log in | about 

Summing up values inside 128 bit SSE or 256 bit AVX register: It's not easy to vectorize!

UPDATE: As pointeded out here, this benchmark seems to have several issues, in particular, the compiler seems to vectorize the scalar addition, which is pretty awesome. I apologize for possibly misleading the readers. This issue clearly needs revisiting and "rebenchmarking".

Imagine that you have 4 floating point values stored in a 128 bit SSE register or 8 floating point values stored in a 256 bit AVX register. How do you sum them up efficiently? One naive solution involves storing the values of the register to memory and summing them up using scalar operations. Is it possible to vectorize the summation efficiently? In other words, is it possible to sum up using SSE or AVX operations?

I tried some obvious solutions, in particular, an approach that uses the so called "horizontal" addition. I also tried to extract floating point values using SIMD operations and sum them up using scalar addition, but without storing the original floating point values to memory.

None of the approaches worked faster than the simpler scalar approach. Maybe the reason is that SIMD operations have high latency. In contrast, scalar additions have smaller latency and the CPU can execute several of them in parallel thanks to superscalarity. Yet, I am not 100% sure that this explanation is good. In any case, it seems to be hard to sum up values of SSE/AVX registers efficiently. As usual, my code is available for scrutiny.

Accurate BM25 similarity for Lucene

UPDATE: BM25 implementation has changed in recent Lucene versions. For more details, see the post Accurate Lucene BM25 : Redux.

In this blog post, I explain why Lucene's BM25 implementation is not accurate and propose its efficient replacement. I will also cover the following three little-known topics related to BM25 and sometimes other similarity models:

  1. Lossy document length encoding in Lucene indexing;
  2. An arcane method of index-time boosting (and why you probably don't want to use it);
  3. An omission in Lucene's indexing tutorial related to choosing the right similarity during indexing.

The efficiency and effectiveness of my BM25 replacement is verified using two collections created from community question-answering data. One collection is publicly available so that my experiments can be easily reproduced by people without academic affiliations (see code in my GitHub repo). I think this should be especially interesting to researchers using Lucene's BM25 as a baseline.

Among other similarity models, Lucene employs the BM25 similarity. It is a variant of the TF*IDF scheme, where the normalized term frequency (i.e., TF) is computed using the following formula:

\text{freq} \cdot (k_1 + 1)
\text{freq} + k_1 \cdot \left(1 - b + b \cdot |D| \cdot \text{iboost}^{-2} \cdot |D|^{-1}_{\text{avg}} \right)
}, \textbf{(*)}

where freq is a raw, i.e., unnormalized term frequency, $|D|$ is a document length in words, $|D|_{\text{avg}}$ is an average document length, and iboost is an index-time boosting factor ($k_1$ and $b$ are parameters).

First, let us talk about the boosting factor. It works by reducing the document length and, consequently, the denominator in the equation (*). Hence, increase in iboost leads to increase in the normalized term frequency and, thus, in the overall score. However, the relationship between the index-time boosting factor is quite convoluted and I really doubt that such a boosting scheme is usable in practice.

One may wonder why the index-time boosting is implemented in such an unusual fashion as opposed to introducing a simple multiplicative factor. The reason is that Lucene's API does not support such multiplicative factors directly. Therefore, a developer of a BM25 similarity class had to bundle index-time boosting with computation of the document-length normalization factor. As we read in the documentation for the latest Lucene version: " At indexing time, the indexer calls computeNorm(FieldInvertState), allowing the Similarity implementation to set a per-document value for the field that will be later accessible via LeafReader.getNormValues(String). Lucene makes no assumption about what is in this norm, but it is most useful for encoding length normalization information. "

It is the hook function computeNorm(FieldInvertState) that computes the value $|D| \cdot \text{iboost}^{-2}$ and compresses it into a one-byte value. Because of this lossy compression, there are only 256 possible normalization factors. Therefore, we can precompute the value of $k_1 \cdot \left(1 - b + b \cdot |D| \cdot \text{iboost}^{-2} \cdot |D|^{-1}_{\text{avg}} \right)$ that participates in Eq. (*) and avoid recomputation during query-time.

This memoization technique seems to result in a noticeable speed up, but it also substantially degrades the quality of Lucene's BM25 ranking (due to the lossy normalization compression). In what follows, I will describe experiments where (depending on the effectiveness metric and data type) performance loss is 5-10%. The collections that I use are rather small: 4-6 million short documents. I suspect that the degradation becomes more noticeable as the collection size increases. This may not matter in all applications, of course, but it is quite aggravating if you use Lucene BM25 as one of the baselines in your experiments.

