aeveris/ml-preproc - Change JTA5GVUCWCLJZVNG4FVXFLSV7HSRJQFHQ6CRURD37JGVFPUKMT7QC

Use sparse CSR matrices to get scikit-learns behaviour. All tests pass

Created by Gz5AN8tiLGjsQNTG24sqRr5jNodcDoAzyZSgZGoaYTaD on July 25, 2021

JTA5GVUCWCLJZVNG4FVXFLSV7HSRJQFHQ6CRURD37JGVFPUKMT7QC

Dependencies

In channels

main

Change contents

File deletion: murmur.rs
BF:BFD[3.15] → [4.0:33]
BF:BFD[4.33] → [4.34:34]

Replacement in src/lib.rs at line 1 [3.47]

B:BD[3.47] → [5.0:65]

use std::{io::Cursor, iter::FromIterator, str::SplitWhitespace};

[3.47]

[3.93]

use std::{io::Cursor, str::SplitWhitespace};

Insertion in src/lib.rs at line 6 [3.47]
[6.29]
[3.138]
```
extern crate sprs;
```

Replacement in src/lib.rs at line 10 [3.47]

B:BD[3.200] → [5.66:137]

B:BD[5.137] → [2.0:36]

use ndarray::{azip, Array, Array1, Array2, ArrayBase, Axis, Ix1, Ix2};
use ndarray_linalg::{Norm, Scalar};

[3.200]

[3.220]

use ndarray::{azip, Array1, Array2, Axis};
use ndarray_linalg::Norm;
use sprs::CsMat;

Replacement in src/lib.rs at line 33 [3.47]

B:BD[3.575] → [6.230:299]

    pub fn fit_transform(&self, input: &[&str]) -> Array<f64, Ix2> {

[3.575]

[3.625]

    pub fn fit_transform(&self, input: &[&str]) -> CsMat<f64> {

Replacement in src/lib.rs at line 36 [3.47]

B:BD[6.301] → [6.301:396]

        let mut target: Array<f64, _> = Array::zeros((input.len(), self.n_features as usize));

[6.301]

[3.758]

        let mut row_idx = vec![0];
        let mut col_idx = Vec::new();
        let mut values = Vec::new();
        let mut size = 0;
        let mut sorting_buf = Vec::new();

Replacement in src/lib.rs at line 42 [3.47]

B:BD[3.759] → [3.759:811]

        for (idx, &s) in input.iter().enumerate() {

[3.759]

[4.196]

        for (_, &s) in input.iter().enumerate() {

Deletion in src/lib.rs at line 44 [3.47]
∅:D[4.238] → [6.397:442]
B:BD[3.811] → [6.397:442]
```
            let mut v = target.row_mut(idx);
```

Replacement in src/lib.rs at line 49 [3.47]

B:BD[6.664] → [4.487:565]

                // This should be analogous to scikit-learn's comparison >= 0

[6.664]

                // This is analogous to scikit-learn's comparison >= 0

Replacement in src/lib.rs at line 51 [3.47]

B:BD[6.721] → [6.721:785]

                v[f_idx as usize] += (switch * 2) as f64 - 1.0;

[6.721]

[3.942]

                let val = (switch * 2) as f64 - 1.0;
                col_idx.push(f_idx as usize);
                values.push(val);

Replacement in src/lib.rs at line 56 [3.47]

B:BD[4.567] → [4.567:681]

            if self.normalise {
                let v_norm = v.norm();
                v /= v_norm;
            }

[4.567]

[3.956]

            let start = *row_idx.last().unwrap();
            let row_size = sort_dedup(
                &mut col_idx[start..],
                &mut values[start..],
                &mut sorting_buf,
            );
            size += row_size;
            let end = start + row_size;
            col_idx.truncate(end);
            values.truncate(end);
            row_idx.push(size);

Replacement in src/lib.rs at line 69 [3.47]

B:BD[6.916] → [6.916:931]

        target

[3.966]


        // TODO: normalisation
        CsMat::new_from_unsorted(
            (input.len(), self.n_features as usize),
            row_idx,
            col_idx,
            values,
        )
        .unwrap()

Insertion in src/lib.rs at line 84 [3.47]

