graphembed 0.0.8

graph embedding
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
162
163
164
165
166
167
168
169
170
171
172
173
174
175
176
177
178
179
180
181
182
183
184
185
186
187
188
189
190
191
192
193
194
195
196
197
198
199
200
201
202
203
204
205
206
207
208
209
210
211
212
213
214
215
216
217
218
219
220
221
222
223
224
225
226
227
228
229
230
231
232
233
234
235
236
237
238
239
240
241
242
243
244
245
246
247
248
249
250
251
252
253
254
255
256
257
258
259
260
261
262
263
264
265
266
267
268
269
270
271
272
273
274
275
276
277
278
279
280
281
282
283
284
285
286
287
288
289
290
291
292
293
294
295
296
297
298
299
300
301
302
303
304
305
306
307
308
309
310
311
312
313
314
315
316
317
318
319
320
321
322
323
324
325
326
327
328
329
330
331
332
333
334
335
336
337
338
339
340
341
342
343
344
345
346
347
348
349
350
351
352
353
354
355
356
357
358
359
360
361
362
363
364
365
366
367
368
369
370
371
372
373
374
375
376
377
378
379
380
381
382
383
384
385
386
387
388
389
390
391
392
393
394
395
396
397
398
399
400
401
402
403
404
405
406
407
408
409
410
411
412
413
414
415
416
417
418
419
420
421
422
423
424
425
426
427
428
429
430
431
432
433
434
435
436
437
438
439
440
441
442
443
444
445
446
447
448
449
450
451
452
453
454
455
456
457
458
459
460
461
462
463
464
465
466
467
468
469
470
471
472
473
474
475
476
477
478
479
480
481
482
483
484
485
486
487
488
489
490
491
492
493
494
495
496
497
498
499
500
501
502
503
504
505
506
507
508
509
510
511
512
513
514
515
516
517
518
519
520
521
522
523
524
525
526
527
528
529
530
531
532
533
534
535
536
537
538
539
540
541
542
543
544
545
546
547
548
549
550
551
552
553
554
555
556
557
558
559
560
561
562
563
564
565
566
567
568
569
570
571
572
573
574
575
576
577
578
579
580
581
582
583
584
585
586
587
588
589
590
591
592
593
594
595
596
597
598
599
600
601
602
603
604
605
606
607
608
609
610
611
612
613
614
615
616
617
618
619
620
621
622
623
624
625
626
627
628
629
630
631
632
633
634
635
636
637
638
639
640
641
642
643
644
645
646
647
648
649
650
651
652
653
654
655
656
657
658
659
660
661
662
663
664
665
666
667
668
669
670
671
672
673
674
675
676
677
678
679
680
681
//! module to do bson io for embedding results
//!
//!  Data are formatted in a bson Document, each value has a key.
//!
//!  The encoding is done in 3 parts:
//! 1. A header structure with key "header". The structure is described below see struct [Header](EmbeddedBsonHeader)
//! - a version index
//! - base type name essentially f32,f64 or usize encoded as a String. key is type_name.  
//!   **Beware that as bson requires usize to be encoded as i64, an independant implementation of a reload
//!   will need to parse as i64 in the Nodesketch embedding which uses usize vectors. (See sources)**
//! - symetric or asymetric flag
//! - dimension of vectors
//! - number of vectors
//!
//! 2. The embedded arrays, one or two depending on asymetry
//!     - loop on number of vectors
//!       each vector has a key corresponding to its index and a tag corresponding to OUT (0) or IN (1)
//!       so the first vector of embedding has key "0,0" , the second "1,0"
//!     - if embedding is asymetric the first loop gives outgoing (or source) representation of node
//!       and there is another loop giving ingoing or target) representation of node with key made by IN encoding
//!       so first vector of the second group of embedded vectors corresponding to nodes as target has key
//!       "0,1" the second vector has key "1,1"
//!
//! 3. The nodeindexation can also be encoded in a subdocument associated to key *"indexation"*.
//!    The dump of nodeindexation is not mandatory as it can be retrieved by loading the original graph again.  
//!    The presence of nodeindexation can be tested by checking if the main document has ky *"indexation"*.  
//!    If the sub-document is present : each nodeid is encoded as string  providing a key in document indexation associated to the node rank as i64.
//!  

