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From: "SZEDER Gábor" <szeder.dev@gmail.com>
To: Derrick Stolee <stolee@gmail.com>
Cc: Garima Singh via GitGitGadget <gitgitgadget@gmail.com>,
	git@vger.kernel.org, jonathantanmy@google.com,
	Garima Singh <garima.singh@microsoft.com>
Subject: Re: [PATCH v4 09/15] commit-graph: write Bloom filters to commit graph file
Date: Sun, 31 May 2020 19:23:49 +0200	[thread overview]
Message-ID: <20200531172349.GA9990@szeder.dev> (raw)
In-Reply-To: <72cff41c-bb2e-5f87-5db6-d4e9ead25a47@gmail.com>

On Fri, May 29, 2020 at 09:35:17AM -0400, Derrick Stolee wrote:
> >> +  Bloom Filter Index (ID: {'B', 'I', 'D', 'X'}) (N * 4 bytes) [Optional]
> >> +    * The ith entry, BIDX[i], stores the number of 8-byte word blocks in all
> > 
> > This is inconsistent with the implementation: according to the code in
> > one of the previous patches these entries are simple byte offsets, not
> > 8-byte word offsets, i.e. the combined size of all modified path
> > Bloom filters can be at most 2^32 bytes.
> 
> The documentation was fixed in 88093289cdc (Documentation: changed-path Bloom
> filters use byte words, 2020-05-11).

Oh, good.  I'm waaay behind the curve and haven't seen this fix.  Even
better, now I also noticed that two bugs I was about to report have
been fixed already (though both fixes have minor flaws).

Ok, so at least the specs are consistent with the implementation.  I'm
not sure this was done in the right direction, though, because too
small Bloom filters do hurt performance.

> > Clearly, using 4 byte index entries significantly lowers the max
> > number of commits that can be stored with modified path Bloom filters.
> 
> This is a good point, and certainly the reason for 8-byte multiples.

Note that Bloom filters with power-of-two number of bits have higher
false positive probabilities when using some form of double hashing.
When going for 8 byte blocks all commits modifying <= 12 paths
(assuming 7 hashes per path) will have power-of-2 sized Bloom filters
(64 or 128 bits), and that is a lot of commits.

> The incremental commit-graph can actually save us here

Oh, I haven't thought of that

> >> +      Bloom filters from commit 0 to commit i (inclusive) in lexicographic
> >> +      order. The Bloom filter for the i-th commit spans from BIDX[i-1] to
> >> +      BIDX[i] (plus header length), where BIDX[-1] is 0.
> >> +    * The BIDX chunk is ignored if the BDAT chunk is not present.
> >> +
> >> +  Bloom Filter Data (ID: {'B', 'D', 'A', 'T'}) [Optional]
> >> +    * It starts with header consisting of three unsigned 32-bit integers:
> >> +      - Version of the hash algorithm being used. We currently only support
> >> +	value 1 which corresponds to the 32-bit version of the murmur3 hash
> >> +	implemented exactly as described in
> >> +	https://en.wikipedia.org/wiki/MurmurHash#Algorithm and the double
> >> +	hashing technique using seed values 0x293ae76f and 0x7e646e2 as
> >> +	described in https://doi.org/10.1007/978-3-540-30494-4_26 "Bloom Filters
> >> +	in Probabilistic Verification"
> > 
> > How should double hashing compute the k hashes, i.e. using 64 bit or
> > 32 bit unsigned integer arithmetic?

Note that this should be clarified in the specs.

> >> +      - The number of times a path is hashed and hence the number of bit positions
> >> +	      that cumulatively determine whether a file is present in the commit.
> >> +      - The minimum number of bits 'b' per entry in the Bloom filter. If the filter
> >> +	      contains 'n' entries, then the filter size is the minimum number of 64-bit
> >> +	      words that contain n*b bits.
> > 
> > Since the ideal number of bits per element depends only on the number
> > of hashes per path (k / ln(2) ≈ k * 10 / 7), why is this value stored
> > in the commit-graph?
> 
> The ideal number depends also on what false-positive rate you want.

