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authorDaniel Baumann <daniel.baumann@progress-linux.org>2024-04-28 13:14:23 +0000
committerDaniel Baumann <daniel.baumann@progress-linux.org>2024-04-28 13:14:23 +0000
commit73df946d56c74384511a194dd01dbe099584fd1a (patch)
treefd0bcea490dd81327ddfbb31e215439672c9a068 /src/index/suffixarray/sais.go
parentInitial commit. (diff)
downloadgolang-1.16-73df946d56c74384511a194dd01dbe099584fd1a.tar.xz
golang-1.16-73df946d56c74384511a194dd01dbe099584fd1a.zip
Adding upstream version 1.16.10.upstream/1.16.10upstream
Signed-off-by: Daniel Baumann <daniel.baumann@progress-linux.org>
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+// Copyright 2019 The Go Authors. All rights reserved.
+// Use of this source code is governed by a BSD-style
+// license that can be found in the LICENSE file.
+
+// Suffix array construction by induced sorting (SAIS).
+// See Ge Nong, Sen Zhang, and Wai Hong Chen,
+// "Two Efficient Algorithms for Linear Time Suffix Array Construction",
+// especially section 3 (https://ieeexplore.ieee.org/document/5582081).
+// See also http://zork.net/~st/jottings/sais.html.
+//
+// With optimizations inspired by Yuta Mori's sais-lite
+// (https://sites.google.com/site/yuta256/sais).
+//
+// And with other new optimizations.
+
+// Many of these functions are parameterized by the sizes of
+// the types they operate on. The generator gen.go makes
+// copies of these functions for use with other sizes.
+// Specifically:
+//
+// - A function with a name ending in _8_32 takes []byte and []int32 arguments
+// and is duplicated into _32_32, _8_64, and _64_64 forms.
+// The _32_32 and _64_64_ suffixes are shortened to plain _32 and _64.
+// Any lines in the function body that contain the text "byte-only" or "256"
+// are stripped when creating _32_32 and _64_64 forms.
+// (Those lines are typically 8-bit-specific optimizations.)
+//
+// - A function with a name ending only in _32 operates on []int32
+// and is duplicated into a _64 form. (Note that it may still take a []byte,
+// but there is no need for a version of the function in which the []byte
+// is widened to a full integer array.)
+
+// The overall runtime of this code is linear in the input size:
+// it runs a sequence of linear passes to reduce the problem to
+// a subproblem at most half as big, invokes itself recursively,
+// and then runs a sequence of linear passes to turn the answer
+// for the subproblem into the answer for the original problem.
+// This gives T(N) = O(N) + T(N/2) = O(N) + O(N/2) + O(N/4) + ... = O(N).
+//
+// The outline of the code, with the forward and backward scans
+// through O(N)-sized arrays called out, is:
+//
+// sais_I_N
+// placeLMS_I_B
+// bucketMax_I_B
+// freq_I_B
+// <scan +text> (1)
+// <scan +freq> (2)
+// <scan -text, random bucket> (3)
+// induceSubL_I_B
+// bucketMin_I_B
+// freq_I_B
+// <scan +text, often optimized away> (4)
+// <scan +freq> (5)
+// <scan +sa, random text, random bucket> (6)
+// induceSubS_I_B
+// bucketMax_I_B
+// freq_I_B
+// <scan +text, often optimized away> (7)
+// <scan +freq> (8)
+// <scan -sa, random text, random bucket> (9)
+// assignID_I_B
+// <scan +sa, random text substrings> (10)
+// map_B
+// <scan -sa> (11)
+// recurse_B
+// (recursive call to sais_B_B for a subproblem of size at most 1/2 input, often much smaller)
+// unmap_I_B
+// <scan -text> (12)
+// <scan +sa> (13)
+// expand_I_B
+// bucketMax_I_B
+// freq_I_B
+// <scan +text, often optimized away> (14)
+// <scan +freq> (15)
+// <scan -sa, random text, random bucket> (16)
+// induceL_I_B
+// bucketMin_I_B
+// freq_I_B
+// <scan +text, often optimized away> (17)
+// <scan +freq> (18)
+// <scan +sa, random text, random bucket> (19)
+// induceS_I_B
+// bucketMax_I_B
+// freq_I_B
+// <scan +text, often optimized away> (20)
+// <scan +freq> (21)
+// <scan -sa, random text, random bucket> (22)
+//
+// Here, _B indicates the suffix array size (_32 or _64) and _I the input size (_8 or _B).
