAIN SELECT `f`.`fileid` FROM `oc_filecache` `f` ;
+------+-------------+-------+-------+---------------+----------+---------+------+--------+-------------+
| id   | select_type | table | type  | possible_keys | key      | key_len | ref  | rows   | Extra       |
+------+-------------+-------+-------+---------------+----------+---------+------+--------+-------------+
|    1 | SIMPLE      | f     | index | NULL          | fs_mtime | 8       | NULL | 118467 | Using index |
+------+-------------+-------+-------+---------------+----------+---------+------+--------+-------------+
1 row in set (0.000 sec)
  • The tag IDs (248, 249, 251, 250, 252) seems to belong to GData VaaS to manage states
MariaDB [XXX-owncloud]> SELECT * FROM `oc_systemtag` WHERE `id` IN (248, 249, 251, 250, 252) ORDER BY id;
+-----+------------+------------+----------+
| id  | name       | visibility | editable |
+-----+------------+------------+----------+
| 248 | Unscanned  |          1 |        0 |
| 249 | Malicious  |          1 |        0 |
| 250 | Pup        |          1 |        0 |
| 251 | Clean      |          1 |        0 |
| 252 | Won't scan |          1 |        0 |
+-----+------------+------------+----------+
5 rows in set (0.001 sec)

Database Stats

Some statistic data might help for the issue

  • Count Rows on oc_filecache (f)
MariaDB [XXX-owncloud]> SELECT COUNT(`f`.`fileid`) FROM `oc_filecache` `f` ;
+---------------------+
| COUNT(`f`.`fileid`) |
+---------------------+
|              349134 |
+---------------------+
1 row in set (0.121 sec)
  • Count Rows on oc_systemtag_object_mapping (o)
MariaDB [XXX-owncloud]> SELECT COUNT(*) FROM `oc_systemtag_object_mapping`  ;
+----------+
| COUNT(*) |
+----------+
|   119045 |
+----------+
  • Count Rows on oc_mimetypes (m)
MariaDB [XXX-owncloud]> SELECT COUNT(*) FROM `oc_mimetypes`  ;
+----------+
| COUNT(*) |
+----------+
|      184 |
+----------+
1 row in set (0.000 sec)

