exon 0.32.4

A platform for scientific data processing and analysis.
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

// Copyright 2023 WHERE TRUE Technologies.
//
// Licensed under the Apache License, Version 2.0 (the "License");
// you may not use this file except in compliance with the License.
// You may obtain a copy of the License at
//
//     http://www.apache.org/licenses/LICENSE-2.0
//
// Unless required by applicable law or agreed to in writing, software
// distributed under the License is distributed on an "AS IS" BASIS,
// WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
// See the License for the specific language governing permissions and
// limitations under the License.

use std::sync::Arc;

use super::table_provider::{ListingMzMLTable, ListingMzMLTableOptions};
use crate::{
    datasources::{exon_listing_table_options::ExonListingConfig, ScanFunction},
    ExonRuntimeEnvExt,
};
use datafusion::{
    datasource::{function::TableFunctionImpl, TableProvider},
    error::Result,
    execution::context::SessionContext,
    logical_expr::Expr,
};
use exon_mzml::MzMLSchemaBuilder;

/// A table function that returns a table provider for a MzML file.
pub struct MzMLScanFunction {
    ctx: SessionContext,
}

impl std::fmt::Debug for MzMLScanFunction {
    fn fmt(&self, f: &mut std::fmt::Formatter<'_>) -> std::fmt::Result {
        f.debug_struct("MzMLScanFunction").finish()
    }
}

impl MzMLScanFunction {
    /// Create a new `MzMLScanFunction`.
    pub fn new(ctx: SessionContext) -> Self {
        Self { ctx }
    }
}

impl TableFunctionImpl for MzMLScanFunction {
    fn call(&self, exprs: &[Expr]) -> Result<Arc<dyn TableProvider>> {
        let listing_scan_function = ScanFunction::try_from(exprs)?;
        futures::executor::block_on(async {
            self.ctx
                .runtime_env()
                .exon_register_object_store_url(listing_scan_function.listing_table_url.as_ref())
                .await
        })?;

        let schema = MzMLSchemaBuilder::default().build();

        let listing_table_options =
            ListingMzMLTableOptions::new(listing_scan_function.file_compression_type);

        let listing_table_config = ExonListingConfig::new_with_options(
            listing_scan_function.listing_table_url,
            listing_table_options,
        );

        let listing_table = ListingMzMLTable::new(listing_table_config, schema);

        Ok(Arc::new(listing_table))
    }
}