[5.140]


fn sort_dedup(indices: &mut [usize], values: &mut [f64], buf: &mut Vec<(usize, f64)>) -> usize {
    buf.clear();
    buf.reserve_exact(indices.len());
    buf.extend(indices.iter().zip(values.iter()).map(|(&i, &v)| (i, v)));
    // We sort first
    buf.sort_unstable_by_key(|&(i, _)| i);
    // And now we dedup
    let mut last = None;
    let mut target_iter = indices.iter_mut().zip(values.iter_mut());
    let mut target = target_iter.next().unwrap();
    let mut size = 0;
    for (idx, val) in buf.drain(..) {
        match last {
            Some(li) => {
                if idx == li {
                    *target.1 += val;
                } else {
                    target = target_iter.next().unwrap();
                    size += 1;
                    *target.0 = idx;
                    *target.1 = val;
                    last = Some(idx);
                }
            }
            None => {
                *target.0 = idx;
                *target.1 = val;
                last = Some(idx);
                size += 1;
            }
        }
    }

Insertion in src/lib.rs at line 121 [3.47]
[5.141]
[5.141]
```
    size
}
```
Replacement in src/lib.rs at line 127 [3.47]
B:BD[5.283] → [5.283:317]
```
    idf: Option<Array<f64, Ix1>>,
```
[5.283]
[3.1063]
```
    idf: Option<Array1<f64>>,
```

Replacement in src/lib.rs at line 144 [3.47]

B:BD[5.700] → [5.700:754]

    pub fn fit(&mut self, matrix: &Array<f64, Ix2>) {

[5.700]

[5.754]

    pub fn fit(&mut self, matrix: &CsMat<f64>) {
        fn bincount(mat: &CsMat<f64>) -> Vec<f64> {
            let mut v = vec![0.0; mat.cols()];
            for &idx in mat.indices() {
                v[idx] += 1.0;
            }
            v
        }

Replacement in src/lib.rs at line 154 [3.47]

B:BD[5.818] → [5.818:865]

        let mut n_samples = matrix.shape()[0];

[5.818]

[5.865]

        let mut n_samples = matrix.rows();
        let df = bincount(matrix);
        assert_eq!(matrix.cols(), df.len());

Replacement in src/lib.rs at line 158 [3.47]

B:BD[5.866] → [5.866:1253]

        // Iterate over every column (Axis 1) of the matrix and count the occurence of each term, meaning +1 for every document where
        // the value is != 0
        let df_iter = matrix
            .axis_iter(Axis(1))
            .map(|r| r.fold(0.0, |acc, &cur| if cur != 0.0 { acc + 1. } else { acc }));
        let mut idf_vector: Array<f64, _> = ArrayBase::from_iter(df_iter);

[5.866]

[5.1253]

        let mut idf_vector = Array1::from_iter(df.into_iter());

Replacement in src/lib.rs at line 172 [3.47]

B:BD[5.1770] → [2.112:211]

    pub fn transform(&self, matrix: Array2<f64>) -> Array2<f64> {
        let mut matrix = matrix;

[5.1770]

[5.1840]

    pub fn transform(&self, matrix: &CsMat<f64>) -> Array2<f64> {
        let mut matrix = matrix.to_dense();

Replacement in src/lib.rs at line 182 [3.47]

B:BD[2.219] → [2.219:293]

    pub fn fit_transform(&mut self, matrix: Array2<f64>) -> Array2<f64> {

[2.219]

[2.293]

    pub fn fit_transform(&mut self, matrix: &CsMat<f64>) -> Array2<f64> {

Replacement in src/lib.rs at line 184 [3.47]
B:BD[2.325] → [2.325:356]
```
            self.fit(&matrix);
```
[2.325]
[2.356]
```
            self.fit(matrix);
```
Replacement in src/lib.rs at line 266 [3.47]
B:BD[3.2869] → [4.682:715]
```
    use ndarray::{array, Array};
```
[3.2869]
[6.1013]
```
    use ndarray::{array, Array, Axis};
```

Insertion in src/lib.rs at line 269 [3.47]

[5.2311]