Well, yes, but indirectly:  according to Wikipedia :) the optimal
number of hashes per element depends only on the desired false
probability, and the optimal number of bits per element depends only
on the number of hashes per element.

So storing the min number of bits per entry seems to be redundant.

> In a
> hypothetical future where we want to allow customization here, we want
> the filters to be consistently sized across all filters.

Wouldn't customizing through the number of hashes be sufficient?

> >> +    * Note: Commits with no changes or more than 512 changes have Bloom filters
> >> +      of length zero.
> > 
> > What does this "Note:" prefix mean in the file format specification?
> > 
> > Can an implementation use a one byte Bloom filter with no bits set for
> > a commit with no changes?  Can an implementation still store a Bloom
> > filter for commits that modify more than 512 paths?
> 
> This is currently due to a hard-coded value in the implementation. It's not a
> requirement of the file format.

Should an implementation detail like that be part of the specs?  It
sure caused a bit of confusion here.


  reply	other threads:[~2020-05-31 17:23 UTC|newest]

Thread overview: 159+ messages / expand[flat|nested]  mbox.gz  Atom feed  top
2019-12-20 22:05 [PATCH 0/9] [RFC] Changed Paths Bloom Filters Garima Singh via GitGitGadget
2019-12-20 22:05 ` [PATCH 1/9] commit-graph: add --changed-paths option to write Garima Singh via GitGitGadget
2020-01-01 20:20   ` Jakub Narebski
2019-12-20 22:05 ` [PATCH 2/9] commit-graph: write changed paths bloom filters Garima Singh via GitGitGadget
2019-12-21 16:48   ` Philip Oakley
2020-01-06 18:44   ` Jakub Narebski
2020-01-13 19:48     ` Garima Singh
2019-12-20 22:05 ` [PATCH 3/9] commit-graph: use MAX_NUM_CHUNKS Garima Singh via GitGitGadget
2020-01-07 12:19   ` Jakub Narebski
2019-12-20 22:05 ` [PATCH 4/9] commit-graph: document bloom filter format Garima Singh via GitGitGadget
2020-01-07 14:46   ` Jakub Narebski
2019-12-20 22:05 ` [PATCH 5/9] commit-graph: write changed path bloom filters to commit-graph file Garima Singh via GitGitGadget
2020-01-07 16:01   ` Jakub Narebski
2020-01-14 15:14     ` Garima Singh
2019-12-20 22:05 ` [PATCH 6/9] commit-graph: test commit-graph write --changed-paths Garima Singh via GitGitGadget
2020-01-08  0:32   ` Jakub Narebski
2019-12-20 22:05 ` [PATCH 7/9] commit-graph: reuse existing bloom filters during write Garima Singh via GitGitGadget
2020-01-09 19:12   ` Jakub Narebski
2019-12-20 22:05 ` [PATCH 8/9] revision.c: use bloom filters to speed up path based revision walks Garima Singh via GitGitGadget
2020-01-11  0:27   ` Jakub Narebski
2020-01-15  0:08     ` Garima Singh
2019-12-20 22:05 ` [PATCH 9/9] commit-graph: add GIT_TEST_COMMIT_GRAPH_BLOOM_FILTERS test flag Garima Singh via GitGitGadget
2020-01-11 19:56   ` Jakub Narebski
2020-01-15  0:55     ` Garima Singh
2019-12-20 22:14 ` [PATCH 0/9] [RFC] Changed Paths Bloom Filters Junio C Hamano
2019-12-22  9:26 ` Christian Couder
2019-12-22  9:38   ` Jeff King
2020-01-01 12:04     ` Jakub Narebski
