wormjam-consortium / wormjam

Website/Repository containing the WormJam genome scale model
https://wormjam.life
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Bump pyparsing from 2.4.7 to 3.0.6 #85

Closed dependabot[bot] closed 2 years ago

dependabot[bot] commented 2 years ago

Bumps pyparsing from 2.4.7 to 3.0.6.

Release notes

Sourced from pyparsing's releases.

pyparsing 3.0.6

  • Added suppress_warning() method to individually suppress a warning on a specific ParserElement. Used to refactor original_text_for to preserve internal results names, which, while undocumented, had been adopted by some projects.

  • Fix bug when delimited_list was called with a str literal instead of a parse expression.

pyparsing 3.0.5

  • Added return type annotations for col, line, and lineno.

  • Fixed bug when warn_ungrouped_named_tokens_in_collection warning was raised when assigning a results name to an original_text_for expression. (Issue #110, would raise warning in packaging.)

  • Fixed internal bug where ParserElement.streamline() would not return self if already streamlined.

  • Changed run_tests() output to default to not showing line and column numbers. If line numbering is desired, call with with_line_numbers=True. Also fixed minor bug where separating line was not included after a test failure.

pyparsing 3.0.4

  • Fixed bug in which Dict classes did not correctly return tokens as nested ParseResults, reported by and fix identified by Bu Sun Kim, many thanks!!!

  • Documented API-changing side-effect of converting ParseResults to use __slots__ to pre-define instance attributes. This means that code written like this (which was allowed in pyparsing 2.4.7):

    result = Word(alphas).parseString("abc")
    result.xyz = 100
    

    now raises this Python exception:

    AttributeError: 'ParseResults' object has no attribute 'xyz'
    

    To add new attribute values to ParseResults object in 3.0.0 and later, you must assign them using indexed notation:

    result["xyz"] = 100
    

    You will still be able to access this new value as an attribute or as an indexed item.

  • Fixed bug in railroad diagramming where the vertical limit would count all expressions in a group, not just those that would create visible railroad elements.

pyparsing 3.0.3

  • Fixed regex typo in one_of fix for as_keyword=True.

  • Fixed a whitespace-skipping bug, Issue #319, introduced as part of the revert of the LineStart changes. Reported by Marc-Alexandre Côté, thanks!

  • Added header column labeling > 100 in with_line_numbers - some input lines are longer than others.

pyparsing 3.0.2

  • Reverted change in behavior with LineStart and StringStart, which changed the interpretation of when and how LineStart and StringStart should match when a line starts with spaces. In 3.0.0, the xxxStart expressions were not really treated like expressions in their own right, but as modifiers to the following expression when used like LineStart() + expr, so that if there were whitespace on the line before expr (which would match in versions prior to 3.0.0), the match would fail.

    3.0.0 implemented this by automatically promoting LineStart() + expr to AtLineStart(expr), which broke existing parsers that did not expect expr to necessarily be right at the start of the line, but only be the first token found on the line. This was reported as a regression in Issue #317.

    In 3.0.2, pyparsing reverts to the previous behavior, but will retain the new AtLineStart and AtStringStart expression classes, so that parsers can chose whichever behavior applies in their specific instance. Specifically:

    # matches expr if it is the first token on the line (allows for leading whitespace)
    LineStart() + expr
    

... (truncated)

Changelog

Sourced from pyparsing's changelog.

Version 3.0.6 -

  • Added suppress_warning() method to individually suppress a warning on a specific ParserElement. Used to refactor original_text_for to preserve internal results names, which, while undocumented, had been adopted by some projects.

  • Fix bug when delimited_list was called with a str literal instead of a parse expression.

Version 3.0.5 -

  • Added return type annotations for col, line, and lineno.

  • Fixed bug when warn_ungrouped_named_tokens_in_collection warning was raised when assigning a results name to an original_text_for expression. (Issue #110, would raise warning in packaging.)

  • Fixed internal bug where ParserElement.streamline() would not return self if already streamlined.

  • Changed run_tests() output to default to not showing line and column numbers. If line numbering is desired, call with with_line_numbers=True. Also fixed minor bug where separating line was not included after a test failure.

Version 3.0.4 -

  • Fixed bug in which Dict classes did not correctly return tokens as nested ParseResults, reported by and fix identified by Bu Sun Kim, many thanks!!!

  • Documented API-changing side-effect of converting ParseResults to use __slots__ to pre-define instance attributes. This means that code written like this (which was allowed in pyparsing 2.4.7):

    result = Word(alphas).parseString("abc") result.xyz = 100

    now raises this Python exception:

    AttributeError: 'ParseResults' object has no attribute 'xyz'

    To add new attribute values to ParseResults object in 3.0.0 and later, you must assign them using indexed notation:

    result["xyz"] = 100

    You will still be able to access this new value as an attribute or as an indexed item.

... (truncated)

Commits
  • 16b766b Add warning suppression detection for all diagnostic warnings
  • b429eb6 Update version time for release
  • e22d4ca Revert results names for packaging compatibility (#110)
  • 85fc927 Add tests written when working on #323
  • c93973e Add asserts in unit test
  • b0adfe7 Rework version_info to use typing.NamedTuple
  • 22f8847 Add debug arg to scan_string, transform_string, search_string
  • ebd99e2 Update update_pyparsing_timestamp.py to new code structure
  • 14427a5 Get Travis and tox to work better together
  • 6bb97cc Make Travis run all tox environments
  • Additional commits viewable in compare view


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dependabot[bot] commented 2 years ago

Superseded by #89.