Untitled Document: 4. Miscellanea

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# 4. Miscellanea

These are just some random thoughts of mine. Your mileage may vary.

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## 4.1 Limitations of the compressed file format

`bzip2-1.0`, `0.9.5` and `0.9.0` use exactly the same file format as the previous version, `bzip2-0.1`. This decision was made in the interests of stability. Creating yet another incompatible compressed file format would create further confusion and disruption for users.

Nevertheless, this is not a painless decision. Development work since the release of `bzip2-0.1` in August 1997 has shown complexities in the file format which slow down decompression and, in retrospect, are unnecessary. These are:

- The run-length encoder, which is the first of the compression transformations, is entirely irrelevant. The original purpose was to protect the sorting algorithm from the very worst case input: a string of repeated symbols. But algorithm steps Q6a and Q6b in the original Burrows-Wheeler technical report (SRC-124) show how repeats can be handled without difficulty in block sorting.
- The randomisation mechanism doesn't really need to be there. Udi Manber and Gene Myers published a suffix array construction algorithm a few years back, which can be employed to sort any block, no matter how repetitive, in O(N log N) time. Subsequent work by Kunihiko Sadakane has produced a derivative O(N (log N)^2) algorithm which usually outperforms the Manber-Myers algorithm.

  I could have changed to Sadakane's algorithm, but I find it to be slower than `bzip2`'s existing algorithm for most inputs, and the randomisation mechanism protects adequately against bad cases. I didn't think it was a good tradeoff to make. Partly this is due to the fact that I was not flooded with email complaints about `bzip2-0.1`'s performance on repetitive data, so perhaps it isn't a problem for real inputs.

  Probably the best long-term solution, and the one I have incorporated into 0.9.5 and above, is to use the existing sorting algorithm initially, and fall back to a O(N (log N)^2) algorithm if the standard algorithm gets into difficulties.

- The compressed file format was never designed to be handled by a library, and I have had to jump though some hoops to produce an efficient implementation of decompression. It's a bit hairy. Try passing `decompress.c` through the C preprocessor and you'll see what I mean. Much of this complexity could have been avoided if the compressed size of each block of data was recorded in the data stream.
- An Adler-32 checksum, rather than a CRC32 checksum, would be faster to compute.

It would be fair to say that the `bzip2` format was frozen before I properly and fully understood the performance consequences of doing so.

Improvements which I was able to incorporate into 0.9.0, despite using the same file format, are:

- Single array implementation of the inverse BWT. This significantly speeds up decompression, presumably because it reduces the number of cache misses.
- Faster inverse MTF transform for large MTF values. The new implementation is based on the notion of sliding blocks of values.
- `bzip2-0.9.0` now reads and writes files with `fread` and `fwrite`; version 0.1 used `putc` and `getc`. Duh! Well, you live and learn.

Further ahead, it would be nice to be able to do random access into files. This will require some careful design of compressed file formats.

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## 4.2 Portability issues

After some consideration, I have decided not to use GNU `autoconf` to configure 0.9.5 or 1.0.

`autoconf`, admirable and wonderful though it is, mainly assists with portability problems between Unix-like platforms. But `bzip2` doesn't have much in the way of portability problems on Unix; most of the difficulties appear when porting to the Mac, or to Microsoft's operating systems. `autoconf` doesn't help in those cases, and brings in a whole load of new complexity.

Most people should be able to compile the library and program under Unix straight out-of-the-box, so to speak, especially if you have a version of GNU C available.

There are a couple of `__inline__` directives in the code. GNU C (`gcc`) should be able to handle them. If you're not using GNU C, your C compiler shouldn't see them at all. If your compiler does, for some reason, see them and doesn't like them, just `#define` `__inline__` to be `/* */`. One easy way to do this is to compile with the flag `-D__inline__=`, which should be understood by most Unix compilers.

If you still have difficulties, try compiling with the macro `BZ_STRICT_ANSI` defined. This should enable you to build the library in a strictly ANSI compliant environment. Building the program itself like this is dangerous and not supported, since you remove `bzip2`'s checks against compressing directories, symbolic links, devices, and other not-really-a-file entities. This could cause filesystem corruption!

One other thing: if you create a `bzip2` binary for public distribution, please try and link it statically (`gcc -s`). This avoids all sorts of library-version issues that others may encounter later on.

If you build `bzip2` on Win32, you must set `BZ_UNIX` to 0 and `BZ_LCCWIN32` to 1, in the file `bzip2.c`, before compiling. Otherwise the resulting binary won't work correctly.

