pombredanne / simdcomp

A simple C library for compressing lists of integers

The SIMDComp library

A simple C library for compressing lists of integers using binary packing and SIMD instructions. The assumption is either that you have a list of 32-bit integers where most of them are small, or a list of 32-bit integers where differences between successive integers are small. No software is able to reliably compress an array of 32-bit random numbers.

This library can decode at least 4 billions of compressed integers per second on most desktop or laptop processors. That is, it can decompress data at a rate of 15 GB/s. This is significantly faster than generic codecs like gzip, LZO, Snappy or LZ4.

On a Skylake Intel processor, it can decode integers at a rate 0.3 cycles per integer, which can easily translate into more than 8 decoded billions integers per second.

This library is part of the Awesome C list of C ressources.

Contributors: Daniel Lemire, Nathan Kurz, Christoph Rupp, Anatol Belski, Nick White and others

What is it for?

This is a low-level library for fast integer compression. By design it does not define a compressed format. It is up to the (sophisticated) user to create a compressed format.

It is used by:

• upscaledb
• EventQL
• ManticoreSearch

Requirements

• Your processor should support SSE4.1 (It is supported by most Intel and AMD processors released since 2008.)
• It is possible to build the core part of the code if your processor support SSE2 (Pentium4 or better)
• C99 compliant compiler (GCC is assumed)
• A Linux-like distribution is assumed by the makefile

For a plain C version that does not use SIMD instructions, see https://github.com/lemire/LittleIntPacker

Usage

Compression works over blocks of 128 integers.

For a complete working example, see example.c (you can build it and run it with "make example; ./example").

1. Lists of integers in random order.

const uint32_t b = maxbits(datain);// computes bit width
simdpackwithoutmask(datain, buffer, b);//compressed to buffer, compressing 128 32-bit integers down to b*32 bytes
simdunpack(buffer, backbuffer, b);//uncompressed to backbuffer

While 128 32-bit integers are read, only b 128-bit words are written. Thus, the compression ratio is 32/b.

2. Sorted lists of integers.

We used differential coding: we store the difference between successive integers. For this purpose, we need an initial value (called offset).

uint32_t offset = 0;
uint32_t b1 = simdmaxbitsd1(offset,datain); // bit width
simdpackwithoutmaskd1(offset, datain, buffer, b1);//compressing 128 32-bit integers down to b1*32 bytes
simdunpackd1(offset, buffer, backbuffer, b1);//uncompressed

General example for arrays of arbitrary length:

int compress_decompress_demo() {
  size_t k, N = 9999;
  __m128i * endofbuf;
  uint32_t * datain = malloc(N * sizeof(uint32_t));
  uint8_t * buffer;
  uint32_t * backbuffer = malloc(N * sizeof(uint32_t));
  uint32_t b;

  for (k = 0; k < N; ++k){        /* start with k=0, not k=1! */
    datain[k] = k;
  }

  b = maxbits_length(datain, N);
  buffer = malloc(simdpack_compressedbytes(N,b)); // allocate just enough memory
  endofbuf = simdpack_length(datain, N, (__m128i *)buffer, b);
  /* compressed data is stored between buffer and endofbuf using (endofbuf-buffer)*sizeof(__m128i) bytes */
  /* would be safe to do : buffer = realloc(buffer,(endofbuf-(__m128i *)buffer)*sizeof(__m128i)); */
  simdunpack_length((const __m128i *)buffer, N, backbuffer, b);

  for (k = 0; k < N; ++k){
    if(datain[k] != backbuffer[k]) {
      printf("bug\n");
      return -1;
    }
  }
  return 0;
}

3. Frame-of-Reference

We also have frame-of-reference (FOR) functions (see simdfor.h header). They work like the bit packing routines, but do not use differential coding so they allow faster search in some cases, at the expense of compression.

Setup

make make test

and if you are daring:

make install

Go

If you are a go user, there is a "go" folder where you will find a simple demo.