// Note : a Bson document must not be larger than 16Mb!
// So we need to have many Documents in the file dumped

use anyhow::anyhow;

use std::fs::OpenOptions;
use std::io::{BufReader, BufWriter};
use std::path::Path;

// to convert NodeId to a string, so NodeId must satisfy NodeId : ToString
// this  requires NodeId :  Display + ?Sized to get auto implementation
use std::str::FromStr;

// for serilaizatio, desreialization
use bson::{Bson, Document, bson};
use serde::{Deserialize, Serialize};

use indexmap::IndexSet;
use ndarray::{Array2, ArrayView1};
use num::cast::FromPrimitive;

use crate::embed::tools::edge::{IN, OUT};
use crate::embedding::*;
use crate::io;

/// This structure defines the header of the bson document
#[derive(Debug, Serialize, Deserialize)]
pub struct EmbeddedBsonHeader {
    /// version of dump format
    pub version: i64,
    /// true if embedding is symetric
    pub symetric: bool,
    /// encodes type of vectors used in the embedding. Must be f32 f64 or usze
    pub type_name: String,
    /// dimension of the embedding (length of vectors)
    pub dimension: i64,
    /// number of vectors.
    pub nbdata: i64,
} // end of EmbeddedBsonHeader

impl EmbeddedBsonHeader {
    pub fn new(symetric: bool, type_name: String, dimension: i64, nbdata: i64) -> Self {
        EmbeddedBsonHeader {
            version: 1,
            symetric,
            type_name,
            dimension,
            nbdata,
        }
    }
} // end of impl EmbeddedBsonHeader

/// dump an embedding in bson format in filename fname.  
/// If dump_indexation is true, nodeindexation will also be dumped, and retrieved from bson file.
/// The dump consists in a header document. Then each node is dumped in its document (a bson document must less than 16Mb)
/// The last document contains the indexation if dumped is asked for.
///
pub fn bson_dump<F, NodeId, EmbeddedData>(
    embedding: &Embedding<F, NodeId, EmbeddedData>,
    output: &io::output::Output,
) -> Result<(), anyhow::Error>
where
    NodeId: std::hash::Hash + std::cmp::Eq + std::fmt::Display,
    EmbeddedData: EmbeddedT<F>,
    F: Serialize,
{
    //
    log::info!("entering bson_dump");
    //
    let path = Path::new(output.get_output_name());
    let fileres = OpenOptions::new()
        .write(true)
        .create(true)
        .truncate(true)
        .open(path);
    let file = if fileres.is_ok() {
        fileres.unwrap()
    } else {
        return Err(anyhow!("could not open file : {}", path.display()));
    };
    let mut bufwriter = BufWriter::new(file);
    let mut doc = Document::new();

