aa8901e9bb
Reviewed-on: https://go-review.googlesource.com/c/gofrontend/+/193497 From-SVN: r275473
900 lines
32 KiB
Go
900 lines
32 KiB
Go
// Copyright 2019 The Go Authors. All rights reserved.
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// Use of this source code is governed by a BSD-style
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// license that can be found in the LICENSE file.
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// Suffix array construction by induced sorting (SAIS).
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// See Ge Nong, Sen Zhang, and Wai Hong Chen,
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// "Two Efficient Algorithms for Linear Time Suffix Array Construction",
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// especially section 3 (https://ieeexplore.ieee.org/document/5582081).
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// See also http://zork.net/~st/jottings/sais.html.
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//
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// With optimizations inspired by Yuta Mori's sais-lite
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// (https://sites.google.com/site/yuta256/sais).
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//
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// And with other new optimizations.
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// Many of these functions are parameterized by the sizes of
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// the types they operate on. The generator gen.go makes
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// copies of these functions for use with other sizes.
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// Specifically:
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//
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// - A function with a name ending in _8_32 takes []byte and []int32 arguments
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// and is duplicated into _32_32, _8_64, and _64_64 forms.
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// The _32_32 and _64_64_ suffixes are shortened to plain _32 and _64.
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// Any lines in the function body that contain the text "byte-only" or "256"
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// are stripped when creating _32_32 and _64_64 forms.
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// (Those lines are typically 8-bit-specific optimizations.)
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//
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// - A function with a name ending only in _32 operates on []int32
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// and is duplicated into a _64 form. (Note that it may still take a []byte,
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// but there is no need for a version of the function in which the []byte
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// is widened to a full integer array.)
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// The overall runtime of this code is linear in the input size:
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// it runs a sequence of linear passes to reduce the problem to
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// a subproblem at most half as big, invokes itself recursively,
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// and then runs a sequence of linear passes to turn the answer
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// for the subproblem into the answer for the original problem.
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// This gives T(N) = O(N) + T(N/2) = O(N) + O(N/2) + O(N/4) + ... = O(N).
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//
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// The outline of the code, with the forward and backward scans
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// through O(N)-sized arrays called out, is:
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//
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// sais_I_N
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// placeLMS_I_B
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// bucketMax_I_B
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// freq_I_B
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// <scan +text> (1)
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// <scan +freq> (2)
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// <scan -text, random bucket> (3)
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// induceSubL_I_B
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// bucketMin_I_B
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// freq_I_B
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// <scan +text, often optimized away> (4)
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// <scan +freq> (5)
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// <scan +sa, random text, random bucket> (6)
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// induceSubS_I_B
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// bucketMax_I_B
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// freq_I_B
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// <scan +text, often optimized away> (7)
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// <scan +freq> (8)
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// <scan -sa, random text, random bucket> (9)
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// assignID_I_B
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// <scan +sa, random text substrings> (10)
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// map_B
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// <scan -sa> (11)
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// recurse_B
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// (recursive call to sais_B_B for a subproblem of size at most 1/2 input, often much smaller)
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// unmap_I_B
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// <scan -text> (12)
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// <scan +sa> (13)
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// expand_I_B
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// bucketMax_I_B
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// freq_I_B
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// <scan +text, often optimized away> (14)
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// <scan +freq> (15)
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// <scan -sa, random text, random bucket> (16)
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// induceL_I_B
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// bucketMin_I_B
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// freq_I_B
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// <scan +text, often optimized away> (17)
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// <scan +freq> (18)
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// <scan +sa, random text, random bucket> (19)
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// induceS_I_B
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// bucketMax_I_B
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// freq_I_B
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// <scan +text, often optimized away> (20)
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// <scan +freq> (21)
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// <scan -sa, random text, random bucket> (22)
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//
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// Here, _B indicates the suffix array size (_32 or _64) and _I the input size (_8 or _B).
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//
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// The outline shows there are in general 22 scans through
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// O(N)-sized arrays for a given level of the recursion.
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// In the top level, operating on 8-bit input text,
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// the six freq scans are fixed size (256) instead of potentially
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// input-sized. Also, the frequency is counted once and cached
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// whenever there is room to do so (there is nearly always room in general,
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// and always room at the top level), which eliminates all but
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// the first freq_I_B text scans (that is, 5 of the 6).
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// So the top level of the recursion only does 22 - 6 - 5 = 11
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// input-sized scans and a typical level does 16 scans.
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//
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// The linear scans do not cost anywhere near as much as
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// the random accesses to the text made during a few of
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// the scans (specifically #6, #9, #16, #19, #22 marked above).
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// In real texts, there is not much but some locality to
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// the accesses, due to the repetitive structure of the text
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// (the same reason Burrows-Wheeler compression is so effective).
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// For random inputs, there is no locality, which makes those
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// accesses even more expensive, especially once the text
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// no longer fits in cache.