2019-12-22  9:30 ` Jeff King
2019-12-22  9:32   ` [PATCH 1/3] commit-graph: examine changed-path objects in pack order Jeff King
2019-12-27 14:51     ` Derrick Stolee
2019-12-29  6:12       ` Jeff King
2019-12-29  6:28         ` Jeff King
2019-12-30 14:37         ` Derrick Stolee
2019-12-30 14:51           ` Derrick Stolee
2019-12-22  9:32   ` [PATCH 2/3] commit-graph: free large diffs, too Jeff King
2019-12-27 14:52     ` Derrick Stolee
2019-12-22  9:32   ` [PATCH 3/3] commit-graph: stop using full rev_info for diffs Jeff King
2019-12-27 14:53     ` Derrick Stolee
2019-12-26 14:21   ` [PATCH 0/9] [RFC] Changed Paths Bloom Filters Derrick Stolee
2019-12-29  6:03     ` Jeff King
2019-12-27 16:11   ` Derrick Stolee
2019-12-29  6:24     ` Jeff King
2019-12-30 16:04       ` Derrick Stolee
2019-12-30 17:02       ` Junio C Hamano
2019-12-31 16:45 ` Jakub Narebski
2020-01-13 16:54   ` Garima Singh
2020-01-20 13:48     ` Jakub Narebski
2020-01-21 16:14       ` Garima Singh
2020-02-02 18:43         ` Jakub Narebski
2020-01-21 23:40 ` Emily Shaffer
2020-01-27 18:24   ` Garima Singh
2020-02-01 23:32   ` Jakub Narebski
2020-02-05 22:56 ` [PATCH v2 00/11] " Garima Singh via GitGitGadget
2020-02-05 22:56   ` [PATCH v2 01/11] commit-graph: use MAX_NUM_CHUNKS Garima Singh via GitGitGadget
2020-02-09 12:39     ` Jakub Narebski
2020-02-05 22:56   ` [PATCH v2 02/11] bloom: core Bloom filter implementation for changed paths Garima Singh via GitGitGadget
2020-02-15 17:17     ` Jakub Narebski
2020-02-16 16:49     ` Jakub Narebski
2020-02-22  0:32       ` Garima Singh
2020-02-23 13:38         ` Jakub Narebski
2020-02-24 17:34           ` Garima Singh
2020-02-24 18:20             ` Jakub Narebski
2020-02-05 22:56   ` [PATCH v2 03/11] diff: halt tree-diff early after max_changes Derrick Stolee via GitGitGadget
2020-02-17  0:00     ` Jakub Narebski
2020-02-22  0:37       ` Garima Singh
2020-02-05 22:56   ` [PATCH v2 04/11] commit-graph: compute Bloom filters for changed paths Garima Singh via GitGitGadget
2020-02-17 21:56     ` Jakub Narebski
2020-02-22  0:55       ` Garima Singh
2020-02-23 17:34         ` Jakub Narebski
2020-02-05 22:56   ` [PATCH v2 05/11] commit-graph: examine changed-path objects in pack order Jeff King via GitGitGadget
2020-02-18 17:59     ` Jakub Narebski
2020-02-24 18:29       ` Garima Singh
2020-02-05 22:56   ` [PATCH v2 06/11] commit-graph: examine commits by generation number Derrick Stolee via GitGitGadget
2020-02-19  0:32     ` Jakub Narebski
2020-02-24 20:45       ` Garima Singh
2020-02-05 22:56   ` [PATCH v2 07/11] commit-graph: write Bloom filters to commit graph file Garima Singh via GitGitGadget
2020-02-19 15:13     ` Jakub Narebski
2020-02-24 21:14       ` Garima Singh
2020-02-25 11:40         ` Jakub Narebski
2020-02-25 15:58           ` Garima Singh
2020-02-05 22:56   ` [PATCH v2 08/11] commit-graph: reuse existing Bloom filters during write Garima Singh via GitGitGadget
2020-02-20 18:48     ` Jakub Narebski
2020-02-24 21:45       ` Garima Singh
2020-02-05 22:56   ` [PATCH v2 09/11] commit-graph: add --changed-paths option to write subcommand Garima Singh via GitGitGadget