    let embedded = embedding.get_embedded_data();
    log::info!("\t symetry embedding : {}", embedded.is_symetric());
    // dump header part
    let dim: i64 = FromPrimitive::from_usize(embedded.get_dimension()).unwrap();
    let nbdata: i64 = FromPrimitive::from_usize(embedded.get_nb_nodes()).unwrap();
    // we could allocate a EmbeddedBsonHeader and call bson::to_bson(&bson_header).unwrap() but for C decoder ...
    let bson_header = bson!({
        "version": 1_i64,
        "symetric":embedded.is_symetric(),
        "type_name": std::any::type_name::<F>(),  // TODO must be simplified
        "dimension": dim,
        "nbdata": nbdata
        }
    );
    doc.insert("header", bson_header);
    let res = doc.to_writer(&mut bufwriter);
    if res.is_err() {
        log::error!("dump header  bson in {} done", path.display());
        return Err(anyhow!("dump of bson failed: {}", res.err().unwrap()));
    }
    // now loop on data vectors
    for i in 0..nbdata as usize {
        let mut doc = Document::new();
        let data: Vec<Bson> = embedded
            .get_embedded_node(i, OUT)
            .iter()
            .map(|x| bson::to_bson(x).unwrap())
            .collect();
        let ival: i64 = FromPrimitive::from_usize(i).unwrap();
        let mut key = ival.to_string();
        key.push(',');
        key.push_str(&OUT.to_string());
        doc.insert(key, data);
        let res = doc.to_writer(&mut bufwriter);
        if res.is_err() {
            log::error!("bson dump error OUT , in node {i}");
            return Err(anyhow!(
                "bson dump error for OUT node {i} {}",
                res.err().unwrap()
            ));
        }
    }
    // if asymetric we must dump in part
    if !embedded.is_symetric() {
        log::debug!("asymetric part to bson... ");
        for i in 0..nbdata as usize {
            let mut doc = Document::new();
            let data: Vec<Bson> = embedded
                .get_embedded_node(i, IN)
                .iter()
                .map(|x| bson::to_bson(x).unwrap())
                .collect();
            let ival: i64 = FromPrimitive::from_usize(i).unwrap();
            let mut key = ival.to_string();
            key.push(',');
            key.push_str(&IN.to_string());
            doc.insert(key, data);
            let res = doc.to_writer(&mut bufwriter);
            if res.is_err() {
                log::error!("bson dump error  in node IN  {i}");
                return Err(anyhow!(
                    "bson dump error for IN node {i} {}",
                    res.err().unwrap()
                ));
            }
        }
        log::debug!("asymetric part converted to bson");
    }
    // We dump nodeindexation as a document with
    // each key being nodeid converted to a String
    if output.get_indexation() {
        log::info!("\t dumping NodeIndexation");
        let mut bson_indexation = Document::new();
        let node_indexation = embedding.get_node_indexation();
        for i in 0..node_indexation.len() {
            let node_id = node_indexation.get_index(i).unwrap();
            bson_indexation.insert(node_id.to_string(), i as i64);
        }
        // write indexation
        let res = bson_indexation.to_writer(&mut bufwriter);
        if res.is_err() {
            log::error!("dump bson in {} done", path.display());
            return Err(anyhow!("dump of bson failed: {}", res.err().unwrap()));
        }
        log::debug!("\t NodeIndexation bson encoded");
    } // end dump indexation
    //
    log::info!("bson dump in file {} finished", path.display());
    //
    Ok(())
    //    Err(anyhow!("dump of bson not yet"))
} // end of bson_dump

/// returns the bson header of an embedding.  
/// This can be useful to retrieve the type of the embedding (dumped via a call to std::any::type_name::\<F\>()).
/// The type will be "f64", "f32" or "i64" as Bson imposes the conversion of usize to i64
pub fn get_bson_header(fname: &String) -> Result<EmbeddedBsonHeader, anyhow::Error> {
    let path = Path::new(fname);
    log::info!("get_bson_header: trying to open file : {:?}", path);
    let fileres = OpenOptions::new().read(true).open(path);
    let file;
    if fileres.is_ok() {
        file = fileres.unwrap();
    } else {
        log::error!("reload of bson dump failed");
        return Err(anyhow!("reloadfailed: {}", fileres.err().unwrap()));
    }
    let mut bufreader = BufReader::new(file);
    let res = Document::from_reader(&mut bufreader);
    if res.is_err() {
        log::error!("could load document from file {}", path.display());
        return Err(anyhow!(res.err().unwrap()));
    }
    let doc = res.unwrap();
    let res = doc.get("header");
    if res.is_none() {
        log::error!("could load header from file {}", path.display());
        return Err(anyhow!("could not find header in document"));
    }
    let bson_header = res.unwrap().clone(); // TODO avoid clone ?
    let header: EmbeddedBsonHeader = bson::from_bson(bson_header).unwrap();
    log::info!(" bson header reloaded");
    Ok(header)
} // end of get_bson_header