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// For example, running on 50 MB of Go source code, induceSubL_8_32
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// (which runs only once, at the top level of the recursion)
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// takes 0.44s, while on 50 MB of random input, it takes 2.55s.
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// Nearly all the relative slowdown is explained by the text access:
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//
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// c0, c1 := text[k-1], text[k]
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//
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// That line runs for 0.23s on the Go text and 2.02s on random text.
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//go:generate go run gen.go
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package suffixarray
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// text_32 returns the suffix array for the input text.
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// It requires that len(text) fit in an int32
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// and that the caller zero sa.
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func text_32(text []byte, sa []int32) {
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if int(int32(len(text))) != len(text) || len(text) != len(sa) {
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panic("suffixarray: misuse of text_32")
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}
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sais_8_32(text, 256, sa, make([]int32, 2*256))
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}
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// sais_8_32 computes the suffix array of text.
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// The text must contain only values in [0, textMax).
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// The suffix array is stored in sa, which the caller
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// must ensure is already zeroed.
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// The caller must also provide temporary space tmp
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// with len(tmp) ≥ textMax. If len(tmp) ≥ 2*textMax
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// then the algorithm runs a little faster.
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// If sais_8_32 modifies tmp, it sets tmp[0] = -1 on return.
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func sais_8_32(text []byte, textMax int, sa, tmp []int32) {
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if len(sa) != len(text) || len(tmp) < int(textMax) {
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panic("suffixarray: misuse of sais_8_32")
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}
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// Trivial base cases. Sorting 0 or 1 things is easy.
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if len(text) == 0 {
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return
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}
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if len(text) == 1 {
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sa[0] = 0
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return
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}
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// Establish slices indexed by text character
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// holding character frequency and bucket-sort offsets.
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// If there's only enough tmp for one slice,
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// we make it the bucket offsets and recompute
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// the character frequency each time we need it.
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var freq, bucket []int32
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if len(tmp) >= 2*textMax {
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freq, bucket = tmp[:textMax], tmp[textMax:2*textMax]
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freq[0] = -1 // mark as uninitialized
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} else {
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freq, bucket = nil, tmp[:textMax]
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}
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// The SAIS algorithm.
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// Each of these calls makes one scan through sa.
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// See the individual functions for documentation
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// about each's role in the algorithm.
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numLMS := placeLMS_8_32(text, sa, freq, bucket)
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if numLMS <= 1 {
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// 0 or 1 items are already sorted. Do nothing.
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} else {
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induceSubL_8_32(text, sa, freq, bucket)
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induceSubS_8_32(text, sa, freq, bucket)
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length_8_32(text, sa, numLMS)
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maxID := assignID_8_32(text, sa, numLMS)
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if maxID < numLMS {
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map_32(sa, numLMS)
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recurse_32(sa, tmp, numLMS, maxID)
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unmap_8_32(text, sa, numLMS)
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} else {
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// If maxID == numLMS, then each LMS-substring
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// is unique, so the relative ordering of two LMS-suffixes
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// is determined by just the leading LMS-substring.
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// That is, the LMS-suffix sort order matches the
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// (simpler) LMS-substring sort order.
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// Copy the original LMS-substring order into the
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// suffix array destination.
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copy(sa, sa[len(sa)-numLMS:])
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}
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expand_8_32(text, freq, bucket, sa, numLMS)
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}
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induceL_8_32(text, sa, freq, bucket)
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induceS_8_32(text, sa, freq, bucket)
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// Mark for caller that we overwrote tmp.
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tmp[0] = -1
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}
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// freq_8_32 returns the character frequencies
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// for text, as a slice indexed by character value.
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// If freq is nil, freq_8_32 uses and returns bucket.
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// If freq is non-nil, freq_8_32 assumes that freq[0] >= 0
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// means the frequencies are already computed.
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// If the frequency data is overwritten or uninitialized,
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// the caller must set freq[0] = -1 to force recomputation
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// the next time it is needed.
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func freq_8_32(text []byte, freq, bucket []int32) []int32 {
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if freq != nil && freq[0] >= 0 {
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return freq // already computed
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}
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if freq == nil {
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freq = bucket
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}
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freq = freq[:256] // eliminate bounds check for freq[c] below
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for i := range freq {
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freq[i] = 0
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}
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for _, c := range text {
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freq[c]++
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}
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return freq
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}
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// bucketMin_8_32 stores into bucket[c] the minimum index
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// in the bucket for character c in a bucket-sort of text.
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func bucketMin_8_32(text []byte, freq, bucket []int32) {
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freq = freq_8_32(text, freq, bucket)
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freq = freq[:256] // establish len(freq) = 256, so 0 ≤ i < 256 below
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bucket = bucket[:256] // eliminate bounds check for bucket[i] below
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total := int32(0)
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for i, n := range freq {
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bucket[i] = total
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total += n
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}
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}
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// bucketMax_8_32 stores into bucket[c] the maximum index
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// in the bucket for character c in a bucket-sort of text.