Available Indices

  • oc_filecache
MariaDB [XXX-owncloud]> show index from oc_filecache;
+--------------+------------+--------------------------+--------------+-------------+-----------+-------------+----------+--------+------+------------+---------+---------------+---------+
| Table        | Non_unique | Key_name                 | Seq_in_index | Column_name | Collation | Cardinality | Sub_part | Packed | Null | Index_type | Comment | Index_comment | Ignored |
+--------------+------------+--------------------------+--------------+-------------+-----------+-------------+----------+--------+------+------------+---------+---------------+---------+
| oc_filecache |          0 | PRIMARY                  |            1 | fileid      | A         |      118467 |     NULL | NULL   |      | BTREE      |         |               | NO      |
| oc_filecache |          0 | fs_storage_path_hash     |            1 | storage     | A         |          12 |     NULL | NULL   |      | BTREE      |         |               | NO      |
| oc_filecache |          0 | fs_storage_path_hash     |            2 | path_hash   | A         |      118467 |     NULL | NULL   |      | BTREE      |         |               | NO      |
| oc_filecache |          1 | fs_parent_name_hash      |            1 | parent      | A         |       31323 |     NULL | NULL   |      | BTREE      |         |               | NO      |
| oc_filecache |          1 | fs_parent_name_hash      |            2 | name        | A         |      118455 |     NULL | NULL   | YES  | BTREE      |         |               | NO      |
| oc_filecache |          1 | fs_storage_mimetype      |            1 | storage     | A         |          12 |     NULL | NULL   |      | BTREE      |         |               | NO      |
| oc_filecache |          1 | fs_storage_mimetype      |            2 | mimetype    | A         |         250 |     NULL | NULL   |      | BTREE      |         |               | NO      |
| oc_filecache |          1 | fs_storage_mimepart      |            1 | storage     | A         |          12 |     NULL | NULL   |      | BTREE      |         |               | NO      |
| oc_filecache |          1 | fs_storage_mimepart      |            2 | mimepart    | A         |          38 |     NULL | NULL   |      | BTREE      |         |               | NO      |
| oc_filecache |          1 | fs_storage_size          |            1 | storage     | A         |          12 |     NULL | NULL   |      | BTREE      |         |               | NO      |
| oc_filecache |          1 | fs_storage_size          |            2 | size        | A         |       70369 |     NULL | NULL   |      | BTREE      |         |               | NO      |
| oc_filecache |          1 | fs_storage_size          |            3 | fileid      | A         |      118467 |     NULL | NULL   |      | BTREE      |         |               | NO      |
| oc_filecache |          1 | fs_mtime                 |            1 | mtime       | A         |       42210 |     NULL | NULL   |      | BTREE      |         |               | NO      |
| oc_filecache |          1 | fs_size                  |            1 | size        | A         |       35679 |     NULL | NULL   |      | BTREE      |         |               | NO      |
| oc_filecache |          1 | fs_id_storage_size       |            1 | fileid      | A         |      118467 |     NULL | NULL   |      | BTREE      |         |               | NO      |
| oc_filecache |          1 | fs_id_storage_size       |            2 | storage     | A         |      118467 |     NULL | NULL   |      | BTREE      |         |               | NO      |
| oc_filecache |          1 | fs_id_storage_size       |            3 | size        | A         |      118467 |     NULL | NULL   |      | BTREE      |         |               | NO      |
| oc_filecache |          1 | fs_parent                |            1 | parent      | A         |      118467 |     NULL | NULL   |      | BTREE      |         |               | NO      |
| oc_filecache |          1 | memories_parent_mimetype |            1 | parent      | A         |      118467 |     NULL | NULL   |      | BTREE      |         |               | NO      |
| oc_filecache |          1 | memories_parent_mimetype |            2 | mimetype    | A         |      118467 |     NULL | NULL   |      | BTREE      |         |               | NO      |
| oc_filecache |          1 | memories_name_hash       |            1 | name        | A         |       29616 |     NULL | NULL   | YES  | BTREE      |         |               | NO      |
| oc_filecache |          1 | fs_storage_path_prefix   |            1 | storage     | A         |           9 |     NULL | NULL   |      | BTREE      |         |               | NO      |
| oc_filecache |          1 | fs_storage_path_prefix   |            2 | path        | A         |      118467 |       64 | NULL   | YES  | BTREE      |         |               | NO      |
+--------------+------------+--------------------------+--------------+-------------+-----------+-------------+----------+--------+------+------------+---------+---------------+---------+
23 rows in set (0.001 sec)

As other apps (memories) maintain there own indices, this might be also a solution for GData VaaS - if some is missing/can not utilized