Other libraries

• Fast Bitpacking algorithms: Rust port of simdcomp https://github.com/quickwit-oss/bitpacking
• SIMDCompressionAndIntersection: A C++ library to compress and intersect sorted lists of integers using SIMD instructions https://github.com/lemire/SIMDCompressionAndIntersection
• The FastPFOR C++ library : Fast integer compression https://github.com/lemire/FastPFor
• High-performance dictionary coding https://github.com/lemire/dictionary
• LittleIntPacker: C library to pack and unpack short arrays of integers as fast as possible https://github.com/lemire/LittleIntPacker
• StreamVByte: Fast integer compression in C using the StreamVByte codec https://github.com/lemire/streamvbyte
• MaskedVByte: Fast decoder for VByte-compressed integers https://github.com/lemire/MaskedVByte
• CSharpFastPFOR: A C# integer compression library https://github.com/Genbox/CSharpFastPFOR
• JavaFastPFOR: A java integer compression library https://github.com/lemire/JavaFastPFOR
• Encoding: Integer Compression Libraries for Go https://github.com/zhenjl/encoding
• FrameOfReference is a C++ library dedicated to frame-of-reference (FOR) compression: https://github.com/lemire/FrameOfReference
• libvbyte: A fast implementation for varbyte 32bit/64bit integer compression https://github.com/cruppstahl/libvbyte
• TurboPFor is a C library that offers lots of interesting optimizations. Well worth checking! (GPL license) https://github.com/powturbo/TurboPFor
• Oroch is a C++ library that offers a usable API (MIT license) https://github.com/ademakov/Oroch

Other programming languages

• There is a wrapper for Julia.
• There is a Rust port.

References

• Daniel Lemire, Nathan Kurz, Christoph Rupp, Stream VByte: Faster Byte-Oriented Integer Compression, Information Processing Letters, Information Processing Letters 130, February 2018, Pages 1-6https://arxiv.org/abs/1709.08990
• Jianguo Wang, Chunbin Lin, Yannis Papakonstantinou, Steven Swanson, An Experimental Study of Bitmap Compression vs. Inverted List Compression, SIGMOD 2017 http://db.ucsd.edu/wp-content/uploads/2017/03/sidm338-wangA.pdf
• P. Damme, D. Habich, J. Hildebrandt, W. Lehner, Lightweight Data Compression Algorithms: An Experimental Survey (Experiments and Analyses), EDBT 2017 http://openproceedings.org/2017/conf/edbt/paper-146.pdf
• P. Damme, D. Habich, J. Hildebrandt, W. Lehner, Insights into the Comparative Evaluation of Lightweight Data Compression Algorithms, EDBT 2017 http://openproceedings.org/2017/conf/edbt/paper-414.pdf
• Daniel Lemire, Leonid Boytsov, Nathan Kurz, SIMD Compression and the Intersection of Sorted Integers, Software Practice & Experience 46 (6) 2016. http://arxiv.org/abs/1401.6399
• Daniel Lemire and Leonid Boytsov, Decoding billions of integers per second through vectorization, Software Practice & Experience 45 (1), 2015. http://arxiv.org/abs/1209.2137 http://onlinelibrary.wiley.com/doi/10.1002/spe.2203/abstract
• Jeff Plaisance, Nathan Kurz, Daniel Lemire, Vectorized VByte Decoding, International Symposium on Web Algorithms 2015, 2015. http://arxiv.org/abs/1503.07387
• Wayne Xin Zhao, Xudong Zhang, Daniel Lemire, Dongdong Shan, Jian-Yun Nie, Hongfei Yan, Ji-Rong Wen, A General SIMD-based Approach to Accelerating Compression Algorithms, ACM Transactions on Information Systems 33 (3), 2015. http://arxiv.org/abs/1502.01916
• T. D. Wu, Bitpacking techniques for indexing genomes: I. Hash tables, Algorithms for Molecular Biology 11 (5), 2016. http://almob.biomedcentral.com/articles/10.1186/s13015-016-0069-5