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// The bucket indexes for c are [min, max).
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// That is, max is one past the final index in that bucket.
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func bucketMax_8_32(text []byte, freq, bucket []int32) {
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freq = freq_8_32(text, freq, bucket)
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freq = freq[:256] // establish len(freq) = 256, so 0 ≤ i < 256 below
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bucket = bucket[:256] // eliminate bounds check for bucket[i] below
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total := int32(0)
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for i, n := range freq {
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total += n
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bucket[i] = total
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}
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}
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// The SAIS algorithm proceeds in a sequence of scans through sa.
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// Each of the following functions implements one scan,
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// and the functions appear here in the order they execute in the algorithm.
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// placeLMS_8_32 places into sa the indexes of the
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// final characters of the LMS substrings of text,
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// sorted into the rightmost ends of their correct buckets
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// in the suffix array.
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//
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// The imaginary sentinel character at the end of the text
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// is the final character of the final LMS substring, but there
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// is no bucket for the imaginary sentinel character,
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// which has a smaller value than any real character.
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// The caller must therefore pretend that sa[-1] == len(text).
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//
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// The text indexes of LMS-substring characters are always ≥ 1
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// (the first LMS-substring must be preceded by one or more L-type
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// characters that are not part of any LMS-substring),
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// so using 0 as a “not present” suffix array entry is safe,
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// both in this function and in most later functions
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// (until induceL_8_32 below).
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func placeLMS_8_32(text []byte, sa, freq, bucket []int32) int {
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bucketMax_8_32(text, freq, bucket)
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numLMS := 0
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lastB := int32(-1)
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bucket = bucket[:256] // eliminate bounds check for bucket[c1] below
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// The next stanza of code (until the blank line) loop backward
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// over text, stopping to execute a code body at each position i
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// such that text[i] is an L-character and text[i+1] is an S-character.
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// That is, i+1 is the position of the start of an LMS-substring.
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// These could be hoisted out into a function with a callback,
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// but at a significant speed cost. Instead, we just write these
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// seven lines a few times in this source file. The copies below
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// refer back to the pattern established by this original as the
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// "LMS-substring iterator".
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//
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// In every scan through the text, c0, c1 are successive characters of text.
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// In this backward scan, c0 == text[i] and c1 == text[i+1].
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// By scanning backward, we can keep track of whether the current
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// position is type-S or type-L according to the usual definition:
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//
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// - position len(text) is type S with text[len(text)] == -1 (the sentinel)
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// - position i is type S if text[i] < text[i+1], or if text[i] == text[i+1] && i+1 is type S.
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// - position i is type L if text[i] > text[i+1], or if text[i] == text[i+1] && i+1 is type L.
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//
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// The backward scan lets us maintain the current type,
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// update it when we see c0 != c1, and otherwise leave it alone.
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// We want to identify all S positions with a preceding L.
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// Position len(text) is one such position by definition, but we have
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// nowhere to write it down, so we eliminate it by untruthfully
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// setting isTypeS = false at the start of the loop.
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c0, c1, isTypeS := byte(0), byte(0), false
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for i := len(text) - 1; i >= 0; i-- {
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c0, c1 = text[i], c0
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if c0 < c1 {
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isTypeS = true
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} else if c0 > c1 && isTypeS {
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isTypeS = false
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// Bucket the index i+1 for the start of an LMS-substring.
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b := bucket[c1] - 1
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bucket[c1] = b
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sa[b] = int32(i + 1)
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lastB = b
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numLMS++
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}
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}
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// We recorded the LMS-substring starts but really want the ends.
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// Luckily, with two differences, the start indexes and the end indexes are the same.
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// The first difference is that the rightmost LMS-substring's end index is len(text),
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// so the caller must pretend that sa[-1] == len(text), as noted above.
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// The second difference is that the first leftmost LMS-substring start index
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// does not end an earlier LMS-substring, so as an optimization we can omit
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// that leftmost LMS-substring start index (the last one we wrote).
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//
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// Exception: if numLMS <= 1, the caller is not going to bother with
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// the recursion at all and will treat the result as containing LMS-substring starts.
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// In that case, we don't remove the final entry.
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if numLMS > 1 {
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sa[lastB] = 0
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}
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return numLMS
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}
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// induceSubL_8_32 inserts the L-type text indexes of LMS-substrings
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// into sa, assuming that the final characters of the LMS-substrings
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// are already inserted into sa, sorted by final character, and at the
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// right (not left) end of the corresponding character bucket.
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// Each LMS-substring has the form (as a regexp) /S+L+S/:
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// one or more S-type, one or more L-type, final S-type.
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// induceSubL_8_32 leaves behind only the leftmost L-type text
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// index for each LMS-substring. That is, it removes the final S-type
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// indexes that are present on entry, and it inserts but then removes
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// the interior L-type indexes too.
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// (Only the leftmost L-type index is needed by induceSubS_8_32.)
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func induceSubL_8_32(text []byte, sa, freq, bucket []int32) {
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// Initialize positions for left side of character buckets.