Before I proceed with the experiments, I want to highlight that document length normalization factors may be (and mostly are) incompatible among different similarities. For this reason, one need to use exactly the same similarity during both indexing (see, e.g., my code here) and retrieval. This fact, however, seems to be missing from the Lucene's demo/tutorial file. If you use Lucene 6 and BM25, this will not be a problem, because BM25 is now the default similarity (and BM25 parameters are not used during the computation of the document length normalization). Yet, this would be a problem in Lucene 4 or 5, where the default similarity is different from BM25. Likewise, if you implement a custom similarity class, you may need to specify it both during indexing and retrieval.

For the purpose of experiments, I use two community question answering (QA) data sets: Yahoo! Answers collection L6 (shortly Comprehensive) and Stack Overflow (code excluded). These collections are used to assess effectiveness and efficiency of two BM25 implementation for Lucene. The first implementation is the standard BM25Similarity in Lucene 6. The second implementation (class BM25SimilarityFix) is a modification of Lucene's similarity class. This modification does not use an approximation for the document length.

The access to Yahoo! Answers Comprehensive collection is, unfortunately, restricted to people from academia. The Stack Overflow collection can be freely downloaded, see my GitHub repo for details. From a each collection, I extract questions and their corresponding best answers. As far as I understand, a best answer is selected by the user who asks the question. Questions that are not answered and questions for which there is no selected best answer are ignored. The resulting collections have 4.4 million QA pairs for Comprehensive and 6.2 million QA pairs for StackOverflow

Community QA data allows us to test the quality of retrieval algorithms by measuring the accuracy at the task of retrieving answers by using respective questions as queries. While the overall effectiveness of such method may not be good enough to be useful in practice, we can experiment with large collections of queries without the need to manually annotate thousands (or millions) retrieval results as it is done, e.g., in the TREC evaluation.

More specifically, I first retrieve 100 most highly ranked documents and compare effectiveness using several standard IR metrics: the precision/accuracy at rank one (P@1), the recall at rank 10 (Recall@10), the mean average precision (MAP) and the overall answer recall (which is technically Recall@100). A disadvantage of the community QA data is that there may be more than one relevant answer when users submit similar questions. Given a question, relevant best answers posted for similar questions might be even more relevant than the best answer posted for this question. I personally think that such outcomes should be quite infrequent, but I do not have good numbers to back up my hypothesis. In any case, we will keep in mind that the accuracy at rank 1 (P@1) and the mean reciprocal rank might be slightly biased. However, I do not see a good reason why a better system should not find respective best answers more frequently, in particular, among top 10 highest ranked results. In other words, I think we can pretty much trust metrics such as recall at rank 10 (Recall@10).

The above described collections are used to assess effectiveness and efficiency of two BM25 implementations. To this end, I search using the same set of 10 thousand queries 11 times (each set of queries uses 10 thousands first questions from a collection). The hardware is Intel(R) Xeon(R) CPU E5-1410 @ 2.80GHz with 10 MB of cache and 32 GB of RAM. The tests are run on Linux using Java 8. The first retrieval run is used to "warm up" the index. The results for the following 10 runs are used to compute efficiency.

Most evaluation work is done by the script run_eval_queries, which also computes p-values using the two-sided paired t-test (for this you need R and Python). Before doing this, of course, you would need to create a Lucene index. A more detailed description of the experimental process is given in the README file.

Retrieval time
Retrieval time
SD (ms)
P@1 Recall@10 MAP Recall@100
Comprehensive (Yahoo Answers!)
Lucene BM25 38.2 3.5 0.0722 0.1666 0.1043 0.2925
Accurate BM25 39.5 1.3 0.0768 0.1742 0.1098 0.2969
Gain 3.4% 6.4% 4.6% 5.2% 1.5%
p-value 9E-05 6E-08 1E-12 0.0015
Stack Overflow
Lucene BM25 338.2 24.2 0.065 0.1494 0.0937 0.2927
Accurate BM25 356.4 19.2 0.0712 0.1588 0.1009 0.3037
Gain 5.4% 9.5% 6.3% 7.7% 3.8%
p-value 1E-06 5E-09 2E-16 2E-09

The experimental results are given in the table. First, we can see that the standard Lucene's implementation is, indeed, a tad faster: by 3% for Comprehensive and by 5% for StackOverflow (for a more reliable comparison, though, I should have carried out more experiments, because currently these differences are within one standard deviation from respective means). At the same, the standard implementation is substantially less effective. In particular, for Comprehensive it is 6.4% worse in P@1 and 4.6% worse in Recall@10. These substantial differences are also statistically significant (the statistically significance tests generate tiny p-values).

The difference is smaller if we consider recall at rank 100. This is not especially surprising, because our collections are relatively small (4.4M and 6.2M indexed answers). So, in many cases Lucene is able to find relevant answers, but it cannot rank them high enough using the current implementation of BM25. My guess is that the gap between implementations would increase if many more answers were indexed.

I am not going to speculate whether a 3-5% loss in efficiency is worth a 5-10% gain in accuracy. Ultimately, the user would decide. However, if you employ Lucene BM25 as a baseline in IR experiments, you should probably not use the standard Lucene BM25 similarity due to the potential loss in accuracy. Of course, I may be wrong. So, I encourage the readers to scrutinize my code.