/// The structure returned by bson_load.
pub struct EmbeddedBsonReload<F, NodeId> {
    /// The minimal embedded data when graph is symetric
    pub(crate) out_embedded: Array2<F>,
    /// If grap is asymetric we get embedding of nodes as targets (or destinations) in_embedded
    pub(crate) in_embedded: Option<Array2<F>>,
    /// If nodeindexation was dumped in bson
    pub(crate) node_indexation: Option<IndexSet<NodeId>>,
} // end of EmbeddedBsonReload

impl<F, NodeId> EmbeddedBsonReload<F, NodeId> {
    pub fn new(
        out_embedded: Array2<F>,
        in_embedded: Option<Array2<F>>,
        node_indexation: Option<IndexSet<NodeId>>,
    ) -> Self {
        EmbeddedBsonReload {
            out_embedded,
            in_embedded,
            node_indexation,
        }
    }
    /// returns embedded data. If asymetric embedding it is embedded as a source.
    /// If embedding is symetric it is the whole embedding.
    pub fn get_out_embedded(&self) -> &Array2<F> {
        &self.out_embedded
    }
    /// returns node indexation if present
    pub fn get_node_indexation(&self) -> Option<&IndexSet<NodeId>> {
        self.node_indexation.as_ref()
    }
    /// If the embedding dumped is asymetric this returns an array giving the embedding as a target (or destination) node.
    pub fn get_in_embedded(&self) -> Option<&Array2<F>> {
        self.in_embedded.as_ref()
    }
} // enf of impl EmbeddedBsonReload

/// reloads embedded data from a previous bson dump and returns a EmbeddedBsonReload structure.  
/// The structure  Embedded or EmbeddedAsym can be reconstituted from it (or with a graph reload to get nodeindexation)
///
pub fn bson_load<F, NodeId, EmbeddedData>(
    fname: &str,
) -> Result<EmbeddedBsonReload<F, NodeId>, anyhow::Error>
where
    NodeId: std::hash::Hash + std::cmp::Eq,
    EmbeddedData: EmbeddedT<F>,
    F: num_traits::Zero + Clone + serde::de::DeserializeOwned,
    NodeId: ToString + FromStr,
{
    //
    log::info!("entering bson_load, file name : {:?}", fname);
    //
    let path = Path::new(fname);
    let fileres = OpenOptions::new().read(true).open(path);
    let file;
    if fileres.is_ok() {
        file = fileres.unwrap();
        log::debug!("bson_load, path name : {:?}, file ok , unwrap done", path);
    } else {
        log::error!("reload of bson dump failed");
        return Err(anyhow!("reloadfailed: {}", fileres.err().unwrap()));
    }
    let mut bufreader = BufReader::new(file);
    // load header
    let res = Document::from_reader(&mut bufreader);
    if res.is_err() {
        log::error!("could not load document from file {}", path.display());
        return Err(anyhow!(res.err().unwrap()));
    }
    let doc = res.unwrap();
    let res = doc.get("header");
    if res.is_none() {
        log::error!("could load header from file {}", path.display());
        return Err(anyhow!("could not find header in document"));
    }
    log::debug!("\t found header key");
    let bson_header = res.unwrap().clone(); // TODO avoid clone ?
    // now decode our fields
    let header: EmbeddedBsonHeader = bson::from_bson(bson_header).unwrap();
    log::info!("header : {:?}", header);
    if header.version != 1 {
        log::error!("header format version : {}", header.version);
        return Err(anyhow!("format version error, inconsistent with header"));
    }
    // now reload data. First part is default OUT part
    let nb_data: usize = FromPrimitive::from_i64(header.nbdata).unwrap();
    log::debug!("bson_load , nb_data = {nb_data}");
    let dim: usize = FromPrimitive::from_i64(header.dimension).unwrap();
    log::debug!("bson_load , dim : {dim}");
    let type_name = std::any::type_name::<F>();
    if header.type_name != std::any::type_name::<F>() {
        log::error!(
            "header as type name : {}, reloading with : {}",
            header.type_name,
            type_name
        );
        return Err(anyhow!("type error, inconsistent with header"));
    }
    let mut out_array = Array2::<F>::zeros((0, dim));
    for i in 0..nb_data {
        // we have one document for each node
        let res = Document::from_reader(&mut bufreader);
        if res.is_err() {
            log::error!(
                "could not load document  for node {i} from file {}",
                path.display()
            );
            return Err(anyhow!(res.err().unwrap()));
        }
        let doc = res.unwrap();