  • oc_mimetypes
MariaDB [XXX-owncloud]> show index from oc_mimetypes;
+--------------+------------+-------------------+--------------+-------------+-----------+-------------+----------+--------+------+------------+---------+---------------+---------+
| Table        | Non_unique | Key_name          | Seq_in_index | Column_name | Collation | Cardinality | Sub_part | Packed | Null | Index_type | Comment | Index_comment | Ignored |
+--------------+------------+-------------------+--------------+-------------+-----------+-------------+----------+--------+------+------------+---------+---------------+---------+
| oc_mimetypes |          0 | PRIMARY           |            1 | id          | A         |         171 |     NULL | NULL   |      | BTREE      |         |               | NO      |
| oc_mimetypes |          0 | mimetype_id_index |            1 | mimetype    | A         |         171 |     NULL | NULL   |      | BTREE      |         |               | NO      |
+--------------+------------+-------------------+--------------+-------------+-----------+-------------+----------+--------+------+------------+---------+---------------+---------+
2 rows in set (0.001 sec)
  • oc_systemtag_object_mapping
MariaDB [XXX-owncloud]> show index from oc_systemtag_object_mapping;
+-----------------------------+------------+---------------------+--------------+-------------+-----------+-------------+----------+--------+------+------------+---------+---------------+---------+
| Table                       | Non_unique | Key_name            | Seq_in_index | Column_name | Collation | Cardinality | Sub_part | Packed | Null | Index_type | Comment | Index_comment | Ignored |
+-----------------------------+------------+---------------------+--------------+-------------+-----------+-------------+----------+--------+------+------------+---------+---------------+---------+
| oc_systemtag_object_mapping |          0 | PRIMARY             |            1 | objecttype  | A         |           1 |     NULL | NULL   |      | BTREE      |         |               | NO      |
| oc_systemtag_object_mapping |          0 | PRIMARY             |            2 | objectid    | A         |        7750 |     NULL | NULL   |      | BTREE      |         |               | NO      |
| oc_systemtag_object_mapping |          0 | PRIMARY             |            3 | systemtagid | A         |        7758 |     NULL | NULL   |      | BTREE      |         |               | NO      |
| oc_systemtag_object_mapping |          1 | systag_by_tagid     |            1 | systemtagid | A         |          19 |     NULL | NULL   |      | BTREE      |         |               | NO      |
| oc_systemtag_object_mapping |          1 | systag_by_tagid     |            2 | objecttype  | A         |          29 |     NULL | NULL   |      | BTREE      |         |               | NO      |
| oc_systemtag_object_mapping |          1 | memories_type_tagid |            1 | objecttype  | A         |           0 |     NULL | NULL   |      | BTREE      |         |               | NO      |
| oc_systemtag_object_mapping |          1 | memories_type_tagid |            2 | systemtagid | A         |          17 |     NULL | NULL   |      | BTREE      |         |               | NO      |
| oc_systemtag_object_mapping |          1 | systag_by_objectid  |            1 | objectid    | A         |        2586 |     NULL | NULL   |      | BTREE      |         |               | NO      |
+-----------------------------+------------+---------------------+--------------+-------------+-----------+-------------+----------+--------+------+------------+---------+---------------+---------+
8 rows in set (0.000 sec)

Expected behavior

  • GData VaaS performs well with SQL queries - the SQL Statement mentioned shouldn't run minutes also with respect to enterprise grade instances

Versions

  • Nextcloud Hub 8 [29.0.7]
  • Gdatavaas [29.4.3]
  • MariaDB [10.11.9]

Sorry for this possibly hard nut

@lennartdohmann lennartdohmann self-assigned this Oct 2, 2024
@lennartdohmann lennartdohmann added the enhancement New feature or request label Oct 2, 2024
@lennartdohmann lennartdohmann pinned this issue Oct 2, 2024
@lennartdohmann
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Hi, welcome back :D Thanks for the detailed description and all the information. This will certainly help a lot. In any case, I agree that the app should be more performant than it seems to be now, even with so many files. Due to a public holiday tomorrow and the following bridge day (for most people), this will probably have to wait a few days. But I'll get straight to have a look on it on Monday.

@kriegerse
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You're Welcome

If you need some "performance tests" I'm willing to run some SELECT statements against my DB Instance providing results.

Enjoy your days off :-)

@kriegerse
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Hey - I did some further experiments and analysis.

It looks like the problematic part of the query is the LEFT JOIN with CAST STATEMENT. MariaDB can not utilize the indexes therefor.

But when I create corresponding data types and indexes in the relevant oc_systemtag_object_mapping table the query can perform well.

  • ALTER TABLE with objectid_int column
ALTER TABLE oc_systemtag_object_mapping
ADD COLUMN objectid_int BIGINT(20) UNSIGNED GENERATED ALWAYS AS (CAST(objectid AS UNSIGNED)) STORED;
  • CREATE AN INDEX on objectid_int
CREATE INDEX idx_objectid_int ON oc_systemtag_object_mapping(objectid_int);
  • Change the query to make use of new objectid_int column
EXPLAIN
SELECT `f`.`fileid` FROM `oc_filecache` `f` 
LEFT JOIN `oc_systemtag_object_mapping` `o` ON `f`.`fileid` = `o`.`objectid_int` 
LEFT JOIN `oc_mimetypes` `m` ON `f`.`mimetype` = `m`.`id` 
WHERE 
    ((`o`.`systemtagid` NOT IN (248, 249, 251, 250, 252)) OR (`o`.`systemtagid` IS NULL)) 
    AND (`m`.`mimetype` NOT LIKE '%unix-directory%') 
    AND ((`f`.`path` LIKE 'files/%') OR (`f`.`path` LIKE '__groupfolders/%')) 
ORDER BY `f`.`fileid` DESC 
LIMIT 10000;

