Unverified Commit c3f89c7f authored by David López's avatar David López Committed by GitHub
Browse files

Merge pull request #19639 from mvdbeek/data_provder_raise_error

[24.2] Raise ``MessageException`` when using data provider on incompatible data
parents 79681d8f 26652640
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+9 −1
Original line number Diff line number Diff line
@@ -4,6 +4,7 @@ Data providers for genome visualizations.

import abc
import itertools
import logging
import math
import os
import random
@@ -44,6 +45,8 @@ from galaxy.model import DatasetInstance
from galaxy.visualization.data_providers.basic import BaseDataProvider
from galaxy.visualization.data_providers.cigar import get_ref_based_read_seq_and_cigar

log = logging.getLogger(__name__)

IntWebParam = Union[str, int]

#
@@ -234,7 +237,12 @@ class GenomeDataProvider(BaseDataProvider):
        start, end = int(start), int(end)
        with self.open_data_file() as data_file:
            iterator = self.get_iterator(data_file, chrom, start, end, **kwargs)
            try:
                data = self.process_data(iterator, start_val, max_vals, start=start, end=end, **kwargs)
            except ValueError as e:
                err_msg = f"Could not return data, error was '{e}'"
                log.warning(err_msg, exc_info=True)
                raise MessageException(err_msg)
        return data

    def get_genome_data(self, chroms_info, **kwargs):