+//
+// The outline shows there are in general 22 scans through
+// O(N)-sized arrays for a given level of the recursion.
+// In the top level, operating on 8-bit input text,
+// the six freq scans are fixed size (256) instead of potentially
+// input-sized. Also, the frequency is counted once and cached
+// whenever there is room to do so (there is nearly always room in general,
+// and always room at the top level), which eliminates all but
+// the first freq_I_B text scans (that is, 5 of the 6).
+// So the top level of the recursion only does 22 - 6 - 5 = 11
+// input-sized scans and a typical level does 16 scans.
+//
+// The linear scans do not cost anywhere near as much as
+// the random accesses to the text made during a few of
+// the scans (specifically #6, #9, #16, #19, #22 marked above).
+// In real texts, there is not much but some locality to
+// the accesses, due to the repetitive structure of the text
+// (the same reason Burrows-Wheeler compression is so effective).
+// For random inputs, there is no locality, which makes those
+// accesses even more expensive, especially once the text
+// no longer fits in cache.
+// For example, running on 50 MB of Go source code, induceSubL_8_32
+// (which runs only once, at the top level of the recursion)
+// takes 0.44s, while on 50 MB of random input, it takes 2.55s.
+// Nearly all the relative slowdown is explained by the text access:
+//
+// c0, c1 := text[k-1], text[k]
+//
+// That line runs for 0.23s on the Go text and 2.02s on random text.
+
+//go:generate go run gen.go
+
+package suffixarray
+
+// text_32 returns the suffix array for the input text.
+// It requires that len(text) fit in an int32
+// and that the caller zero sa.
+func text_32(text []byte, sa []int32) {
+ if int(int32(len(text))) != len(text) || len(text) != len(sa) {
+ panic("suffixarray: misuse of text_32")
+ }
+ sais_8_32(text, 256, sa, make([]int32, 2*256))
+}
+
+// sais_8_32 computes the suffix array of text.
+// The text must contain only values in [0, textMax).
+// The suffix array is stored in sa, which the caller
+// must ensure is already zeroed.
+// The caller must also provide temporary space tmp
+// with len(tmp) ≥ textMax. If len(tmp) ≥ 2*textMax
+// then the algorithm runs a little faster.
+// If sais_8_32 modifies tmp, it sets tmp[0] = -1 on return.
+func sais_8_32(text []byte, textMax int, sa, tmp []int32) {
+ if len(sa) != len(text) || len(tmp) < int(textMax) {
+ panic("suffixarray: misuse of sais_8_32")
+ }
+
+ // Trivial base cases. Sorting 0 or 1 things is easy.
+ if len(text) == 0 {
+ return
+ }
+ if len(text) == 1 {
+ sa[0] = 0
+ return
+ }
+
+ // Establish slices indexed by text character
+ // holding character frequency and bucket-sort offsets.
+ // If there's only enough tmp for one slice,
+ // we make it the bucket offsets and recompute
+ // the character frequency each time we need it.
+ var freq, bucket []int32
+ if len(tmp) >= 2*textMax {
+ freq, bucket = tmp[:textMax], tmp[textMax:2*textMax]
+ freq[0] = -1 // mark as uninitialized
+ } else {
+ freq, bucket = nil, tmp[:textMax]
+ }
+
+ // The SAIS algorithm.
+ // Each of these calls makes one scan through sa.
+ // See the individual functions for documentation
+ // about each's role in the algorithm.
+ numLMS := placeLMS_8_32(text, sa, freq, bucket)
+ if numLMS <= 1 {
+ // 0 or 1 items are already sorted. Do nothing.
+ } else {
+ induceSubL_8_32(text, sa, freq, bucket)
+ induceSubS_8_32(text, sa, freq, bucket)
+ length_8_32(text, sa, numLMS)
+ maxID := assignID_8_32(text, sa, numLMS)
+ if maxID < numLMS {
+ map_32(sa, numLMS)
+ recurse_32(sa, tmp, numLMS, maxID)
+ unmap_8_32(text, sa, numLMS)
+ } else {
+ // If maxID == numLMS, then each LMS-substring
+ // is unique, so the relative ordering of two LMS-suffixes
+ // is determined by just the leading LMS-substring.