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## 4.3 Reporting bugs

I tried pretty hard to make sure `bzip2` is bug free, both by design and by testing. Hopefully you'll never need to read this section for real.

Nevertheless, if `bzip2` dies with a segmentation fault, a bus error or an internal assertion failure, it will ask you to email me a bug report. Experience with version 0.1 shows that almost all these problems can be traced to either compiler bugs or hardware problems.

- Recompile the program with no optimisation, and see if it works. And/or try a different compiler. I heard all sorts of stories about various flavours of GNU C (and other compilers) generating bad code for `bzip2`, and I've run across two such examples myself.

  2.7.X versions of GNU C are known to generate bad code from time to time, at high optimisation levels. If you get problems, try using the flags `-O2` `-fomit-frame-pointer` `-fno-strength-reduce`. You should specifically not use `-funroll-loops`.

  You may notice that the Makefile runs six tests as part of the build process. If the program passes all of these, it's a pretty good (but not 100%) indication that the compiler has done its job correctly.

- If `bzip2` crashes randomly, and the crashes are not repeatable, you may have a flaky memory subsystem. `bzip2` really hammers your memory hierarchy, and if it's a bit marginal, you may get these problems. Ditto if your disk or I/O subsystem is slowly failing. Yup, this really does happen.

  Try using a different machine of the same type, and see if you can repeat the problem.

- This isn't really a bug, but ... If `bzip2` tells you your file is corrupted on decompression, and you obtained the file via FTP, there is a possibility that you forgot to tell FTP to do a binary mode transfer. That absolutely will cause the file to be non-decompressible. You'll have to transfer it again.

If you've incorporated `libbzip2` into your own program and are getting problems, please, please, please, check that the parameters you are passing in calls to the library, are correct, and in accordance with what the documentation says is allowable. I have tried to make the library robust against such problems, but I'm sure I haven't succeeded.

Finally, if the above comments don't help, you'll have to send me a bug report. Now, it's just amazing how many people will send me a bug report saying something like

       bzip2 crashed with segmentation fault on my machine

and absolutely nothing else. Needless to say, a such a report is totally, utterly, completely and comprehensively 100% useless; a waste of your time, my time, and net bandwidth. With no details at all, there's no way I can possibly begin to figure out what the problem is.

The rules of the game are: facts, facts, facts. Don't omit them because "oh, they won't be relevant". At the bare minimum:

       Machine type.  Operating system version.
       Exact version of bzip2 (do bzip2 -V).
       Exact version of the compiler used.
       Flags passed to the compiler.

However, the most important single thing that will help me is the file that you were trying to compress or decompress at the time the problem happened. Without that, my ability to do anything more than speculate about the cause, is limited.

Please remember that I connect to the Internet with a modem, so you should contact me before mailing me huge files.

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## 4.4 Did you get the right package?

`bzip2` is a resource hog. It soaks up large amounts of CPU cycles and memory. Also, it gives very large latencies. In the worst case, you can feed many megabytes of uncompressed data into the library before getting any compressed output, so this probably rules out applications requiring interactive behaviour.

These aren't faults of my implementation, I hope, but more an intrinsic property of the Burrows-Wheeler transform (unfortunately). Maybe this isn't what you want.

If you want a compressor and/or library which is faster, uses less memory but gets pretty good compression, and has minimal latency, consider Jean-loup Gailly's and Mark Adler's work, `zlib-1.1.3` and `gzip-1.2.4`. Look for them at

`http://www.zlib.org` and `http://www.gzip.org` respectively.

For something faster and lighter still, you might try Markus F X J Oberhumer's `LZO` real-time compression/decompression library, at
`http://wildsau.idv.uni-linz.ac.at/mfx/lzo.html`.

If you want to use the `bzip2` algorithms to compress small blocks of data, 64k bytes or smaller, for example on an on-the-fly disk compressor, you'd be well advised not to use this library. Instead, I've made a special library tuned for that kind of use. It's part of `e2compr-0.40`, an on-the-fly disk compressor for the Linux `ext2` filesystem. Look at `http://www.netspace.net.au/~reiter/e2compr`.

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## 4.5 Testing

A record of the tests I've done.

First, some data sets:

- B: a directory containing 6001 files, one for every length in the range 0 to 6000 bytes. The files contain random lowercase letters. 18.7 megabytes.
- H: my home directory tree. Documents, source code, mail files, compressed data. H contains B, and also a directory of files designed as boundary cases for the sorting; mostly very repetitive, nasty files. 565 megabytes.
- A: directory tree holding various applications built from source: `egcs`, `gcc-2.8.1`, KDE, GTK, Octave, etc. 2200 megabytes.