2020-02-20 20:28     ` Jakub Narebski
2020-02-24 21:51       ` Garima Singh
2020-02-25 12:10         ` Jakub Narebski
2020-02-20 22:10     ` Bryan Turner
2020-02-22  1:44       ` Garima Singh
2020-02-05 22:56   ` [PATCH v2 10/11] revision.c: use Bloom filters to speed up path based revision walks Garima Singh via GitGitGadget
2020-02-21 17:31     ` Jakub Narebski
2020-02-21 22:45     ` Jakub Narebski
2020-02-05 22:56   ` [PATCH v2 11/11] commit-graph: add GIT_TEST_COMMIT_GRAPH_CHANGED_PATHS test flag Garima Singh via GitGitGadget
2020-02-22  0:11     ` Jakub Narebski
2020-02-07 13:52   ` [PATCH v2 00/11] Changed Paths Bloom Filters SZEDER Gábor
2020-02-07 15:09     ` Garima Singh
2020-02-07 15:36       ` Derrick Stolee
2020-02-07 16:15         ` SZEDER Gábor
2020-02-07 16:33           ` Derrick Stolee
2020-02-11 19:08       ` Garima Singh
2020-02-08 23:04   ` Jakub Narebski
2020-02-21 17:41     ` Garima Singh
2020-03-29 18:36       ` Junio C Hamano
2020-03-30  0:31   ` [PATCH v3 00/16] " Garima Singh via GitGitGadget
2020-03-30  0:31     ` [PATCH v3 01/16] commit-graph: define and use MAX_NUM_CHUNKS Garima Singh via GitGitGadget
2020-03-30  0:31     ` [PATCH v3 02/16] bloom.c: add the murmur3 hash implementation Garima Singh via GitGitGadget
2020-03-30  0:31     ` [PATCH v3 03/16] bloom.c: introduce core Bloom filter constructs Garima Singh via GitGitGadget
2020-03-30  0:31     ` [PATCH v3 04/16] bloom.c: core Bloom filter implementation for changed paths Garima Singh via GitGitGadget
2020-03-30  0:31     ` [PATCH v3 05/16] diff: halt tree-diff early after max_changes Derrick Stolee via GitGitGadget
2020-03-30  0:31     ` [PATCH v3 06/16] commit-graph: compute Bloom filters for changed paths Garima Singh via GitGitGadget
2020-03-30  0:31     ` [PATCH v3 07/16] commit-graph: examine changed-path objects in pack order Jeff King via GitGitGadget
2020-03-30  0:31     ` [PATCH v3 08/16] commit-graph: examine commits by generation number Garima Singh via GitGitGadget
2020-03-30  0:31     ` [PATCH v3 09/16] diff: skip batch object download when possible Garima Singh via GitGitGadget
2020-03-30  0:31     ` [PATCH v3 10/16] commit-graph: write Bloom filters to commit graph file Garima Singh via GitGitGadget
2020-03-30  0:31     ` [PATCH v3 11/16] commit-graph: reuse existing Bloom filters during write Garima Singh via GitGitGadget
2020-03-30  0:31     ` [PATCH v3 12/16] commit-graph: add --changed-paths option to write subcommand Garima Singh via GitGitGadget
2020-03-30  0:31     ` [PATCH v3 13/16] revision.c: use Bloom filters to speed up path based revision walks Garima Singh via GitGitGadget
2020-03-30  0:31     ` [PATCH v3 14/16] revision.c: add trace2 stats around Bloom filter usage Garima Singh via GitGitGadget
2020-03-30  0:31     ` [PATCH v3 15/16] t4216: add end to end tests for git log with Bloom filters Garima Singh via GitGitGadget
2020-03-30  0:31     ` [PATCH v3 16/16] commit-graph: add GIT_TEST_COMMIT_GRAPH_CHANGED_PATHS test flag Garima Singh via GitGitGadget