+ // That is, the LMS-suffix sort order matches the
+ // (simpler) LMS-substring sort order.
+ // Copy the original LMS-substring order into the
+ // suffix array destination.
+ copy(sa, sa[len(sa)-numLMS:])
+ }
+ expand_8_32(text, freq, bucket, sa, numLMS)
+ }
+ induceL_8_32(text, sa, freq, bucket)
+ induceS_8_32(text, sa, freq, bucket)
+
+ // Mark for caller that we overwrote tmp.
+ tmp[0] = -1
+}
+
+// freq_8_32 returns the character frequencies
+// for text, as a slice indexed by character value.
+// If freq is nil, freq_8_32 uses and returns bucket.
+// If freq is non-nil, freq_8_32 assumes that freq[0] >= 0
+// means the frequencies are already computed.
+// If the frequency data is overwritten or uninitialized,
+// the caller must set freq[0] = -1 to force recomputation
+// the next time it is needed.
+func freq_8_32(text []byte, freq, bucket []int32) []int32 {
+ if freq != nil && freq[0] >= 0 {
+ return freq // already computed
+ }
+ if freq == nil {
+ freq = bucket
+ }
+
+ freq = freq[:256] // eliminate bounds check for freq[c] below
+ for i := range freq {
+ freq[i] = 0
+ }
+ for _, c := range text {
+ freq[c]++
+ }
+ return freq
+}
+
+// bucketMin_8_32 stores into bucket[c] the minimum index
+// in the bucket for character c in a bucket-sort of text.
+func bucketMin_8_32(text []byte, freq, bucket []int32) {
+ freq = freq_8_32(text, freq, bucket)
+ freq = freq[:256] // establish len(freq) = 256, so 0 ≤ i < 256 below
+ bucket = bucket[:256] // eliminate bounds check for bucket[i] below
+ total := int32(0)
+ for i, n := range freq {
+ bucket[i] = total
+ total += n
+ }
+}
+
+// bucketMax_8_32 stores into bucket[c] the maximum index
+// in the bucket for character c in a bucket-sort of text.
+// The bucket indexes for c are [min, max).
+// That is, max is one past the final index in that bucket.
+func bucketMax_8_32(text []byte, freq, bucket []int32) {
+ freq = freq_8_32(text, freq, bucket)
+ freq = freq[:256] // establish len(freq) = 256, so 0 ≤ i < 256 below
+ bucket = bucket[:256] // eliminate bounds check for bucket[i] below
+ total := int32(0)
+ for i, n := range freq {
+ total += n
+ bucket[i] = total
+ }
+}
+
+// The SAIS algorithm proceeds in a sequence of scans through sa.
+// Each of the following functions implements one scan,
+// and the functions appear here in the order they execute in the algorithm.
+
+// placeLMS_8_32 places into sa the indexes of the
+// final characters of the LMS substrings of text,
+// sorted into the rightmost ends of their correct buckets
+// in the suffix array.
+//
+// The imaginary sentinel character at the end of the text
+// is the final character of the final LMS substring, but there
+// is no bucket for the imaginary sentinel character,
+// which has a smaller value than any real character.
+// The caller must therefore pretend that sa[-1] == len(text).
+//
+// The text indexes of LMS-substring characters are always ≥ 1
+// (the first LMS-substring must be preceded by one or more L-type
+// characters that are not part of any LMS-substring),
+// so using 0 as a “not present” suffix array entry is safe,
+// both in this function and in most later functions
+// (until induceL_8_32 below).
+func placeLMS_8_32(text []byte, sa, freq, bucket []int32) int {
+ bucketMax_8_32(text, freq, bucket)
+
+ numLMS := 0
+ lastB := int32(-1)
+ bucket = bucket[:256] // eliminate bounds check for bucket[c1] below
+
+ // The next stanza of code (until the blank line) loop backward
+ // over text, stopping to execute a code body at each position i
+ // such that text[i] is an L-character and text[i+1] is an S-character.
+ // That is, i+1 is the position of the start of an LMS-substring.