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bucketMin_8_32(text, freq, bucket)
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bucket = bucket[:256] // eliminate bounds check for bucket[cB] below
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// As we scan the array left-to-right, each sa[i] = j > 0 is a correctly
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// sorted suffix array entry (for text[j:]) for which we know that j-1 is type L.
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// Because j-1 is type L, inserting it into sa now will sort it correctly.
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// But we want to distinguish a j-1 with j-2 of type L from type S.
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// We can process the former but want to leave the latter for the caller.
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// We record the difference by negating j-1 if it is preceded by type S.
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// Either way, the insertion (into the text[j-1] bucket) is guaranteed to
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// happen at sa[i´] for some i´ > i, that is, in the portion of sa we have
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// yet to scan. A single pass therefore sees indexes j, j-1, j-2, j-3,
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// and so on, in sorted but not necessarily adjacent order, until it finds
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// one preceded by an index of type S, at which point it must stop.
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//
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// As we scan through the array, we clear the worked entries (sa[i] > 0) to zero,
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// and we flip sa[i] < 0 to -sa[i], so that the loop finishes with sa containing
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// only the indexes of the leftmost L-type indexes for each LMS-substring.
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//
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// The suffix array sa therefore serves simultaneously as input, output,
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// and a miraculously well-tailored work queue.
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// placeLMS_8_32 left out the implicit entry sa[-1] == len(text),
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// corresponding to the identified type-L index len(text)-1.
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// Process it before the left-to-right scan of sa proper.
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// See body in loop for commentary.
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k := len(text) - 1
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c0, c1 := text[k-1], text[k]
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if c0 < c1 {
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k = -k
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}
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// Cache recently used bucket index:
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// we're processing suffixes in sorted order
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// and accessing buckets indexed by the
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// byte before the sorted order, which still
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// has very good locality.
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// Invariant: b is cached, possibly dirty copy of bucket[cB].
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cB := c1
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b := bucket[cB]
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sa[b] = int32(k)
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b++
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for i := 0; i < len(sa); i++ {
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j := int(sa[i])
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if j == 0 {
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// Skip empty entry.
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continue
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}
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if j < 0 {
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// Leave discovered type-S index for caller.
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sa[i] = int32(-j)
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continue
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}
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sa[i] = 0
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// Index j was on work queue, meaning k := j-1 is L-type,
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// so we can now place k correctly into sa.
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// If k-1 is L-type, queue k for processing later in this loop.
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// If k-1 is S-type (text[k-1] < text[k]), queue -k to save for the caller.
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k := j - 1
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c0, c1 := text[k-1], text[k]
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if c0 < c1 {
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k = -k
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}
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if cB != c1 {
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bucket[cB] = b
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cB = c1
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b = bucket[cB]
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}
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sa[b] = int32(k)
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b++
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}
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}
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||
|
||
// induceSubS_8_32 inserts the S-type text indexes of LMS-substrings
|
||
// into sa, assuming that the leftmost L-type text indexes are already
|
||
// inserted into sa, sorted by LMS-substring suffix, and at the
|
||
// left end of the corresponding character bucket.
|
||
// Each LMS-substring has the form (as a regexp) /S+L+S/:
|
||
// one or more S-type, one or more L-type, final S-type.
|
||
// induceSubS_8_32 leaves behind only the leftmost S-type text
|
||
// index for each LMS-substring, in sorted order, at the right end of sa.
|
||
// That is, it removes the L-type indexes that are present on entry,
|
||
// and it inserts but then removes the interior S-type indexes too,
|
||
// leaving the LMS-substring start indexes packed into sa[len(sa)-numLMS:].
|
||
// (Only the LMS-substring start indexes are processed by the recursion.)
|
||
func induceSubS_8_32(text []byte, sa, freq, bucket []int32) {
|
||
// Initialize positions for right side of character buckets.
|
||
bucketMax_8_32(text, freq, bucket)
|
||
bucket = bucket[:256] // eliminate bounds check for bucket[cB] below
|
||
|
||
// Analogous to induceSubL_8_32 above,
|
||
// as we scan the array right-to-left, each sa[i] = j > 0 is a correctly
|
||
// sorted suffix array entry (for text[j:]) for which we know that j-1 is type S.
|
||
// Because j-1 is type S, inserting it into sa now will sort it correctly.
|
||
// But we want to distinguish a j-1 with j-2 of type S from type L.
|
||
// We can process the former but want to leave the latter for the caller.
|
||
// We record the difference by negating j-1 if it is preceded by type L.
|
||
// Either way, the insertion (into the text[j-1] bucket) is guaranteed to
|
||
// happen at sa[i´] for some i´ < i, that is, in the portion of sa we have
|
||
// yet to scan. A single pass therefore sees indexes j, j-1, j-2, j-3,
|
||
// and so on, in sorted but not necessarily adjacent order, until it finds
|
||
// one preceded by an index of type L, at which point it must stop.