2020-04-06 16:59     ` [PATCH v4 00/15] Changed Paths Bloom Filters Garima Singh via GitGitGadget
2020-04-06 16:59       ` [PATCH v4 01/15] commit-graph: define and use MAX_NUM_CHUNKS Garima Singh via GitGitGadget
2020-04-06 16:59       ` [PATCH v4 02/15] bloom.c: add the murmur3 hash implementation Garima Singh via GitGitGadget
2020-04-06 16:59       ` [PATCH v4 03/15] bloom.c: introduce core Bloom filter constructs Garima Singh via GitGitGadget
2020-04-06 16:59       ` [PATCH v4 04/15] bloom.c: core Bloom filter implementation for changed paths Garima Singh via GitGitGadget
2020-06-27 15:53         ` SZEDER Gábor
2020-04-06 16:59       ` [PATCH v4 05/15] diff: halt tree-diff early after max_changes Derrick Stolee via GitGitGadget
2020-08-04 14:47         ` SZEDER Gábor
2020-08-04 16:25           ` Derrick Stolee
2020-08-04 17:00             ` SZEDER Gábor
2020-08-04 17:31               ` Derrick Stolee
2020-08-05 17:08                 ` Derrick Stolee
2020-04-06 16:59       ` [PATCH v4 06/15] commit-graph: compute Bloom filters for changed paths Garima Singh via GitGitGadget
2020-04-06 16:59       ` [PATCH v4 07/15] commit-graph: examine changed-path objects in pack order Jeff King via GitGitGadget
2020-04-06 16:59       ` [PATCH v4 08/15] commit-graph: examine commits by generation number Garima Singh via GitGitGadget
2020-04-06 16:59       ` [PATCH v4 09/15] commit-graph: write Bloom filters to commit graph file Garima Singh via GitGitGadget
2020-05-29  8:57         ` SZEDER Gábor
2020-05-29 13:35           ` Derrick Stolee
2020-05-31 17:23             ` SZEDER Gábor [this message]
2020-07-09 17:00         ` [PATCH] commit-graph: fix "Writing out commit graph" progress counter SZEDER Gábor
2020-07-09 18:01           ` Derrick Stolee
2020-07-09 18:20             ` Derrick Stolee
2020-04-06 16:59       ` [PATCH v4 10/15] commit-graph: reuse existing Bloom filters during write Garima Singh via GitGitGadget
2020-06-19 14:02         ` SZEDER Gábor
2020-06-19 19:28           ` Junio C Hamano
2020-07-27 21:33         ` SZEDER Gábor
2020-04-06 16:59       ` [PATCH v4 11/15] commit-graph: add --changed-paths option to write subcommand Garima Singh via GitGitGadget
2020-06-07 22:21         ` SZEDER Gábor
2020-04-06 16:59       ` [PATCH v4 12/15] revision.c: use Bloom filters to speed up path based revision walks Garima Singh via GitGitGadget
2020-06-26  6:34         ` SZEDER Gábor
2020-04-06 16:59       ` [PATCH v4 13/15] revision.c: add trace2 stats around Bloom filter usage Garima Singh via GitGitGadget
2020-04-06 16:59       ` [PATCH v4 14/15] t4216: add end to end tests for git log with Bloom filters Garima Singh via GitGitGadget
2020-04-06 16:59       ` [PATCH v4 15/15] commit-graph: add GIT_TEST_COMMIT_GRAPH_CHANGED_PATHS test flag Garima Singh via GitGitGadget
2020-04-08 15:51       ` [PATCH v4 00/15] Changed Paths Bloom Filters Derrick Stolee
2020-04-08 19:21         ` Junio C Hamano
2020-04-08 20:05         ` Jakub Narębski
2020-04-12 20:34         ` Taylor Blau
2020-03-05 19:49 ` [PATCH 0/9] [RFC] " Garima Singh

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