[6.1061]


    static INPUT: [&'static str; 4] = [
        "This is the first document.",
        "This document is the second document.",
        "And this is the third one.",
        "Is this the first document?",
    ];
    fn round_dec(n: f64, d: usize) -> f64 {
        let md = 10.0_f64.powi(d as i32);
        (n * md).round() / md
    }

Replacement in src/lib.rs at line 299 [3.47]

∅:D[4.1145] → [6.1153:1367]

B:BD[6.1153] → [6.1153:1367]

B:BD[6.1367] → [5.2312:2353]

        let input = [
            "This is the first document.",
            "This document is the second document.",
            "And this is the third one.",
            "Is this the first document?",
        ];
        let r = v.fit_transform(&input);

[4.1145]

[4.1146]

        let r = v.fit_transform(&INPUT).to_dense();

Replacement in src/lib.rs at line 319 [3.47]

B:BD[5.2543] → [5.2543:2757]

        let input = [
            "This is the first document.",
            "This document is the second document.",
            "And this is the third one.",
            "Is this the first document?",
        ];

[5.2543]

[5.2757]

Deletion in src/lib.rs at line 394 [3.47]

B:BD[5.4447] → [5.4447:4814]

        /*let t = array![[
            0.,
            0.,
            -0.35355339,
            -0.35355339,
            0.35355339,
            0.,
            0.,
            -0.35355339,
            -0.35355339,
            0.,
            0.,
            -0.35355339,
            -0.35355339,
            0.,
            -0.35355339,
            0.
        ]];*/

Replacement in src/lib.rs at line 395 [3.47]

B:BD[5.4815] → [5.4815:4856]

B:BD[5.4856] → [2.487:518]

        let r = v.fit_transform(&input);
        //println!("{:?}", r);

[5.4815]

[5.4885]

        let r = v.fit_transform(&INPUT);

Replacement in src/lib.rs at line 397 [3.47]

B:BD[5.4905] → [5.4905:4979]

        println!("idf: {:?}", tf.idf());
        let r = tf.transform(r);

[5.4905]

[5.4979]

        let mut r = tf.transform(&r);
        r.mapv_inplace(|v| round_dec(v, 8));

Replacement in Cargo.toml at line 10 [3.3294]

B:BD[3.3490] → [6.1538:1593]

ndarray = "0.14"
ndarray-linalg = { version = "0.13" }

[3.3490]

[6.1593]

ndarray = "0.15"
ndarray-linalg = { version = "0.14" }
sprs = "0.11"

Insertion in Cargo.lock at line 4 [3.3571]

[3.3675]


[[package]]
name = "alga"
version = "0.9.3"
source = "registry+https://github.com/rust-lang/crates.io-index"
checksum = "4f823d037a7ec6ea2197046bafd4ae150e6bc36f9ca347404f46a46823fa84f2"
dependencies = [
 "approx 0.3.2",
 "num-complex 0.2.4",
 "num-traits",
]

Insertion in Cargo.lock at line 18 [3.3571]

[6.1640]

version = "0.3.2"
source = "registry+https://github.com/rust-lang/crates.io-index"
checksum = "f0e60b75072ecd4168020818c0107f2857bb6c4e64252d8d3983f6263b40a5c3"
dependencies = [
 "num-traits",
]
[[package]]
name = "approx"

Deletion in Cargo.lock at line 41 [3.3571]

B:BD[6.1862] → [6.1862:2054]

name = "blas-src"
version = "0.6.1"
source = "registry+https://github.com/rust-lang/crates.io-index"
checksum = "a25f136d1bcc6fc28330077511a0646aaf75bc894e5532b1a33a93d814272328"
[[package]]

Replacement in Cargo.lock at line 42 [3.3571]
B:BD[6.2070] → [6.2070:2088]
```
version = "0.3.0"
```
[6.2070]
[6.2088]
```
version = "0.4.0"
```

Replacement in Cargo.lock at line 44 [3.3571]

B:BD[6.2153] → [6.2153:2231]

checksum = "3c06b9e1a9ea243aa7be8cf51e025562334a52674508cc02d8b54a99d4986a13"

[6.2153]

[6.2231]

checksum = "9ff11ddd2af3b5e80dd0297fee6e56ac038d9bdc549573cdb51bd6d2efe7f05e"