+------+-------------+-------+--------+------------------+------------------+---------+----------------------------+------+--------------------------+
| id   | select_type | table | type   | possible_keys    | key              | key_len | ref                        | rows | Extra                    |
+------+-------------+-------+--------+------------------+------------------+---------+----------------------------+------+--------------------------+
|    1 | SIMPLE      | f     | index  | NULL             | PRIMARY          | 8       | NULL                       | 5000 | Using where              |
|    1 | SIMPLE      | m     | eq_ref | PRIMARY          | PRIMARY          | 8       | XXX-owncloud.f.mimetype | 1    | Using where              |
|    1 | SIMPLE      | o     | ref    | idx_objectid_int | idx_objectid_int | 9       | XXX-owncloud.f.fileid   | 2    | Using where; Using index |
+------+-------------+-------+--------+------------------+------------------+---------+----------------------------+------+--------------------------+
3 rows in set (0.001 sec)
  • Executing the query will delivers results in below 1 second
[...]
| 3638044 |
| 3638023 |
| 3638023 |
| 3638023 |
+---------+
10000 rows in set (0.066 sec)

Problematic with this is that I've touched the nextcloud standard which could be problematic on updates/upgrade - maybe something similar can be achieved with an own GData VaaS mapping table exclusively track the files processed.

Btw ... As you see on the result, the query above gives back the fileid multiple times, when the file has multiple tags not belonging to GData VaaS. This is true for my query as for the problematic one.

I therefor further "optimized" mine with SELECT DISTINCT

SELECT DISTINCT `f`.`fileid` FROM `oc_filecache` `f` 
LEFT JOIN `oc_systemtag_object_mapping` `o` ON `f`.`fileid` = `o`.`objectid_int` 
LEFT JOIN `oc_mimetypes` `m` ON `f`.`mimetype` = `m`.`id` 
WHERE 
    ((`o`.`systemtagid` NOT IN (248, 249, 251, 250, 252)) OR (`o`.`systemtagid` IS NULL)) 
    AND (`m`.`mimetype` NOT LIKE '%unix-directory%') 
    AND ((`f`.`path` LIKE 'files/%') OR (`f`.`path` LIKE '__groupfolders/%')) 
ORDER BY `f`.`fileid` DESC 
LIMIT 10000;

RESULTING: 
[...]
| 3270470 |
| 3270469 |
| 3270468 |
| 3270467 |
+---------+
10000 rows in set (0.456 sec)

@pstadermann
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It appears that we don't have to add new columns or indices. The current query is not filtering on oc_systemtag_object_mapping.objecttype. The composite index (objecttype, objectid, systemtagid) is not used.

If you find the time, it would be great to know, if the new query is faster than 1s on your system.

We will release the fix in the coming days.

Test data

SELECT COUNT(*) FROM oc_filecache;
200470

SELECT COUNT(*) FROM oc_systemtag_object_mapping;
200044

Current query

SELECT
    `f`.`fileid`
FROM
    `oc_filecache` `f`
    LEFT JOIN `oc_systemtag_object_mapping` `o` ON `f`.`fileid` = CAST(o.objectid AS UNSIGNED)
    LEFT JOIN `oc_mimetypes` `m` ON `f`.`mimetype` = `m`.`id`
WHERE
    (
        (
            `o`.`systemtagid` NOT IN (248, 249, 251, 250, 252)
        )
        OR (`o`.`systemtagid` IS NULL)
    )
    AND (`m`.`mimetype` NOT LIKE '%unix-directory%')
    AND (
        (`f`.`path` LIKE 'files/%')
        OR (`f`.`path` LIKE '__groupfolders/%')
    )
ORDER BY
    `f`.`fileid` DESC
LIMIT
    10000;