        let mut key = i.to_string();
        key.push(',');
        key.push_str(&OUT.to_string());
        let res = doc.get(&key);
        if res.is_none() {
            log::error!("could not get record for key {:?}", key);
            return Err(anyhow!("could not get record for key {:?}", key));
        }
        // check key
        //        let options = DeserializerOptions::builder().human_readable(false).build();
        let data_1d_res = bson::from_bson(res.unwrap().clone());
        if data_1d_res.is_err() {
            log::info!(
                "\t bson decoding error for node {i}, key : {key}, err : {:?}",
                data_1d_res.err()
            );
            panic!("bson decoding error for OUT node {i}");
        }
        let data_1d: Vec<F> = data_1d_res.unwrap();
        let res = out_array.push_row(ArrayView1::from(data_1d.as_slice()));
        if res.is_err() {
            return Err(anyhow!("could not insert OUT array vector {:?}", i));
        }
        log::debug!("\t decoded OUT array vector {:?}", i);
    }
    log::info!("\t got OUT part of embedding");
    //
    let mut in_array_opt: Option<Array2<F>> = None;
    if !header.symetric {
        let mut in_array = Array2::<F>::zeros((0, dim));
        log::info!("\t asymetric embedding, decoding IN part of embedding");
        for i in 0..nb_data {
            // we have one document for each node
            let res = Document::from_reader(&mut bufreader);
            if res.is_err() {
                log::error!(
                    "could not load document  for node IN {i} from file {}",
                    path.display()
                );
                return Err(anyhow!(res.err().unwrap()));
            }
            let doc = res.unwrap();
            let mut key = i.to_string();
            key.push(',');
            key.push_str(&IN.to_string());
            let res = doc.get(&key);
            if res.is_none() {
                log::error!("could get record for key {:?}", key);
                return Err(anyhow!("could get record for key {:?}", key));
            }
            //            let options = DeserializerOptions::builder().human_readable(false).build();
            let data_1d: Vec<F> = bson::from_bson(res.unwrap().clone()).unwrap();
            let res = in_array.push_row(ArrayView1::from(data_1d.as_slice()));
            if res.is_err() {
                return Err(anyhow!("could not insert IN array vector {:?}", i));
            }
            log::debug!("decoded IN array vector {:?}", i);
        }
        in_array_opt = Some(in_array);
    }
    log::info!("\t finished bson decoding of embedded vectors");
    log::info!("\t bson load checking for key indexation");
    // trying node indexation
    let res = Document::from_reader(&mut bufreader);
    if res.is_err() {
        log::info!(
            "could not find indexation document from file {}, err : {:?}",
            path.display(),
            res.err()
        );
        Ok(EmbeddedBsonReload::new(out_array, in_array_opt, None))
    } else {
        log::info!("\t found document , node indexation");
        let bson_indexation = res.unwrap();
        let mut node_indexation = IndexSet::<NodeId>::with_capacity(bson_indexation.len());
        let mut index_iter = bson_indexation.iter();
        while let Some(item) = index_iter.next() {
            let res = NodeId::from_str(item.0);
            let node_id = match res {
                Ok(node_id) => node_id,
                Err(_e) => {
                    log::error!("could get node rank for node_id {}", item.0);
                    return Err(anyhow!("could get node rank for node_id {}", item.0));
                }
            };
            let res = item.1.as_i64();
            if res.is_none() {
                log::error!("could get node rank for node_id {}", item.0);
                return Err(anyhow!("could get node rank for node_id {}", item.0));
            }
            node_indexation.insert(node_id);
        }
        assert_eq!(node_indexation.len(), nb_data);
        Ok(EmbeddedBsonReload::new(
            out_array,
            in_array_opt,
            Some(node_indexation),
        ))
    } // end case we have indexation in bson file
} // end of bson_load