Replacement in Cargo.lock at line 46 [3.3571]
B:BD[6.2248] → [6.2248:2264]
```
 "num-complex",
```
[6.2248]
[6.2264]
```
 "num-complex 0.4.0",
```

Insertion in Cargo.lock at line 66 [3.3571]

[6.2711]


[[package]]
name = "crossbeam-channel"
version = "0.5.1"
source = "registry+https://github.com/rust-lang/crates.io-index"
checksum = "06ed27e177f16d65f0f0c22a213e17c696ace5dd64b14258b52f9417ccb52db4"
dependencies = [
 "cfg-if",
 "crossbeam-utils",
]

Insertion in Cargo.lock at line 78 [3.3571]

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name = "crossbeam-deque"
version = "0.8.0"
source = "registry+https://github.com/rust-lang/crates.io-index"
checksum = "94af6efb46fef72616855b036a624cf27ba656ffc9be1b9a3c931cfc7749a9a9"
dependencies = [
 "cfg-if",
 "crossbeam-epoch",
 "crossbeam-utils",
]
[[package]]
name = "crossbeam-epoch"
version = "0.9.5"
source = "registry+https://github.com/rust-lang/crates.io-index"
checksum = "4ec02e091aa634e2c3ada4a392989e7c3116673ef0ac5b72232439094d73b7fd"
dependencies = [
 "cfg-if",
 "crossbeam-utils",
 "lazy_static",
 "memoffset",
 "scopeguard",
]
[[package]]
name = "crossbeam-utils"
version = "0.8.5"
source = "registry+https://github.com/rust-lang/crates.io-index"
checksum = "d82cfc11ce7f2c3faef78d8a684447b40d503d9681acebed6cb728d45940c4db"
dependencies = [
 "cfg-if",
 "lazy_static",
]
[[package]]
name = "either"
version = "1.6.1"
source = "registry+https://github.com/rust-lang/crates.io-index"
checksum = "e78d4f1cc4ae33bbfc157ed5d5a5ef3bc29227303d595861deb238fcec4e9457"
[[package]]

Replacement in Cargo.lock at line 119 [3.3571]
B:BD[6.2743] → [6.2743:2762]
```
version = "0.1.16"
```
[6.2743]
[6.2762]
```
version = "0.2.3"
```

Replacement in Cargo.lock at line 121 [3.3571]

B:BD[6.2827] → [6.2827:2905]

checksum = "8fc3cb4d91f53b50155bdcfd23f6a4c39ae1969c2ae85982b135750cccaf5fce"

[6.2827]

[6.2905]

checksum = "7fcd999463524c52659517fe2cea98493cfe485d10565e7b0fb07dbba7ad2753"

Insertion in Cargo.lock at line 129 [3.3571]

[3.3879]

[6.2954]

name = "hermit-abi"
version = "0.1.19"
source = "registry+https://github.com/rust-lang/crates.io-index"
checksum = "62b467343b94ba476dcb2500d242dadbb39557df889310ac77c5d99100aaac33"
dependencies = [
 "libc",
]
[[package]]

Replacement in Cargo.lock at line 139 [3.3571]
B:BD[6.2970] → [6.2970:2989]
```
version = "0.17.0"
```
[6.2970]
[6.2989]
```
version = "0.18.0"
```

Replacement in Cargo.lock at line 141 [3.3571]

B:BD[6.3054] → [6.3054:3132]

checksum = "041b3cb380f92a53e317ea046d0e715d2302dae6d2f426bdf3ccf27a36ef40e9"

[6.3054]

[6.3132]

checksum = "6a7f0050af10913bc5e4f6091df38870cb5d4e45094d3dd551c1aff9d1d59b26"

Replacement in Cargo.lock at line 145 [3.3571]
B:BD[6.3173] → [6.3173:3189]
```
 "num-complex",
```
[6.3173]
[6.3189]
```
 "num-complex 0.4.0",
```
Replacement in Cargo.lock at line 159 [3.3571]
B:BD[6.3440] → [6.3440:3458]
```
version = "0.1.0"
```
[6.3440]
[6.3458]
```
version = "0.2.0"
```