Runtime: Aborted after 18min

EXPLAIN:

id select_type table type possible_keys key key_len ref rows filtered Extra
1 SIMPLE f ALL null null null null 184619 100 Using where; Using temporary; Using filesort
1 SIMPLE m eq_ref PRIMARY PRIMARY 8 nextcloud.f.mimetype 1 100 Using where
1 SIMPLE o index null PRIMARY 524 null 191839 100 Using where; Using index; Using join buffer (flat, BNL join)

New query

SELECT
    `f`.`fileid`
FROM
    `oc_filecache` `f`
    LEFT JOIN `oc_systemtag_object_mapping` `o` ON `f`.`fileid` = CAST(o.objectid AS UNSIGNED)
    LEFT JOIN `oc_mimetypes` `m` ON `f`.`mimetype` = `m`.`id`
WHERE
    (
        (
            `o`.`systemtagid` NOT IN (248, 249, 251, 250, 252)
        )
        OR (`o`.`systemtagid` IS NULL)
    )
    AND (o.objecttype = 'files')
    AND (`m`.`mimetype` NOT LIKE '%unix-directory%')
    AND (
        (`f`.`path` LIKE 'files/%')
        OR (`f`.`path` LIKE '__groupfolders/%')
    )
ORDER BY
    `f`.`fileid` DESC
LIMIT
    10000;

Runtime: 800ms

EXPLAIN:

id select_type table type possible_keys key key_len ref rows filtered Extra
1 SIMPLE o ref PRIMARY,systag_by_tagid PRIMARY 258 const 95919 50 Using where; Using index; Using temporary; Using filesort
1 SIMPLE f eq_ref PRIMARY,fs_id_storage_size PRIMARY 8 func 1 100 Using where
1 SIMPLE m eq_ref PRIMARY PRIMARY 8 nextcloud.f.mimetype 1 100 Using where

pstadermann pushed a commit that referenced this issue Oct 16, 2024
Optimize getFileIdsWithoutTags, getFileIdsWithTags
pstadermann pushed a commit that referenced this issue Oct 16, 2024
Optimize getFileIdsWithoutTags, getFileIdsWithTags
pstadermann pushed a commit that referenced this issue Oct 16, 2024
@pstadermann
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Still got some issues. The SQL query is not correct. Will update once I get it running.

pstadermann pushed a commit that referenced this issue Oct 16, 2024
Cast fileid to objectid and use the index
pstadermann pushed a commit that referenced this issue Oct 17, 2024
pstadermann added a commit that referenced this issue Oct 17, 2024
Possibly expensive SQL Query on determining files to process #144

Optimize getFileIdsWithoutTags, getFileIdsWithTags
---------

Co-authored-by: Philip Stadermann <[email protected]>
Co-authored-by: Lennart Dohmann <[email protected]>
@lennartdohmann
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Should be solved with e266783 in the next release.

pstadermann pushed a commit that referenced this issue Oct 18, 2024
lennartdohmann pushed a commit that referenced this issue Oct 22, 2024
Possibly expensive SQL Query on determining files to process #144

Optimize getFileIdsWithoutTags, getFileIdsWithTags
---------

Co-authored-by: Philip Stadermann <[email protected]>
Co-authored-by: Lennart Dohmann <[email protected]>
(cherry picked from commit e266783)
lennartdohmann pushed a commit that referenced this issue Oct 22, 2024
Fix cast for MySQL

(cherry picked from commit 7d8ae58)
lennartdohmann pushed a commit that referenced this issue Oct 23, 2024
Possibly expensive SQL Query on determining files to process #144

Optimize getFileIdsWithoutTags, getFileIdsWithTags
---------

Co-authored-by: Philip Stadermann <[email protected]>
Co-authored-by: Lennart Dohmann <[email protected]>
(cherry picked from commit e266783)
lennartdohmann pushed a commit that referenced this issue Oct 23, 2024
Fix cast for MySQL

(cherry picked from commit 7d8ae58)
@kriegerse
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Can confirm the fix - didn't see any entries anymore in the slow log for the problematic query after latest release.
again - thanks for fixing 👍

@lennartdohmann lennartdohmann unpinned this issue Oct 29, 2024
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