To conclude, I would note that it would be possible to further optimize the existing similarity (while keeping it accurate), if we could recompute normalization factors after the collection is created. Specifically, we could have precomputed the value $k_1 \cdot \left(1 - b + b \cdot |D| \cdot \text{iboost}^{-2} \cdot |D|^{-1}_{\text{avg}} \right) $ that participates in Eq. (*) for each document (technically, we would also need to store the float in the long-type format, however, it is possible by converting a float via floatToRawIntBits). However, such an precomputation is not possible with the current API.

NMSLIB 1.5 is out

We have recently released a new version of our Non-Metric Space Library (NMSLIB). NMSLIB is an efficient and extendible toolkit for searching in generic non-metric spaces. Our killer feature is generality. Despite being general, some of the methods may outperform the celebrated LSH in the spaces where LSH methods seem to work best. For more details, please, check my reflections on the current state of the library and future work.

Does IBM Watson have elements of deep learning in its code?

This post duplicates my Quora answer to a question: Does IBM Watson have elements of deep learning in its code?. Feel free to vote and comment there.

Let's assume that we talk about the original IBM Watson that won the Jeopardy! and not a series of diverse products collectively branded as Watson. Keeping this assumption in mind: no, I don't think that IBM Watson used deep learning.

At the very least it didn't seem to play any substantial role. IBM Watson seem to be relying on a classic approach to answer factoid questions, where answer-bearing passages and documents are found via a full-text search. A small fraction of answers came from knowledge bases, something around 1%. Another interesting technique (again it didn't account for many retrieved answers) is previously in my blog entry: On an inconsistency in IBM Watson papers.

To select answer candidates, IBM Watson used a bunch of techniques including filtering by an answer type (e.g., for a question "Who is a a president of the United States" an answer should be a person). It also helped that most answers (90+%) were either Wikipedia titles or a part of the Wikipedia title. Additional help came from redundancy in answer-bearing sentences, i.e., an answer was contained in many text passages.

Disclaimer: I have never worked for IBM and my understanding comes from reading several articles that the IBM Watson team published several years ago.

Is it necessary to assume a distribution of keys for hashing to obtain constant access time guarantees?

This post duplicates my Quora answer. The question is regarding distribution assumptions necessary to obtain constant time access to a hash table. Feel free to vote and comment there.

In the ideal world, you would assume that there is a distribution of keys and this would allow you to analyze an average case behavior. However, in the real world, this is extremely hard to do for two reasons: (1) it's not clear which distribution to use, (2) your math will be crazy complex if doable at all.

So, as Daniel Tunkelang noted, we make a Simple Uniform Hashing Assumption (SUHA) and blindly assume that things are going to be alright: That is, the keys will be miraculously distributed evenly among buckets. This is not the only simplifying assumption about hash functions, there are several others. For example, in the analysis of locality sensitive hashing, we assume that a hash function is randomly and independently reselected for each pair of data points (see my notes here: Does Locality Sensitive Hashing (LSH) analysis have a fatal flaw?)

Note, however, that the SUHA assumption doesn't allow you to tell anything about the worst case complexity (as noted by Mark Gritter). It allows you to establish an average-case complexity (guarantee). If you want to optimize for the worst case, you may opt to use a perfect hash function. For a prespecified set of values (from a static universe of possible hash keys), the perfect hash function always hashes different elements into different buckets. In other words, the perfect hash function is collision-free.

One catch here is that the hash function is not specified for keys outside a given domain. For example, you can hash perfectly integers from 0 to 1000, but you won't know how to deal with 1001. A Cuckoo hashing doesn't have this limitation, while still allowing to answer queries in O(1) worst case time.

Sounds good, eehh? Well, actually both the cuckoo and perfect hashing share a common disadvantage: indexing is a much more expensive procedure compared to the classic hashing scheme. AFAIK, there are only probabilistic guarantees of a success. In practice, I think it is very unlikely that you won't be able to create a hash table, but it may take you quite a while to do so.

Obviously, there are better and worse hash functions. With better hash functions, keys are distributed among buckets more or less uniformly. This is not necessarily true if your hash function is bad. In his famous book, Donald Knuth considers hash function testing in detail. Are bad functions completely useless? In my experience, this is not necessarily so (but better hash functions do lead to substantially better performance).

While even bad hash functions may be ok for many practical purposes, an adversarial selection of keys and their insertion order may cause a real performance problem. For many hash functions, a hacker who knows your hash function may select such a sequence of keys that would result in a nearly O(N) insertion time (N is the number of entries).

One solution to this problem (not yet adopted in all the mainstream languages) is randomized hashing: One may use the same hash function, but some hashing parameter will be selected randomly for each hash table that you create in your program (see, e.g., Use random hashing if you care about security? )


Subscribe to RSS - srchvrs's blog