// This function checks equality of embedded and reloaded
#[allow(unused)]
fn check_equality<F, NodeId, EmbeddedData>(
    embedding: &Embedding<F, NodeId, EmbeddedData>,
    reloaded: &EmbeddedBsonReload<F, NodeId>,
) -> Result<bool, anyhow::Error>
where
    NodeId: std::hash::Hash + std::cmp::Eq,
    EmbeddedData: EmbeddedT<F>,
    F: num_traits::Zero + Clone + serde::de::DeserializeOwned + PartialEq + std::fmt::Display,
    NodeId: ToString + FromStr,
{
    let embedded_data = embedding.get_embedded_data();
    let out_reloaded = reloaded.get_out_embedded();
    assert_eq!(
        out_reloaded.dim(),
        (embedded_data.get_nb_nodes(), embedded_data.get_dimension())
    );
    // first chech out as it is the default and is always present
    log::info!("test_bson_moreno checking equality of reload, OUT embedding");
    for i in 0..embedded_data.get_nb_nodes() {
        let vec_e = embedded_data.get_embedded_node(i, OUT);
        for j in 0..embedded_data.get_dimension() {
            if vec_e[j] != out_reloaded[[i, j]] {
                log::error!(
                    " reloaded differ from embedded at vector rank : {}, dim j : {}, embedded : {}, reloaded : {}",
                    i,
                    j,
                    vec_e[j],
                    out_reloaded[[i, j]]
                );
            }
        }
    }
    if !embedded_data.is_symetric() {
        log::info!("test_bson_moreno checking equality of reload : IN embedding");
        // same thing with tag = IN
        let in_reloaded = reloaded.get_in_embedded().unwrap();
        for i in 0..embedded_data.get_nb_nodes() {
            let vec_e = embedded_data.get_embedded_node(i, IN);
            for j in 0..embedded_data.get_dimension() {
                if vec_e[j] != in_reloaded[[i, j]] {
                    log::error!(
                        " reloaded differ from embedded at vector rank : {}, dim j : {}, embedded : {}, reloaded : {}",
                        i,
                        j,
                        vec_e[j],
                        in_reloaded[[i, j]]
                    );
                    return Ok(false);
                }
            }
        }
    } // end check IN in asymetric case
    // check equality of node indexation
    if reloaded.get_node_indexation().is_some() {
        log::debug!("checking node indeation");
        let loaded_indexation = reloaded.get_node_indexation().unwrap();
        let node_indexation = embedding.get_node_indexation();
        assert_eq!(loaded_indexation.len(), node_indexation.len());
        for i in 0..node_indexation.len() {
            let indexed = node_indexation.get_index(i).unwrap();
            let reload_indexed = loaded_indexation.get_index(i).unwrap();
            if indexed != reload_indexed {
                log::error!(
                    "chech equality of node indexation failed at slot i : {} , node_indexation : {}, reloaded {}",
                    i,
                    indexed.to_string(),
                    reload_indexed.to_string()
                );
                return Ok(false);
            }
        }
    } // end case node_indexation
    log::debug!("check_equality exiting");
    Ok(true)
} // end of check equality

#[cfg(test)]
mod tests {

    use super::*;
    use crate::prelude::*;

    fn log_init_test() {
        let res = env_logger::builder().is_test(true).try_init();
        if res.is_err() {
            println!("could not init log");
        }
    } // end of log_init_test

