[Debichem-devel] Bug#1150445: prody: FTBFS: E Expected {~{'and'} ~{'or'} W:(#$',.0-; @-Z_-z~)}, found 'or' (at char 8), (line:1, col:9)
Santiago Vila
sanvila at debian.org
Fri Oct 9 19:13:41 BST 2026
Package: src:prody
Version: 2.6.1+dfsg-4
Severity: serious
Tags: ftbfs forky sid
Dear maintainer:
During a rebuild of all packages in unstable, this package failed to build.
Below you will find the last part of the build log (probably the most
relevant part, but not necessarily). If required, the full build log
is available here:
https://people.debian.org/~sanvila/build-logs/202610/
About the archive rebuild: The build was made on virtual machines from AWS,
using sbuild and a reduced chroot with only build-essential packages.
If you cannot reproduce the bug please contact me privately, as I
am willing to provide ssh access to a virtual machine where the bug is
fully reproducible.
If this is really a bug in one of the build-depends, please use
reassign and add an affects on src:prody, so that this is still
visible in the BTS web page for this package.
Thanks.
--------------------------------------------------------------------------------
[...]
> raise SelectionError(selstr, err.column, msg + '\n' + str(err))
E prody.atomic.select.SelectionError: An invalid selection string is encountered:
E 'chain A or chain B or chain E or chain F or chain G or chain H or chain I or chain P or chain Q'
E ^ parsing failed here
E Expected {~{'and'} ~{'or'} W:(#$',.0-;@-Z_-z~)}, found 'or' (at char 8), (line:1, col:9)
prody/atomic/select.py:1022: SelectionError
------------------------------ Captured log call -------------------------------
DEBUG .prody:logger.py:135 12793 atoms and 1 coordinate set(s) were parsed in 0.15s.
=============================== warnings summary ===============================
prody/atomic/flags.py:532
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.14_prody/build/prody/atomic/flags.py:532: SyntaxWarning: "\ " is an invalid escape sequence. Such sequences will not work in the future. Did you mean "\\ "? A raw string is also an option.
\ *PDB* *Source* *Conflict*
prody/atomic/select.py:203
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.14_prody/build/prody/atomic/select.py:203: SyntaxWarning: "\|" is an invalid escape sequence. Such sequences will not work in the future. Did you mean "\\|"? A raw string is also an option.
**Special characters** (``~!@#$%^&*()-_=+[{}]\|;:,<>./?()'"``) must be
prody/atomic/select.py:758
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.14_prody/build/prody/atomic/select.py:758: SyntaxWarning: "\ " is an invalid escape sequence. Such sequences will not work in the future. Did you mean "\\ "? A raw string is also an option.
RE_NRANGE = re_compile(_ + '\ *(to|:)\ *' + _)
prody/atomic/select.py:735
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.14_prody/build/prody/atomic/select.py:735: PyparsingDeprecationWarning: 'setParseAction' deprecated - use 'set_parse_action'
PP_SCHARS.setParseAction(specialCharsParseAction)
prody/atomic/select.py:755
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.14_prody/build/prody/atomic/select.py:755: PyparsingDeprecationWarning: 'setParseAction' deprecated - use 'set_parse_action'
PP_REGEXP.setParseAction(regularExpParseAction)
prody/atomic/select.py:804
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.14_prody/build/prody/atomic/select.py:804: PyparsingDeprecationWarning: 'setParseAction' deprecated - use 'set_parse_action'
PP_NRANGE.setParseAction(rangeParseAction)
prody/sequence/analysis.py:174
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.14_prody/build/prody/sequence/analysis.py:174: SyntaxWarning: "\{" is an invalid escape sequence. Such sequences will not work in the future. Did you mean "\\{"? A raw string is also an option.
* ``'minent'``: :math:`min\{H(X), H(Y)\}`, minimum entropy
prody/proteins/dssp.py:87
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.14_prody/build/prody/proteins/dssp.py:87: SyntaxWarning: "\*" is an invalid escape sequence. Such sequences will not work in the future. Did you mean "\\*"? A raw string is also an option.