|
||
// That index (preceded by one of type L) is an LMS-substring start.
|
||
//
|
||
// As we scan through the array, we clear the worked entries (sa[i] > 0) to zero,
|
||
// and we flip sa[i] < 0 to -sa[i] and compact into the top of sa,
|
||
// so that the loop finishes with the top of sa containing exactly
|
||
// the LMS-substring start indexes, sorted by LMS-substring.
|
||
|
||
// Cache recently used bucket index:
|
||
cB := byte(0)
|
||
b := bucket[cB]
|
||
|
||
top := len(sa)
|
||
for i := len(sa) - 1; i >= 0; i-- {
|
||
j := int(sa[i])
|
||
if j == 0 {
|
||
// Skip empty entry.
|
||
continue
|
||
}
|
||
sa[i] = 0
|
||
if j < 0 {
|
||
// Leave discovered LMS-substring start index for caller.
|
||
top--
|
||
sa[top] = int32(-j)
|
||
continue
|
||
}
|
||
|
||
// Index j was on work queue, meaning k := j-1 is S-type,
|
||
// so we can now place k correctly into sa.
|
||
// If k-1 is S-type, queue k for processing later in this loop.
|
||
// If k-1 is L-type (text[k-1] > text[k]), queue -k to save for the caller.
|
||
k := j - 1
|
||
c1 := text[k]
|
||
c0 := text[k-1]
|
||
if c0 > c1 {
|
||
k = -k
|
||
}
|
||
|
||
if cB != c1 {
|
||
bucket[cB] = b
|
||
cB = c1
|
||
b = bucket[cB]
|
||
}
|
||
b--
|
||
sa[b] = int32(k)
|
||
}
|
||
}
|
||
|
||
// length_8_32 computes and records the length of each LMS-substring in text.
|
||
// The length of the LMS-substring at index j is stored at sa[j/2],
|
||
// avoiding the LMS-substring indexes already stored in the top half of sa.
|
||
// (If index j is an LMS-substring start, then index j-1 is type L and cannot be.)
|
||
// There are two exceptions, made for optimizations in name_8_32 below.
|
||
//
|
||
// First, the final LMS-substring is recorded as having length 0, which is otherwise
|
||
// impossible, instead of giving it a length that includes the implicit sentinel.
|
||
// This ensures the final LMS-substring has length unequal to all others
|
||
// and therefore can be detected as different without text comparison
|
||
// (it is unequal because it is the only one that ends in the implicit sentinel,
|
||
// and the text comparison would be problematic since the implicit sentinel
|
||
// is not actually present at text[len(text)]).
|
||
//
|
||
// Second, to avoid text comparison entirely, if an LMS-substring is very short,
|
||
// sa[j/2] records its actual text instead of its length, so that if two such
|
||
// substrings have matching “length,” the text need not be read at all.
|
||
// The definition of “very short” is that the text bytes must pack into an uint32,
|
||
// and the unsigned encoding e must be ≥ len(text), so that it can be
|
||
// distinguished from a valid length.
|
||
func length_8_32(text []byte, sa []int32, numLMS int) {
|
||
end := 0 // index of current LMS-substring end (0 indicates final LMS-substring)
|
||
|
||
// The encoding of N text bytes into a “length” word
|
||
// adds 1 to each byte, packs them into the bottom
|
||
// N*8 bits of a word, and then bitwise inverts the result.
|
||
// That is, the text sequence A B C (hex 41 42 43)
|
||
// encodes as ^uint32(0x42_43_44).
|
||
// LMS-substrings can never start or end with 0xFF.
|
||
// Adding 1 ensures the encoded byte sequence never
|
||
// starts or ends with 0x00, so that present bytes can be
|
||
// distinguished from zero-padding in the top bits,
|
||
// so the length need not be separately encoded.
|
||
// Inverting the bytes increases the chance that a
|
||
// 4-byte encoding will still be ≥ len(text).
|
||
// In particular, if the first byte is ASCII (<= 0x7E, so +1 <= 0x7F)
|
||
// then the high bit of the inversion will be set,
|
||
// making it clearly not a valid length (it would be a negative one).
|
||
//
|
||
// cx holds the pre-inverted encoding (the packed incremented bytes).
|
||
cx := uint32(0) // byte-only
|
||
|
||
// This stanza (until the blank line) is the "LMS-substring iterator",
|
||
// described in placeLMS_8_32 above, with one line added to maintain cx.
|
||
c0, c1, isTypeS := byte(0), byte(0), false
|
||
for i := len(text) - 1; i >= 0; i-- {
|
||
c0, c1 = text[i], c0
|
||
cx = cx<<8 | uint32(c1+1) // byte-only
|
||
if c0 < c1 {
|
||
isTypeS = true
|
||
} else if c0 > c1 && isTypeS {
|
||
isTypeS = false
|
||
|
||
// Index j = i+1 is the start of an LMS-substring.