Replacement in Cargo.lock at line 161 [3.3571]

B:BD[6.3523] → [6.3523:3601]

checksum = "592fa21cdc5f1be099c58a64d2e51a9c02632f4c2b7fb4ee8c2994d4950a4ff7"

[6.3523]

[6.3601]

checksum = "e49ff5bbaf07352b492b17aab73a86871f0c6029f427035fd0562cd0df573c8a"

Insertion in Cargo.lock at line 168 [3.3571]

[6.3671]


[[package]]
name = "lazy_static"
version = "1.4.0"
source = "registry+https://github.com/rust-lang/crates.io-index"
checksum = "e2abad23fbc42b3700f2f279844dc832adb2b2eb069b2df918f455c4e18cc646"

Insertion in Cargo.lock at line 182 [3.3571]

[6.3873]

[3.3879]

name = "libm"
version = "0.2.1"
source = "registry+https://github.com/rust-lang/crates.io-index"
checksum = "c7d73b3f436185384286bd8098d17ec07c9a7d2388a6599f824d8502b529702a"
[[package]]

Replacement in Cargo.lock at line 189 [3.3571]
B:BD[3.3903] → [6.3874:3892]
```
version = "0.2.4"
```
[3.3903]
[3.3921]
```
version = "0.3.1"
```

Replacement in Cargo.lock at line 191 [3.3571]

B:BD[3.3986] → [6.3893:3971]

checksum = "916806ba0031cd542105d916a97c8572e1fa6dd79c9c51e7eb43a09ec2dd84c1"

[3.3986]

[3.4064]

checksum = "5a8a15b776d9dfaecd44b03c5828c2199cddff5247215858aac14624f8d6b741"

Insertion in Cargo.lock at line 197 [3.3571]

[3.4111]

name = "memoffset"
version = "0.6.4"
source = "registry+https://github.com/rust-lang/crates.io-index"
checksum = "59accc507f1338036a0477ef61afdae33cde60840f4dfe481319ce3ad116ddf9"
dependencies = [
 "autocfg",
]
[[package]]

Insertion in Cargo.lock at line 212 [3.3571]
[6.3991]
[3.4190]
```
 "sprs",
```
Replacement in Cargo.lock at line 224 [3.3571]
B:BD[3.4439] → [6.3992:4011]
```
version = "0.14.0"
```
[3.4439]
[3.4458]
```
version = "0.15.3"
```

Replacement in Cargo.lock at line 226 [3.3571]

B:BD[3.4523] → [6.4012:4090]

checksum = "6c0d5c9540a691d153064dc47a4db2504587a75eae07bf1d73f7a596ebc73c04"

[3.4523]

[3.4601]

checksum = "08e854964160a323e65baa19a0b1a027f76d590faba01f05c0cbc3187221a8c9"

Replacement in Cargo.lock at line 228 [3.3571]
B:BD[3.4618] → [6.4091:4115]
```
 "approx",
 "blas-src",
```
[3.4618]
[6.4115]
```
 "approx 0.4.0",
```
Insertion in Cargo.lock at line 230 [3.3571]
[6.4129]
[3.4618]
```
 "libc",
```
Replacement in Cargo.lock at line 232 [3.3571]
B:BD[3.4637] → [3.4637:4653]
```
 "num-complex",
```
[3.4637]
[3.4653]
```
 "num-complex 0.4.0",
```
Replacement in Cargo.lock at line 240 [3.3571]
B:BD[6.4154] → [6.4154:4173]
```
version = "0.13.1"
```
[6.4154]
[6.4173]
```
version = "0.14.0"
```

Replacement in Cargo.lock at line 242 [3.3571]

B:BD[6.4238] → [6.4238:4316]

checksum = "dfb88fe83ac017c544b6042d172e62a4d1e9b293e22caf46ae305755cc533a7a"

[6.4238]

[6.4316]

checksum = "71b28ef5c2001bb36d49cfff6977fb4c9eb48fd1d644fd1607fb1b1903efce8e"

Replacement in Cargo.lock at line 247 [3.3571]
B:BD[6.4364] → [6.4364:4380]
```
 "num-complex",
```
[6.4364]
[6.4380]
```
 "num-complex 0.4.0",
```

