chore: release 1.3.1 (#530) #837
dcrooterust.yml
on: push
Formatting
4s
Linting
50s
Matrix: Testing
Annotations
75 warnings
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Formatting
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Formatting
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Formatting
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Formatting
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module has the same name as its containing module:
src/stats/pairhmm/mod.rs#L106
warning: module has the same name as its containing module
--> src/stats/pairhmm/mod.rs:106:1
|
106 | mod pairhmm;
| ^^^^^^^^^^^^
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= help: for further information visit https://rust-lang.github.io/rust-clippy/master/index.html#module_inception
= note: `#[warn(clippy::module_inception)]` on by default
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casting to the same type is unnecessary (`u8` -> `u8`):
src/seq_analysis/orf.rs#L65
warning: casting to the same type is unnecessary (`u8` -> `u8`)
--> src/seq_analysis/orf.rs:65:44
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65 | .map(|x| x.iter().map(|&x| x as u8).collect::<VecDeque<u8>>())
| ^^^^^^^ help: try: `x`
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= help: for further information visit https://rust-lang.github.io/rust-clippy/master/index.html#unnecessary_cast
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casting to the same type is unnecessary (`u8` -> `u8`):
src/seq_analysis/orf.rs#L61
warning: casting to the same type is unnecessary (`u8` -> `u8`)
--> src/seq_analysis/orf.rs:61:44
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61 | .map(|x| x.iter().map(|&x| x as u8).collect::<VecDeque<u8>>())
| ^^^^^^^ help: try: `x`
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= help: for further information visit https://rust-lang.github.io/rust-clippy/master/index.html#unnecessary_cast
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casting to the same type is unnecessary (`i8` -> `i8`):
src/pattern_matching/myers/long.rs#L231
warning: casting to the same type is unnecessary (`i8` -> `i8`)
--> src/pattern_matching/myers/long.rs:231:28
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231 | self.add_state(-carry as i8);
| ^^^^^^^^^^^^ help: try: `-carry`
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= help: for further information visit https://rust-lang.github.io/rust-clippy/master/index.html#unnecessary_cast
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the borrowed expression implements the required traits:
src/io/fasta.rs#L417
warning: the borrowed expression implements the required traits
--> src/io/fasta.rs:417:24
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417 | fs::File::open(&path)
| ^^^^^ help: change this to: `path`
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= help: for further information visit https://rust-lang.github.io/rust-clippy/master/index.html#needless_borrow
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the borrowed expression implements the required traits:
src/io/fasta.rs#L374
warning: the borrowed expression implements the required traits
--> src/io/fasta.rs:374:24
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374 | fs::File::open(&path)
| ^^^^^ help: change this to: `path`
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= help: for further information visit https://rust-lang.github.io/rust-clippy/master/index.html#needless_borrow
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the borrowed expression implements the required traits:
src/io/bed.rs#L115
warning: the borrowed expression implements the required traits
--> src/io/bed.rs:115:28
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115 | .serialize(&(&record.chrom, record.start, record.end, &record.aux))
| ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ help: change this to: `(&record.chrom, record.start, record.end, &record.aux)`
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= help: for further information visit https://rust-lang.github.io/rust-clippy/master/index.html#needless_borrow
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the borrowed expression implements the required traits:
src/io/bed.rs#L112
warning: the borrowed expression implements the required traits
--> src/io/bed.rs:112:28
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112 | .serialize(&(&record.chrom, record.start, record.end))
| ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ help: change this to: `(&record.chrom, record.start, record.end)`
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= help: for further information visit https://rust-lang.github.io/rust-clippy/master/index.html#needless_borrow
= note: `#[warn(clippy::needless_borrow)]` on by default
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casting to the same type is unnecessary (`usize` -> `usize`):
src/data_structures/wavelet_matrix.rs#L137
warning: casting to the same type is unnecessary (`usize` -> `usize`)
--> src/data_structures/wavelet_matrix.rs:137:22
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137 | let height = self.height as usize;
| ^^^^^^^^^^^^^^^^^^^^ help: try: `self.height`
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= help: for further information visit https://rust-lang.github.io/rust-clippy/master/index.html#unnecessary_cast
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implicitly performing saturating subtraction:
src/data_structures/rank_select.rs#L174
warning: implicitly performing saturating subtraction
--> src/data_structures/rank_select.rs:174:9
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174 | / if superblock > 0 {
175 | | superblock -= 1;
176 | | }
| |_________^ help: try: `superblock = superblock.saturating_sub(1);`
|
= help: for further information visit https://rust-lang.github.io/rust-clippy/master/index.html#implicit_saturating_sub
= note: `#[warn(clippy::implicit_saturating_sub)]` on by default
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casting to the same type is unnecessary (`usize` -> `usize`):
src/data_structures/qgram_index.rs#L100
warning: casting to the same type is unnecessary (`usize` -> `usize`)
--> src/data_structures/qgram_index.rs:100:28