|
||
// Compute length or encoded text to store in sa[j/2].
|
||
j := i + 1
|
||
var code int32
|
||
if end == 0 {
|
||
code = 0
|
||
} else {
|
||
code = int32(end - j)
|
||
if code <= 32/8 && ^cx >= uint32(len(text)) { // byte-only
|
||
code = int32(^cx) // byte-only
|
||
} // byte-only
|
||
}
|
||
sa[j>>1] = code
|
||
end = j + 1
|
||
cx = uint32(c1 + 1) // byte-only
|
||
}
|
||
}
|
||
}
|
||
|
||
// assignID_8_32 assigns a dense ID numbering to the
|
||
// set of LMS-substrings respecting string ordering and equality,
|
||
// returning the maximum assigned ID.
|
||
// For example given the input "ababab", the LMS-substrings
|
||
// are "aba", "aba", and "ab", renumbered as 2 2 1.
|
||
// sa[len(sa)-numLMS:] holds the LMS-substring indexes
|
||
// sorted in string order, so to assign numbers we can
|
||
// consider each in turn, removing adjacent duplicates.
|
||
// The new ID for the LMS-substring at index j is written to sa[j/2],
|
||
// overwriting the length previously stored there (by length_8_32 above).
|
||
func assignID_8_32(text []byte, sa []int32, numLMS int) int {
|
||
id := 0
|
||
lastLen := int32(-1) // impossible
|
||
lastPos := int32(0)
|
||
for _, j := range sa[len(sa)-numLMS:] {
|
||
// Is the LMS-substring at index j new, or is it the same as the last one we saw?
|
||
n := sa[j/2]
|
||
if n != lastLen {
|
||
goto New
|
||
}
|
||
if uint32(n) >= uint32(len(text)) {
|
||
// “Length” is really encoded full text, and they match.
|
||
goto Same
|
||
}
|
||
{
|
||
// Compare actual texts.
|
||
n := int(n)
|
||
this := text[j:][:n]
|
||
last := text[lastPos:][:n]
|
||
for i := 0; i < n; i++ {
|
||
if this[i] != last[i] {
|
||
goto New
|
||
}
|
||
}
|
||
goto Same
|
||
}
|
||
New:
|
||
id++
|
||
lastPos = j
|
||
lastLen = n
|
||
Same:
|
||
sa[j/2] = int32(id)
|
||
}
|
||
return id
|
||
}
|
||
|
||
// map_32 maps the LMS-substrings in text to their new IDs,
|
||
// producing the subproblem for the recursion.
|
||
// The mapping itself was mostly applied by assignID_8_32:
|
||
// sa[i] is either 0, the ID for the LMS-substring at index 2*i,
|
||
// or the ID for the LMS-substring at index 2*i+1.
|
||
// To produce the subproblem we need only remove the zeros
|
||
// and change ID into ID-1 (our IDs start at 1, but text chars start at 0).
|
||
//
|
||
// map_32 packs the result, which is the input to the recursion,
|
||
// into the top of sa, so that the recursion result can be stored
|
||
// in the bottom of sa, which sets up for expand_8_32 well.
|
||
func map_32(sa []int32, numLMS int) {
|
||
w := len(sa)
|
||
for i := len(sa) / 2; i >= 0; i-- {
|
||
j := sa[i]
|
||
if j > 0 {
|
||
w--
|
||
sa[w] = j - 1
|
||
}
|
||
}
|
||
}
|
||
|
||
// recurse_32 calls sais_32 recursively to solve the subproblem we've built.
|
||
// The subproblem is at the right end of sa, the suffix array result will be
|
||
// written at the left end of sa, and the middle of sa is available for use as
|
||
// temporary frequency and bucket storage.
|
||
func recurse_32(sa, oldTmp []int32, numLMS, maxID int) {
|
||
dst, saTmp, text := sa[:numLMS], sa[numLMS:len(sa)-numLMS], sa[len(sa)-numLMS:]
|
||
|
||
// Set up temporary space for recursive call.
|
||
// We must pass sais_32 a tmp buffer wiith at least maxID entries.
|
||
//
|
||
// The subproblem is guaranteed to have length at most len(sa)/2,
|
||
// so that sa can hold both the subproblem and its suffix array.
|
||
// Nearly all the time, however, the subproblem has length < len(sa)/3,
|
||
// in which case there is a subproblem-sized middle of sa that
|
||
// we can reuse for temporary space (saTmp).
|
||
// When recurse_32 is called from sais_8_32, oldTmp is length 512
|
||
// (from text_32), and saTmp will typically be much larger, so we'll use saTmp.
|
||
// When deeper recursions come back to recurse_32, now oldTmp is
|
||
// the saTmp from the top-most recursion, it is typically larger than
|
||
// the current saTmp (because the current sa gets smaller and smaller
|
||
// as the recursion gets deeper), and we keep reusing that top-most
|
||
// large saTmp instead of the offered smaller ones.