+ // These could be hoisted out into a function with a callback,
+ // but at a significant speed cost. Instead, we just write these
+ // seven lines a few times in this source file. The copies below
+ // refer back to the pattern established by this original as the
+ // "LMS-substring iterator".
+ //
+ // In every scan through the text, c0, c1 are successive characters of text.
+ // In this backward scan, c0 == text[i] and c1 == text[i+1].
+ // By scanning backward, we can keep track of whether the current
+ // position is type-S or type-L according to the usual definition:
+ //
+ // - position len(text) is type S with text[len(text)] == -1 (the sentinel)
+ // - position i is type S if text[i] < text[i+1], or if text[i] == text[i+1] && i+1 is type S.
+ // - position i is type L if text[i] > text[i+1], or if text[i] == text[i+1] && i+1 is type L.
+ //
+ // The backward scan lets us maintain the current type,
+ // update it when we see c0 != c1, and otherwise leave it alone.
+ // We want to identify all S positions with a preceding L.
+ // Position len(text) is one such position by definition, but we have
+ // nowhere to write it down, so we eliminate it by untruthfully
+ // setting isTypeS = false at the start of the loop.
+ 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
+
+ // Bucket the index i+1 for the start of an LMS-substring.
+ b := bucket[c1] - 1
+ bucket[c1] = b
+ sa[b] = int32(i + 1)
+ lastB = b
+ numLMS++
+ }
+ }
+
+ // We recorded the LMS-substring starts but really want the ends.
+ // Luckily, with two differences, the start indexes and the end indexes are the same.
+ // The first difference is that the rightmost LMS-substring's end index is len(text),
+ // so the caller must pretend that sa[-1] == len(text), as noted above.
+ // The second difference is that the first leftmost LMS-substring start index
+ // does not end an earlier LMS-substring, so as an optimization we can omit
+ // that leftmost LMS-substring start index (the last one we wrote).
+ //
+ // Exception: if numLMS <= 1, the caller is not going to bother with
+ // the recursion at all and will treat the result as containing LMS-substring starts.
+ // In that case, we don't remove the final entry.
+ if numLMS > 1 {
+ sa[lastB] = 0
+ }
+ return numLMS
+}
+
+// induceSubL_8_32 inserts the L-type text indexes of LMS-substrings
+// into sa, assuming that the final characters of the LMS-substrings
+// are already inserted into sa, sorted by final character, and at the
+// right (not 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.
+// induceSubL_8_32 leaves behind only the leftmost L-type text
+// index for each LMS-substring. That is, it removes the final S-type
+// indexes that are present on entry, and it inserts but then removes
+// the interior L-type indexes too.
+// (Only the leftmost L-type index is needed by induceSubS_8_32.)
+func induceSubL_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
+
+ // As we scan the array left-to-right, each sa[i] = j > 0 is a correctly
+ // sorted suffix array entry (for text[j:]) for which we know that j-1 is type L.
+ // Because j-1 is type L, inserting it into sa now will sort it correctly.
+ // But we want to distinguish a j-1 with j-2 of type L from type S.
+ // 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 S.
+ // 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 S, at which point it must stop.
+ //
+ // 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], so that the loop finishes with sa containing
+ // only the indexes of the leftmost L-type indexes for each LMS-substring.
+ //
+ // The suffix array sa therefore serves simultaneously as input, output,
+ // and a miraculously well-tailored work queue.
+
+ // placeLMS_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:
+ // we're processing suffixes in sorted order
+ // and accessing buckets indexed by the
+ // byte before the sorted order, which still
+ // has very good locality.
+ // Invariant: b is cached, possibly dirty copy of bucket[cB].
+ 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 entry.
+ continue
+ }
+ if j < 0 {
+ // Leave discovered type-S index for caller.
+ sa[i] = int32(-j)
+ continue
+ }
+ sa[i] = 0
+
+ // 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.
+ k := j - 1
+ c0, c1 := text[k-1], text[k]
+ if c0 < c1 {
+ k = -k
+ }
+
+ if cB != c1 {
+ bucket[cB] = b
+ cB = c1
+ b = bucket[cB]
+ }
+ sa[b] = int32(k)
+ b++
+ }
+}
+
+// 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)
+ }
+}