Replacement in Cargo.lock at line 255 [3.3571]

B:BD[3.4735] → [6.4434:4452]

version = "0.3.1"

[3.4735]

[3.4753]

version = "0.2.4"
source = "registry+https://github.com/rust-lang/crates.io-index"
checksum = "b6b19411a9719e753aff12e5187b74d60d3dc449ec3f4dc21e3989c3f554bc95"
dependencies = [
 "autocfg",
 "num-traits",
]
[[package]]
name = "num-complex"
version = "0.4.0"

Replacement in Cargo.lock at line 267 [3.3571]

B:BD[3.4818] → [6.4453:4531]

checksum = "747d632c0c558b87dbabbe6a82f3b4ae03720d0646ac5b7b4dae89394be5f2c5"

[3.4818]

[3.4896]

checksum = "26873667bbbb7c5182d4a37c1add32cdf09f841af72da53318fdb81543c15085"

Insertion in Cargo.lock at line 291 [3.3571]

[3.5396]

[6.4552]

 "libm",
]
[[package]]
name = "num_cpus"
version = "1.13.0"
source = "registry+https://github.com/rust-lang/crates.io-index"
checksum = "05499f3756671c15885fee9034446956fff3f243d6077b91e5767df161f766b3"
dependencies = [
 "hermit-abi",
 "libc",

Replacement in Cargo.lock at line 330 [3.3571]
B:BD[6.5231] → [6.5231:5249]
```
version = "0.7.3"
```
[6.5231]
[6.5249]
```
version = "0.8.4"
```

Replacement in Cargo.lock at line 332 [3.3571]

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```
 "getrandom",
```
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version = "0.2.2"
```
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version = "0.3.1"
```

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version = "0.5.1"
```
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```
version = "0.6.3"
```

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version = "0.2.0"
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version = "0.3.1"
```

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name = "rayon"
version = "1.5.1"
source = "registry+https://github.com/rust-lang/crates.io-index"
checksum = "c06aca804d41dbc8ba42dfd964f0d01334eceb64314b9ecf7c5fad5188a06d90"
dependencies = [
 "autocfg",
 "crossbeam-deque",
 "either",
 "rayon-core",
]
[[package]]
name = "rayon-core"
version = "1.9.1"
source = "registry+https://github.com/rust-lang/crates.io-index"
checksum = "d78120e2c850279833f1dd3582f730c4ab53ed95aeaaaa862a2a5c71b1656d8e"
dependencies = [
 "crossbeam-channel",
 "crossbeam-deque",
 "crossbeam-utils",
 "lazy_static",
 "num_cpus",
]
[[package]]
name = "scopeguard"
version = "1.1.0"
source = "registry+https://github.com/rust-lang/crates.io-index"
checksum = "d29ab0c6d3fc0ee92fe66e2d99f700eab17a8d57d1c1d3b748380fb20baa78cd"
[[package]]

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[[package]]
name = "smallvec"
version = "1.6.1"
source = "registry+https://github.com/rust-lang/crates.io-index"
checksum = "fe0f37c9e8f3c5a4a66ad655a93c74daac4ad00c441533bf5c6e7990bb42604e"
[[package]]
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source = "registry+https://github.com/rust-lang/crates.io-index"
checksum = "6ea71e48b3eab4c4b153e8e35dcaeac132720809ef68359097b8cb54a18edd70"
dependencies = [
 "alga",
 "ndarray",
 "num-complex 0.4.0",
 "num-traits",
 "num_cpus",
 "rayon",
 "smallvec",
]

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```
version = "0.9.0+wasi-snapshot-preview1"
```
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```
version = "0.10.2+wasi-snapshot-preview1"
```

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checksum = "cccddf32554fecc6acb585f82a32a72e28b48f8c4c1883ddfeeeaa96f7d8e519"

[6.7423]

checksum = "fd6fbd9a79829dd1ad0cc20627bf1ed606756a7f77edff7b66b7064f9cb327c6"

Use sparse CSR matrices to get scikit-learns behaviour. All tests pass

Dependencies

In channels

Change contents

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