|
||
//
|
||
// Why is the subproblem length so often just under len(sa)/3?
|
||
// See Nong, Zhang, and Chen, section 3.6 for a plausible explanation.
|
||
// In brief, the len(sa)/2 case would correspond to an SLSLSLSLSLSL pattern
|
||
// in the input, perfect alternation of larger and smaller input bytes.
|
||
// Real text doesn't do that. If each L-type index is randomly followed
|
||
// by either an L-type or S-type index, then half the substrings will
|
||
// be of the form SLS, but the other half will be longer. Of that half,
|
||
// half (a quarter overall) will be SLLS; an eighth will be SLLLS, and so on.
|
||
// Not counting the final S in each (which overlaps the first S in the next),
|
||
// This works out to an average length 2×½ + 3×¼ + 4×⅛ + ... = 3.
|
||
// The space we need is further reduced by the fact that many of the
|
||
// short patterns like SLS will often be the same character sequences
|
||
// repeated throughout the text, reducing maxID relative to numLMS.
|
||
//
|
||
// For short inputs, the averages may not run in our favor, but then we
|
||
// can often fall back to using the length-512 tmp available in the
|
||
// top-most call. (Also a short allocation would not be a big deal.)
|
||
//
|
||
// For pathological inputs, we fall back to allocating a new tmp of length
|
||
// max(maxID, numLMS/2). This level of the recursion needs maxID,
|
||
// and all deeper levels of the recursion will need no more than numLMS/2,
|
||
// so this one allocation is guaranteed to suffice for the entire stack
|
||
// of recursive calls.
|
||
tmp := oldTmp
|
||
if len(tmp) < len(saTmp) {
|
||
tmp = saTmp
|
||
}
|
||
if len(tmp) < numLMS {
|
||
// TestSAIS/forcealloc reaches this code.
|
||
n := maxID
|
||
if n < numLMS/2 {
|
||
n = numLMS / 2
|
||
}
|
||
tmp = make([]int32, n)
|
||
}
|
||
|
||
// sais_32 requires that the caller arrange to clear dst,
|
||
// because in general the caller may know dst is
|
||
// freshly-allocated and already cleared. But this one is not.
|
||
for i := range dst {
|
||
dst[i] = 0
|
||
}
|
||
sais_32(text, maxID, dst, tmp)
|
||
}
|
||
|
||
// unmap_8_32 unmaps the subproblem back to the original.
|
||
// sa[:numLMS] is the LMS-substring numbers, which don't matter much anymore.
|
||
// sa[len(sa)-numLMS:] is the sorted list of those LMS-substring numbers.
|
||
// The key part is that if the list says K that means the K'th substring.
|
||
// We can replace sa[:numLMS] with the indexes of the LMS-substrings.
|
||
// Then if the list says K it really means sa[K].
|
||
// Having mapped the list back to LMS-substring indexes,
|
||
// we can place those into the right buckets.
|
||
func unmap_8_32(text []byte, sa []int32, numLMS int) {
|
||
unmap := sa[len(sa)-numLMS:]
|
||
j := len(unmap)
|
||
|
||
// "LMS-substring iterator" (see placeLMS_8_32 above).
|
||
c0, c1, isTypeS := byte(0), byte(0), false
|
||
for i := len(text) - 1; i >= 0; i-- {
|
||
c0, c1 = text[i], c0
|
||
if c0 < c1 {
|
||
isTypeS = true
|
||
} else if c0 > c1 && isTypeS {
|
||
isTypeS = false
|
||
|
||
// Populate inverse map.
|
||
j--
|
||
unmap[j] = int32(i + 1)
|
||
}
|
||
}
|
||
|
||
// Apply inverse map to subproblem suffix array.
|
||
sa = sa[:numLMS]
|
||
for i := 0; i < len(sa); i++ {
|
||
sa[i] = unmap[sa[i]]
|
||
}
|
||
}
|
||
|
||
// expand_8_32 distributes the compacted, sorted LMS-suffix indexes
|
||
// from sa[:numLMS] into the tops of the appropriate buckets in sa,
|
||
// preserving the sorted order and making room for the L-type indexes
|
||
// to be slotted into the sorted sequence by induceL_8_32.
|
||
func expand_8_32(text []byte, freq, bucket, sa []int32, numLMS int) {
|
||
bucketMax_8_32(text, freq, bucket)
|
||
bucket = bucket[:256] // eliminate bound check for bucket[c] below
|
||
|
||
// Loop backward through sa, always tracking
|
||
// the next index to populate from sa[:numLMS].
|
||
// When we get to one, populate it.
|
||
// Zero the rest of the slots; they have dead values in them.
|
||
x := numLMS - 1
|
||
saX := sa[x]
|
||
c := text[saX]
|
||
b := bucket[c] - 1
|
||
bucket[c] = b
|
||
|
||
for i := len(sa) - 1; i >= 0; i-- {
|
||
if i != int(b) {
|
||
sa[i] = 0
|
||
continue
|
||
}
|
||
sa[i] = saX
|
||
|
||
// Load next entry to put down (if any).