* *dssp_acc*: number of water molecules in contact with this residue \*10.
prody/dynamics/pca.py:79
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.14_prody/build/prody/dynamics/pca.py:79: SyntaxWarning: "\_" is an invalid escape sequence. Such sequences will not work in the future. Did you mean "\\_"? A raw string is also an option.
treated specially. Let's say **C**\_ij is the element of the
../../../../../../usr/lib/python3/dist-packages/zombie_imp/__init__.py:1
/usr/lib/python3/dist-packages/zombie_imp/__init__.py:1: DeprecationWarning: the imp module was removed in favour of importlib. Someone brought it back, but it's not a good idea to use it.
from .imp_3_11 import *
prody/tests/apps/test_prody_anm.py:40
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.14_prody/build/prody/tests/apps/test_prody_anm.py:40: PytestUnknownMarkWarning: Unknown pytest.mark.slow - is this a typo? You can register custom marks to avoid this warning - for details, see https://docs.pytest.org/en/stable/how-to/mark.html
@dec.slow
prody/tests/apps/test_prody_catdcd.py:35
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.14_prody/build/prody/tests/apps/test_prody_catdcd.py:35: PytestUnknownMarkWarning: Unknown pytest.mark.slow - is this a typo? You can register custom marks to avoid this warning - for details, see https://docs.pytest.org/en/stable/how-to/mark.html
@dec.slow
prody/tests/apps/test_prody_catdcd.py:51
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.14_prody/build/prody/tests/apps/test_prody_catdcd.py:51: PytestUnknownMarkWarning: Unknown pytest.mark.slow - is this a typo? You can register custom marks to avoid this warning - for details, see https://docs.pytest.org/en/stable/how-to/mark.html
@dec.slow
prody/tests/apps/test_prody_catdcd.py:78
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.14_prody/build/prody/tests/apps/test_prody_catdcd.py:78: PytestUnknownMarkWarning: Unknown pytest.mark.slow - is this a typo? You can register custom marks to avoid this warning - for details, see https://docs.pytest.org/en/stable/how-to/mark.html
@dec.slow
prody/tests/apps/test_prody_catdcd.py:107
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.14_prody/build/prody/tests/apps/test_prody_catdcd.py:107: PytestUnknownMarkWarning: Unknown pytest.mark.slow - is this a typo? You can register custom marks to avoid this warning - for details, see https://docs.pytest.org/en/stable/how-to/mark.html
@dec.slow
prody/tests/apps/test_prody_catdcd.py:117
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.14_prody/build/prody/tests/apps/test_prody_catdcd.py:117: PytestUnknownMarkWarning: Unknown pytest.mark.slow - is this a typo? You can register custom marks to avoid this warning - for details, see https://docs.pytest.org/en/stable/how-to/mark.html
@dec.slow
prody/tests/apps/test_prody_catdcd.py:127
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.14_prody/build/prody/tests/apps/test_prody_catdcd.py:127: PytestUnknownMarkWarning: Unknown pytest.mark.slow - is this a typo? You can register custom marks to avoid this warning - for details, see https://docs.pytest.org/en/stable/how-to/mark.html
@dec.slow
prody/tests/apps/test_prody_catdcd.py:136
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.14_prody/build/prody/tests/apps/test_prody_catdcd.py:136: PytestUnknownMarkWarning: Unknown pytest.mark.slow - is this a typo? You can register custom marks to avoid this warning - for details, see https://docs.pytest.org/en/stable/how-to/mark.html
@dec.slow
prody/tests/apps/test_prody_examples.py:63
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.14_prody/build/prody/tests/apps/test_prody_examples.py:63: PytestUnknownMarkWarning: Unknown pytest.mark.slow - is this a typo? You can register custom marks to avoid this warning - for details, see https://docs.pytest.org/en/stable/how-to/mark.html
@dec.slow
prody/tests/apps/test_prody_gnm.py:39
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.14_prody/build/prody/tests/apps/test_prody_gnm.py:39: PytestUnknownMarkWarning: Unknown pytest.mark.slow - is this a typo? You can register custom marks to avoid this warning - for details, see https://docs.pytest.org/en/stable/how-to/mark.html
@dec.slow
prody/tests/apps/test_prody_pca.py:43
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.14_prody/build/prody/tests/apps/test_prody_pca.py:43: PytestUnknownMarkWarning: Unknown pytest.mark.slow - is this a typo? You can register custom marks to avoid this warning - for details, see https://docs.pytest.org/en/stable/how-to/mark.html
@dec.slow
prody/tests/apps/test_prody_pca.py:60
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.14_prody/build/prody/tests/apps/test_prody_pca.py:60: PytestUnknownMarkWarning: Unknown pytest.mark.slow - is this a typo? You can register custom marks to avoid this warning - for details, see https://docs.pytest.org/en/stable/how-to/mark.html
@dec.slow
prody/compounds/pdbligands.py:142
prody/compounds/pdbligands.py:142
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.14_prody/build/prody/compounds/pdbligands.py:142: DeprecationWarning: Testing an element's truth value will always return True in future versions. Use specific 'len(elem)' or 'elem is not None' test instead.
if results:
prody/compounds/pdbligands.py:145
prody/compounds/pdbligands.py:145
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.14_prody/build/prody/compounds/pdbligands.py:145: DeprecationWarning: Testing an element's truth value will always return True in future versions. Use specific 'len(elem)' or 'elem is not None' test instead.
