joaju-csv 0.1.0

A fast and deterministic Rust library for tabular CSV manipulation, relational projections, and filtering
Documentation 
1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
60
61
62
63
64
65
66
67
68
69
70
71
72
73
74
75
76
77
78
79
80
81
82
83
84
85
86
87
88
89
90
91
92
93
94
95
96
97
98
99
100
101
102
103
104
105
106
107
108
109
110
111
112
113
114
115
116
117
118
119
120
121
122
123
124
125
126
127
128
129
130
131
132
133
134
135
136
137
138
139
140
141
142
143
144
145
146
147
148
149
150
151
152
153
154
155
156
157
158
159
160
161

use joaju_csv::{CsvError, Dataset};

#[test]
fn test_parse_csv_basic() {
    let csv = "id,pai,mae,sex,geracao,fenotipo\n1,0,0,M,1,wt\n2,0,0,F,1,wt\n3,1,2,F,2,afetado\n";
    let ds = Dataset::from_csv(csv).expect("parsing falhou");

    assert_eq!(
        ds.headers(),
        &["id", "pai", "mae", "sex", "geracao", "fenotipo"]
    );
    assert_eq!(ds.row_count(), 3);
    assert_eq!(ds.column_count(), 6);
}

#[test]
fn test_select_projection_and_alias() {
    let csv = "id,pai,mae,sex,geracao,fenotipo_abo,label_abo\n1,0,0,M,1,B,I-1\n2,0,0,F,1,A,I-2\n3,1,2,F,2,AB,II-1\n";
    let ds = Dataset::from_csv(csv).expect("parsing falhou");

    let projected = ds
        .apply_select("id, pai, mae, sex, fenotipo_abo as fenotipo, label_abo as label")
        .expect("select falhou");

    assert_eq!(
        projected.headers(),
        &["id", "pai", "mae", "sex", "fenotipo", "label"]
    );
    assert_eq!(projected.row_count(), 3);
    assert_eq!(
        projected.get_row(0).unwrap(),
        &["1", "0", "0", "M", "B", "I-1"]
    );
    assert_eq!(
        projected.get_row(2).unwrap(),
        &["3", "1", "2", "F", "AB", "II-1"]
    );
}

#[test]
fn test_where_numeric_filter() {
    let csv = "id,geracao,status\n1,1,ativo\n2,2,ativo\n3,3,ativo\n4,4,inativo\n5,5,inativo\n";
    let ds = Dataset::from_csv(csv).expect("parsing falhou");

    let filtered = ds.apply_where("geracao <= 3").expect("where falhou");
    assert_eq!(filtered.row_count(), 3);
    assert_eq!(filtered.get_row(0).unwrap(), &["1", "1", "ativo"]);
    assert_eq!(filtered.get_row(2).unwrap(), &["3", "3", "ativo"]);
}

#[test]
fn test_where_text_filter_and_multiple_clauses() {
    let csv = "id,geracao,sex,status\n1,1,M,ativo\n2,1,F,ativo\n3,2,M,inativo\n4,2,F,ativo\n5,3,F,inativo\n";
    let ds = Dataset::from_csv(csv).expect("parsing falhou");

    let filtered = ds
        .apply_where("sex == F and status == ativo")
        .expect("where falhou");

    assert_eq!(filtered.row_count(), 2);
    assert_eq!(filtered.get_row(0).unwrap(), &["2", "1", "F", "ativo"]);
    assert_eq!(filtered.get_row(1).unwrap(), &["4", "2", "F", "ativo"]);
}

#[test]
fn test_where_and_select_combined() {
    let csv = "id,pai,mae,sex,geracao,fenotipo_olhos\n1,0,0,M,1,castanho\n2,0,0,F,1,azul\n3,1,2,F,2,azul\n4,1,2,M,2,castanho\n5,0,0,F,3,verde\n";
    let ds = Dataset::from_csv(csv).expect("parsing falhou");

    let result = ds
        .apply_query(
            Some("id, pai, mae, sex, fenotipo_olhos as fenotipo"),
            Some("geracao <= 2 and fenotipo_olhos == azul"),
        )
        .expect("query falhou");

    assert_eq!(result.headers(), &["id", "pai", "mae", "sex", "fenotipo"]);
    assert_eq!(result.row_count(), 2);
    assert_eq!(result.get_row(0).unwrap(), &["2", "0", "0", "F", "azul"]);
    assert_eq!(result.get_row(1).unwrap(), &["3", "1", "2", "F", "azul"]);
}

#[test]
fn test_parse_block_directives() {
    let block = r#"%% src=dados/familia.csv
%% select=id, pai, mae, sex, fenotipo_abo as fenotipo
%% where=geracao <= 3
%% layout.width=95%
"#;
    let directives = joaju_csv::parse_block_directives(block);
    assert_eq!(directives.get("src").unwrap(), "dados/familia.csv");
    assert_eq!(
        directives.get("select").unwrap(),
        "id, pai, mae, sex, fenotipo_abo as fenotipo"
    );
    assert_eq!(directives.get("where").unwrap(), "geracao <= 3");
    assert_eq!(directives.get("layout.width").unwrap(), "95%");
}

#[test]
fn test_to_csv_output() {
    let csv = "id,nome\n1,Lumen\n2,Pink\n";
    let ds = Dataset::from_csv(csv).unwrap();
    let exported = ds.to_csv().unwrap();
    assert!(exported.contains("id,nome"));
    assert!(exported.contains("1,Lumen"));
    assert!(exported.contains("2,Pink"));
}

#[test]
fn test_error_on_unknown_column() {
    let csv = "id,nome\n1,Lumen\n";
    let ds = Dataset::from_csv(csv).unwrap();
    let err = ds.apply_select("id, coluna_inexistente").unwrap_err();
    match err {
        CsvError::ColumnNotFound(col) => assert_eq!(col, "coluna_inexistente"),
        other => panic!("Erro inesperado: {:?}", other),
    }
}

#[test]
fn test_pedigree_official_and_pt_synonyms_in_select() {
    // CSV original com nomes oficiais em inglês (pedtools/LINKAGE)
    let csv = "id,fid,mid,sex,aff,proband\n1,0,0,1,1,0\n2,0,0,2,1,0\n3,1,2,2,2,1\n";
    let ds = Dataset::from_csv(csv).expect("parsing falhou");

    // Consulta usando adaptações em português
    let projected = ds
        .apply_select("id, pai, mae, sexo, aff as fenotipo, probando")
        .expect("select com sinônimos falhou");

    assert_eq!(
        projected.headers(),
        &["id", "pai", "mae", "sexo", "fenotipo", "probando"]
    );
    assert_eq!(
        projected.get_row(2).unwrap(),
        &["3", "1", "2", "2", "2", "1"]
    );
}

#[test]
fn test_canonicalize_pedigree_headers() {
    // Oficial -> Português
    let csv_official = "id,fid,mid,sex,aff,proband\n1,0,0,1,1,0\n";
    let ds_off = Dataset::from_csv(csv_official).unwrap();
    let ds_pt = ds_off.canonicalize_pedigree_pt();
    assert_eq!(
        ds_pt.headers(),
        &["id", "pai", "mae", "sexo", "fenotipo", "probando"]
    );

    // Português -> Oficial
    let csv_pt = "id,pai,mae,sexo,fenotipo,probando\n1,0,0,1,1,0\n";
    let ds_pt_in = Dataset::from_csv(csv_pt).unwrap();
    let ds_off_out = ds_pt_in.canonicalize_pedigree_official();
    assert_eq!(
        ds_off_out.headers(),
        &["id", "fid", "mid", "sex", "aff", "proband"]
    );
}