|
||
if x > 0 {
|
||
x--
|
||
saX = sa[x] // TODO bounds check
|
||
c = text[saX]
|
||
b = bucket[c] - 1
|
||
bucket[c] = b
|
||
}
|
||
}
|
||
}
|
||
|
||
// induceL_8_32 inserts L-type text indexes into sa,
|
||
// assuming that the leftmost S-type indexes are inserted
|
||
// into sa, in sorted order, in the right bucket halves.
|
||
// It leaves all the L-type indexes in sa, but the
|
||
// leftmost L-type indexes are negated, to mark them
|
||
// for processing by induceS_8_32.
|
||
func induceL_8_32(text []byte, sa, freq, bucket []int32) {
|
||
// Initialize positions for left side of character buckets.
|
||
bucketMin_8_32(text, freq, bucket)
|
||
bucket = bucket[:256] // eliminate bounds check for bucket[cB] below
|
||
|
||
// This scan is similar to the one in induceSubL_8_32 above.
|
||
// That one arranges to clear all but the leftmost L-type indexes.
|
||
// This scan leaves all the L-type indexes and the original S-type
|
||
// indexes, but it negates the positive leftmost L-type indexes
|
||
// (the ones that induceS_8_32 needs to process).
|
||
|
||
// expand_8_32 left out the implicit entry sa[-1] == len(text),
|
||
// corresponding to the identified type-L index len(text)-1.
|
||
// Process it before the left-to-right scan of sa proper.
|
||
// See body in loop for commentary.
|
||
k := len(text) - 1
|
||
c0, c1 := text[k-1], text[k]
|
||
if c0 < c1 {
|
||
k = -k
|
||
}
|
||
|
||
// Cache recently used bucket index.
|
||
cB := c1
|
||
b := bucket[cB]
|
||
sa[b] = int32(k)
|
||
b++
|
||
|
||
for i := 0; i < len(sa); i++ {
|
||
j := int(sa[i])
|
||
if j <= 0 {
|
||
// Skip empty or negated entry (including negated zero).
|
||
continue
|
||
}
|
||
|
||
// Index j was on work queue, meaning k := j-1 is L-type,
|
||
// so we can now place k correctly into sa.
|
||
// If k-1 is L-type, queue k for processing later in this loop.
|
||
// If k-1 is S-type (text[k-1] < text[k]), queue -k to save for the caller.
|
||
// If k is zero, k-1 doesn't exist, so we only need to leave it
|
||
// for the caller. The caller can't tell the difference between
|
||
// an empty slot and a non-empty zero, but there's no need
|
||
// to distinguish them anyway: the final suffix array will end up
|
||
// with one zero somewhere, and that will be a real zero.
|
||
k := j - 1
|
||
c1 := text[k]
|
||
if k > 0 {
|
||
if c0 := text[k-1]; c0 < c1 {
|
||
k = -k
|
||
}
|
||
}
|
||
|
||
if cB != c1 {
|
||
bucket[cB] = b
|
||
cB = c1
|
||
b = bucket[cB]
|
||
}
|
||
sa[b] = int32(k)
|
||
b++
|
||
}
|
||
}
|
||
|
||
func induceS_8_32(text []byte, sa, freq, bucket []int32) {
|
||
// Initialize positions for right side of character buckets.
|
||
bucketMax_8_32(text, freq, bucket)
|
||
bucket = bucket[:256] // eliminate bounds check for bucket[cB] below
|
||
|
||
cB := byte(0)
|
||
b := bucket[cB]
|
||
|
||
for i := len(sa) - 1; i >= 0; i-- {
|
||
j := int(sa[i])
|
||
if j >= 0 {
|
||
// Skip non-flagged entry.
|
||
// (This loop can't see an empty entry; 0 means the real zero index.)
|
||
continue
|
||
}
|
||
|
||
// Negative j is a work queue entry; rewrite to positive j for final suffix array.
|
||
j = -j
|
||
sa[i] = int32(j)
|
||
|
||
// Index j was on work queue (encoded as -j but now decoded),
|
||
// meaning k := j-1 is L-type,
|
||
// so we can now place k correctly into sa.
|
||
// If k-1 is S-type, queue -k for processing later in this loop.
|
||
// If k-1 is L-type (text[k-1] > text[k]), queue k to save for the caller.
|
||
// If k is zero, k-1 doesn't exist, so we only need to leave it
|
||
// for the caller.
|
||
k := j - 1
|
||
c1 := text[k]
|
||
if k > 0 {
|
||
if c0 := text[k-1]; c0 <= c1 {
|
||
k = -k
|
||
}
|
||
}
|
||
|
||
if cB != c1 {
|
||
bucket[cB] = b
|
||
cB = c1
|
||
b = bucket[cB]
|
||
}
|
||
b--
|
||
sa[b] = int32(k)
|
||
}
|
||
}
|