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100 | offset[qgram as usize] += 1;
| ^^^^^^^^^^^^^^ help: try: `qgram`
|
= help: for further information visit https://rust-lang.github.io/rust-clippy/master/index.html#unnecessary_cast
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casting to the same type is unnecessary (`usize` -> `usize`):
src/data_structures/qgram_index.rs#L99
warning: casting to the same type is unnecessary (`usize` -> `usize`)
--> src/data_structures/qgram_index.rs:99:36
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99 | pos[a + offset[qgram as usize]] = i;
| ^^^^^^^^^^^^^^ help: try: `qgram`
|
= help: for further information visit https://rust-lang.github.io/rust-clippy/master/index.html#unnecessary_cast
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casting to the same type is unnecessary (`usize` -> `usize`):
src/data_structures/qgram_index.rs#L97
warning: casting to the same type is unnecessary (`usize` -> `usize`)
--> src/data_structures/qgram_index.rs:97:28
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97 | if address[qgram as usize + 1] - a != 0 {
| ^^^^^^^^^^^^^^ help: try: `qgram`
|
= help: for further information visit https://rust-lang.github.io/rust-clippy/master/index.html#unnecessary_cast
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casting to the same type is unnecessary (`usize` -> `usize`):
src/data_structures/qgram_index.rs#L96
warning: casting to the same type is unnecessary (`usize` -> `usize`)
--> src/data_structures/qgram_index.rs:96:33
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96 | let a = address[qgram as usize];
| ^^^^^^^^^^^^^^ help: try: `qgram`
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= help: for further information visit https://rust-lang.github.io/rust-clippy/master/index.html#unnecessary_cast
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casting to the same type is unnecessary (`u32` -> `u32`):
src/data_structures/qgram_index.rs#L74
warning: casting to the same type is unnecessary (`u32` -> `u32`)
--> src/data_structures/qgram_index.rs:74:46
|
74 | let qgram_count = alphabet.len().pow(q as u32);
| ^^^^^^^^ help: try: `q`
|
= help: for further information visit https://rust-lang.github.io/rust-clippy/master/index.html#unnecessary_cast
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casting to the same type is unnecessary (`usize` -> `usize`):
src/data_structures/interval_tree/array_backed_interval_tree.rs#L202
warning: casting to the same type is unnecessary (`usize` -> `usize`)
--> src/data_structures/interval_tree/array_backed_interval_tree.rs:202:17
|
202 | let n = self.entries.len() as usize;
| ^^^^^^^^^^^^^^^^^^^^^^^^^^^ help: try: `self.entries.len()`
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= help: for further information visit https://rust-lang.github.io/rust-clippy/master/index.html#unnecessary_cast
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unsafe function's docs miss `# Safety` section:
src/data_structures/fmindex.rs#L561
warning: unsafe function's docs miss `# Safety` section
--> src/data_structures/fmindex.rs:561:5
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561 | / pub unsafe fn from_fmindex_unchecked(
562 | | fmindex: FMIndex<DBWT, DLess, DOcc>,
563 | | ) -> FMDIndex<DBWT, DLess, DOcc> {
| |____________________________________^
|
= help: for further information visit https://rust-lang.github.io/rust-clippy/master/index.html#missing_safety_doc
= note: `#[warn(clippy::missing_safety_doc)]` on by default
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casting to the same type is unnecessary (`usize` -> `usize`):
src/data_structures/bwt.rs#L181
warning: casting to the same type is unnecessary (`usize` -> `usize`)
--> src/data_structures/bwt.rs:181:9
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181 | bytecount::count(&bwt[lo_idx + 1..=r], a) as usize + lo_occ
| ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ help: try: `bytecount::count(&bwt[lo_idx + 1..=r], a)`
|
= help: for further information visit https://rust-lang.github.io/rust-clippy/master/index.html#unnecessary_cast
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casting to the same type is unnecessary (`usize` -> `usize`):
src/data_structures/bwt.rs#L174
warning: casting to the same type is unnecessary (`usize` -> `usize`)
--> src/data_structures/bwt.rs:174:37
|
174 | return hi_occ - bytecount::count(&bwt[r + 1..=hi_idx], a) as usize;
| ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ help: try: `bytecount::count(&bwt[r + 1..=hi_idx], a)`
|
= help: for further information visit https://rust-lang.github.io/rust-clippy/master/index.html#unnecessary_cast
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casting to the same type is unnecessary (`u32` -> `u32`):
src/alignment/sparse.rs#L455
warning: casting to the same type is unnecessary (`u32` -> `u32`)
--> src/alignment/sparse.rs:455:23
|
455 | let max_inc = (min(
| _______________________^
456 | | seq1.len() as u32 - this_match.0,
457 | | seq2.len() as u32 - this_match.1,
458 | | ) as u32)
| |_________________^
|
= help: for further information visit https://rust-lang.github.io/rust-clippy/master/index.html#unnecessary_cast
help: try
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455 ~ let max_inc = min(
456 + seq1.len() as u32 - this_match.0,
457 + seq2.len() as u32 - this_match.1,
458 + )
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using `clone` on type `i32` which implements the `Copy` trait:
src/alignment/poa.rs#L320
warning: using `clone` on type `i32` which implements the `Copy` trait
--> src/alignment/poa.rs:320:31
|
320 | weight += edge.weight().clone();
| ^^^^^^^^^^^^^^^^^^^^^ help: try dereferencing it: `*edge.weight()`
|
= help: for further information visit https://rust-lang.github.io/rust-clippy/master/index.html#clone_on_copy
= note: `#[warn(clippy::clone_on_copy)]` on by default
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this loop could be written as a `for` loop:
src/alignment/poa.rs#L319
warning: this loop could be written as a `for` loop
--> src/alignment/poa.rs:319:17
|
319 | while let Some(edge) = edges.next() {
| ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ help: try: `for edge in edges`
|