    // test with usize embedding
    #[test]
    fn test_bson_moreno_usize() {
        log_init_test();
        //
        let path = Path::new(crate::DATADIR)
            .join("moreno_lesmis")
            .join("out.moreno_lesmis_lesmis");
        log::debug!("\n\n test_bson_moreno, loading file {:?}", path);
        let header_size = crate::io::csv::get_header_size(&path);
        assert_eq!(header_size.unwrap(), 2);
        println!("\n\n test_weighted_csv_to_trimat, data : {:?}", path);
        //
        let trimat_res = csv_to_trimat::<f64>(&path, false, b' ');
        if let Err(err) = &trimat_res {
            eprintln!("ERROR: {}", err);
            assert_eq!(1, 0);
        }
        let (trimat, node_indexation) = trimat_res.unwrap();
        // embed
        let sketch_size = 15;
        let decay = 0.1;
        let nb_iter = 2;
        let parallel = false;
        let symetric = true;
        let sketching_params = NodeSketchParams {
            sketch_size,
            decay,
            nb_iter,
            symetric,
            parallel,
        };
        let mut nodesketch = NodeSketch::new(sketching_params, trimat);
        let embedding = Embedding::new(node_indexation, &mut nodesketch);
        if embedding.is_err() {
            log::error!(
                "nodesketch embedding failed error : {:?}",
                embedding.as_ref().err()
            );
            std::process::exit(1);
        };
        let embedding = embedding.unwrap();
        // now we can do a bson dump
        let output = io::output::Output::new(
            io::output::Format::BSON,
            true,
            &Some(String::from("moreno_usize.bson")),
        );
        let bson_res = bson_dump(&embedding, &output);
        if bson_res.is_err() {
            log::error!("bson dump in file {} failed", &output.get_output_name());
            log::error!("error returned : {:?}", bson_res.err().unwrap());
            assert_eq!(1, 0);
        }
        //
        log::info!("trying reload from {}", &output.get_output_name());
        let reloaded = bson_load::<usize, usize, Embedded<usize>>(output.get_output_name());
        if reloaded.is_err() {
            log::error!("reloading of bson from {} failed", output.get_output_name());
        }
        let reloaded = reloaded.unwrap();
        //
        let res_equality = check_equality(&embedding, &reloaded);
        match &res_equality {
            Err(_e) => {
                log::error!("check equality encountered error in test_bson_moreno_usize");
                assert_eq!(1, 0);
            }
            Ok(val) => match val {
                false => {
                    log::error!("check equality returned false in test_bson_moreno");
                    assert_eq!(1, 0);
                }
                true => {}
            },
        }
    } // end of test_bson_moreno

    #[test]
    fn test_bson_moreno_f32() {
        log_init_test();
        //
        let path = Path::new(crate::DATADIR)
            .join("moreno_lesmis")
            .join("out.moreno_lesmis_lesmis");
        log::debug!("\n\n test_bson_moreno, loading file {:?}", path);
        let header_size = crate::io::csv::get_header_size(&path);
        assert_eq!(header_size.unwrap(), 2);
        println!("\n\n test_weighted_csv_to_trimat, data : {:?}", path);
        //
        let trimat_res = csv_to_trimat::<f32>(&path, false, b' ');
        if let Err(err) = &trimat_res {
            eprintln!("ERROR: {}", err);
            assert_eq!(1, 0);
        }
        let (trimat, node_indexation) = trimat_res.unwrap();
        // embed
        let hope_m = HopeMode::ADA;
        let decay_f = 0.05;
        //    let range_m = RangeApproxMode::RANK(RangeRank::new(500, 2));
        let range_m = RangeApproxMode::EPSIL(RangePrecision::new(0.1, 10, 300));
        let params = HopeParams::new(hope_m, range_m, decay_f);
        // now we embed
        let mut hope = Hope::new(params, trimat);
        let hope_embedding = Embedding::new(node_indexation, &mut hope).unwrap();
        // now we can do a bson dump
        let output = io::output::Output::new(
            io::output::Format::BSON,
            true,
            &Some(String::from("moreno_f32.bson")),
        );
        let bson_res = bson_dump(&hope_embedding, &output);
        if bson_res.is_err() {
            log::error!("bson dump in file {} failed", &output.get_output_name());
            log::error!("error returned : {:?}", bson_res.err().unwrap());
            assert_eq!(1, 0);
        }
        //
        log::info!("trying reload from {}", &output.get_output_name());
        let reloaded = bson_load::<f32, usize, Embedded<f32>>(output.get_output_name());
        if reloaded.is_err() {
            log::error!("reloading of bson from {} failed", output.get_output_name());
        }
        let reloaded = reloaded.unwrap();
        //
        let res_equality = check_equality(&hope_embedding, &reloaded);
        match &res_equality {
            Err(_e) => {
                log::error!("check equality encountered error in test_bson_moreno");
                assert_eq!(1, 0);
            }
            Ok(val) => match val {
                false => {
                    log::error!("check equality returned false in test_bson_moreno");
                    assert_eq!(1, 0);
                }
                true => {}
            },
        }
    } // end of test_bson_moreno_f32
} // end of mod tests