The tests conducted are as follows. Each test means compressing (a copy of) each file in the data set, decompressing it and comparing it against the original.

First, a bunch of tests with block sizes and internal buffer sizes set very small, to detect any problems with the blocking and buffering mechanisms. This required modifying the source code so as to try to break it.

1. Data set H, with buffer size of 1 byte, and block size of 23 bytes.
2. Data set B, buffer sizes 1 byte, block size 1 byte.
3. As (2) but small-mode decompression.
4. As (2) with block size 2 bytes.
5. As (2) with block size 3 bytes.
6. As (2) with block size 4 bytes.
7. As (2) with block size 5 bytes.
8. As (2) with block size 6 bytes and small-mode decompression.
9. H with buffer size of 1 byte, but normal block size (up to 900000 bytes).

Then some tests with unmodified source code.

1. H, all settings normal.
2. As (1), with small-mode decompress.
3. H, compress with flag `-1`.
4. H, compress with flag `-s`, decompress with flag `-s`.
5. Forwards compatibility: H, `bzip2-0.1pl2` compressing, `bzip2-0.9.5` decompressing, all settings normal.
6. Backwards compatibility: H, `bzip2-0.9.5` compressing, `bzip2-0.1pl2` decompressing, all settings normal.
7. Bigger tests: A, all settings normal.
8. As (7), using the fallback (Sadakane-like) sorting algorithm.
9. As (8), compress with flag `-1`, decompress with flag `-s`.
10. H, using the fallback sorting algorithm.
11. Forwards compatibility: A, `bzip2-0.1pl2` compressing, `bzip2-0.9.5` decompressing, all settings normal.
12. Backwards compatibility: A, `bzip2-0.9.5` compressing, `bzip2-0.1pl2` decompressing, all settings normal.
13. Misc test: about 400 megabytes of `.tar` files with `bzip2` compiled with Checker (a memory access error detector, like Purify).
14. Misc tests to make sure it builds and runs ok on non-Linux/x86 platforms.

These tests were conducted on a 225 MHz IDT WinChip machine, running Linux 2.0.36. They represent nearly a week of continuous computation. All tests completed successfully.

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## 4.6 Further reading

`bzip2` is not research work, in the sense that it doesn't present any new ideas. Rather, it's an engineering exercise based on existing ideas.

Four documents describe essentially all the ideas behind `bzip2`:

    Michael Burrows and D. J. Wheeler:
      "A block-sorting lossless data compression algorithm"
       10th May 1994.
       Digital SRC Research Report 124.
       ftp://ftp.digital.com/pub/DEC/SRC/research-reports/SRC-124.ps.gz
       If you have trouble finding it, try searching at the
       New Zealand Digital Library, http://www.nzdl.org.

    Daniel S. Hirschberg and Debra A. LeLewer
      "Efficient Decoding of Prefix Codes"
       Communications of the ACM, April 1990, Vol 33, Number 4.
       You might be able to get an electronic copy of this
          from the ACM Digital Library.

    David J. Wheeler
       Program bred3.c and accompanying document bred3.ps.
       This contains the idea behind the multi-table Huffman
       coding scheme.
       ftp://ftp.cl.cam.ac.uk/users/djw3/

    Jon L. Bentley and Robert Sedgewick
      "Fast Algorithms for Sorting and Searching Strings"
       Available from Sedgewick's web page,
       www.cs.princeton.edu/~rs

The following paper gives valuable additional insights into the algorithm, but is not immediately the basis of any code used in bzip2.

    Peter Fenwick:
       Block Sorting Text Compression
       Proceedings of the 19th Australasian Computer Science Conference,
         Melbourne, Australia.  Jan 31 - Feb 2, 1996.
       ftp://ftp.cs.auckland.ac.nz/pub/peter-f/ACSC96paper.ps

Kunihiko Sadakane's sorting algorithm, mentioned above, is available from:

    http://naomi.is.s.u-tokyo.ac.jp/~sada/papers/Sada98b.ps.gz

The Manber-Myers suffix array construction algorithm is described in a paper available from:

    http://www.cs.arizona.edu/people/gene/PAPERS/suffix.ps

Finally, the following paper documents some recent investigations I made into the performance of sorting algorithms:

    Julian Seward:
       On the Performance of BWT Sorting Algorithms
       Proceedings of the IEEE Data Compression Conference 2000
         Snowbird, Utah.  28-30 March 2000.

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