= help: for further information visit https://rust-lang.github.io/rust-clippy/master/index.html#while_let_on_iterator
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this loop could be written as a `for` loop:
src/alignment/poa.rs#L314
warning: this loop could be written as a `for` loop
--> src/alignment/poa.rs:314:13
|
314 | while let Some(neighbour_node) = neighbour_nodes.next() {
| ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ help: try: `for neighbour_node in neighbour_nodes`
|
= help: for further information visit https://rust-lang.github.io/rust-clippy/master/index.html#while_let_on_iterator
= note: `#[warn(clippy::while_let_on_iterator)]` on by default
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casting to the same type is unnecessary (`u32` -> `u32`):
src/alignment/pairwise/banded.rs#L1265
warning: casting to the same type is unnecessary (`u32` -> `u32`)
--> src/alignment/pairwise/banded.rs:1265:70
|
1265 | self.add_gap((r as u32, c as u32), (rows as u32, cols as u32), w);
| ^^^^^^^^^^^ help: try: `cols`
|
= help: for further information visit https://rust-lang.github.io/rust-clippy/master/index.html#unnecessary_cast
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casting to the same type is unnecessary (`u32` -> `u32`):
src/alignment/pairwise/banded.rs#L1265
warning: casting to the same type is unnecessary (`u32` -> `u32`)
--> src/alignment/pairwise/banded.rs:1265:57
|
1265 | self.add_gap((r as u32, c as u32), (rows as u32, cols as u32), w);
| ^^^^^^^^^^^ help: try: `rows`
|
= help: for further information visit https://rust-lang.github.io/rust-clippy/master/index.html#unnecessary_cast
= note: `#[warn(clippy::unnecessary_cast)]` on by default
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manual implementation of `Option::map`:
src/alignment/distance.rs#L166
warning: manual implementation of `Option::map`
--> src/alignment/distance.rs:166:9
|
166 | / if let Some(x) = editdistancek::edit_distance_bounded(
167 | | alpha,
168 | | beta,
169 | | min(k as usize, max(alpha.len(), beta.len())),
... |
173 | | None
174 | | }
| |_________^
|
= help: for further information visit https://rust-lang.github.io/rust-clippy/master/index.html#manual_map
= note: `#[warn(clippy::manual_map)]` on by default
help: try this
|
166 ~ editdistancek::edit_distance_bounded(
167 + alpha,
168 + beta,
169 + min(k as usize, max(alpha.len(), beta.len())),
170 + ).map(|x| x as u32)
|
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Linting
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Linting
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Linting
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Linting
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Testing (beta)
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Testing (beta)
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Testing (beta)
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Testing (beta)
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Testing (beta)
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Testing (beta)
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Testing (beta)
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Testing (beta)
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Testing (stable)
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Testing (stable)
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Testing (stable)
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Testing (stable)
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Testing (stable)
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Testing (stable)
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Testing (stable)
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Testing (stable)
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Testing (windows)
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Testing (windows)
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Testing (windows)
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Testing (windows)
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Testing (windows)
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Testing (windows)
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Testing (windows)
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Testing (windows)
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MSRV
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MSRV
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MSRV
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MSRV
The `set-output` command is deprecated and will be disabled soon. Please upgrade to using Environment Files. For more information see: https://github.blog/changelog/2022-10-11-github-actions-deprecating-save-state-and-set-output-commands/
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Testing (macos)
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Testing (macos)
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Testing (macos)
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Testing (macos)
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Testing (macos)
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Testing (macos)
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Testing (macos)
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Testing (macos)
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Coverage
Unable to download cargo-tarpaulin == latest from the tool cache: Error: Unexpected HTTP response: 403
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Coverage
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Coverage
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Coverage
The `set-output` command is deprecated and will be disabled soon. Please upgrade to using Environment Files. For more information see: https://github.blog/changelog/2022-10-11-github-actions-deprecating-save-state-and-set-output-commands/
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Coverage
The `set-output` command is deprecated and will be disabled soon. Please upgrade to using Environment Files. For more information see: https://github.blog/changelog/2022-10-11-github-actions-deprecating-save-state-and-set-output-commands/
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