if results:
prody/compounds/pdbligands.py:224
prody/compounds/pdbligands.py:224
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.14_prody/build/prody/compounds/pdbligands.py:224: DeprecationWarning: Testing an element's truth value will always return True in future versions. Use specific 'len(elem)' or 'elem is not None' test instead.
for bond in list(root.find(ns + 'chem_comp_bondCategory') or bonds):
prody/tests/atomic/test_select.py:478
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.14_prody/build/prody/tests/atomic/test_select.py:478: PytestUnknownMarkWarning: Unknown pytest.mark.slow - is this a typo? You can register custom marks to avoid this warning - for details, see https://docs.pytest.org/en/stable/how-to/mark.html
@dec.slow
prody/tests/proteins/test_dssp.py:19
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.14_prody/build/prody/tests/proteins/test_dssp.py:19: PytestUnknownMarkWarning: Unknown pytest.mark.slow - is this a typo? You can register custom marks to avoid this warning - for details, see https://docs.pytest.org/en/stable/how-to/mark.html
@dec.slow
prody/tests/proteins/test_dssp.py:25
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.14_prody/build/prody/tests/proteins/test_dssp.py:25: PytestUnknownMarkWarning: Unknown pytest.mark.slow - is this a typo? You can register custom marks to avoid this warning - for details, see https://docs.pytest.org/en/stable/how-to/mark.html
@dec.slow
prody/tests/proteins/test_fixer.py:28
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.14_prody/build/prody/tests/proteins/test_fixer.py:28: PytestUnknownMarkWarning: Unknown pytest.mark.slow - is this a typo? You can register custom marks to avoid this warning - for details, see https://docs.pytest.org/en/stable/how-to/mark.html
@dec.slow
prody/tests/proteins/test_localpdb.py:23
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.14_prody/build/prody/tests/proteins/test_localpdb.py:23: PytestUnknownMarkWarning: Unknown pytest.mark.slow - is this a typo? You can register custom marks to avoid this warning - for details, see https://docs.pytest.org/en/stable/how-to/mark.html
@dec.slow
prody/tests/proteins/test_localpdb.py:29
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.14_prody/build/prody/tests/proteins/test_localpdb.py:29: PytestUnknownMarkWarning: Unknown pytest.mark.slow - is this a typo? You can register custom marks to avoid this warning - for details, see https://docs.pytest.org/en/stable/how-to/mark.html
@dec.slow
prody/tests/proteins/test_localpdb.py:39
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.14_prody/build/prody/tests/proteins/test_localpdb.py:39: PytestUnknownMarkWarning: Unknown pytest.mark.slow - is this a typo? You can register custom marks to avoid this warning - for details, see https://docs.pytest.org/en/stable/how-to/mark.html
@dec.slow
prody/tests/proteins/test_localpdb.py:51
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.14_prody/build/prody/tests/proteins/test_localpdb.py:51: PytestUnknownMarkWarning: Unknown pytest.mark.slow - is this a typo? You can register custom marks to avoid this warning - for details, see https://docs.pytest.org/en/stable/how-to/mark.html
@dec.slow
prody/tests/proteins/test_localpdb.py:73
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.14_prody/build/prody/tests/proteins/test_localpdb.py:73: PytestUnknownMarkWarning: Unknown pytest.mark.slow - is this a typo? You can register custom marks to avoid this warning - for details, see https://docs.pytest.org/en/stable/how-to/mark.html
@dec.slow
prody/tests/proteins/test_pdbfile.py:277
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.14_prody/build/prody/tests/proteins/test_pdbfile.py:277: PytestUnknownMarkWarning: Unknown pytest.mark.slow - is this a typo? You can register custom marks to avoid this warning - for details, see https://docs.pytest.org/en/stable/how-to/mark.html
@dec.slow
prody/tests/proteins/test_pdbfile.py:309
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.14_prody/build/prody/tests/proteins/test_pdbfile.py:309: PytestUnknownMarkWarning: Unknown pytest.mark.slow - is this a typo? You can register custom marks to avoid this warning - for details, see https://docs.pytest.org/en/stable/how-to/mark.html
@dec.slow
prody/tests/proteins/test_pdbfile.py:325
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.14_prody/build/prody/tests/proteins/test_pdbfile.py:325: PytestUnknownMarkWarning: Unknown pytest.mark.slow - is this a typo? You can register custom marks to avoid this warning - for details, see https://docs.pytest.org/en/stable/how-to/mark.html
@dec.slow
prody/tests/proteins/test_pdbfile.py:351
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.14_prody/build/prody/tests/proteins/test_pdbfile.py:351: PytestUnknownMarkWarning: Unknown pytest.mark.slow - is this a typo? You can register custom marks to avoid this warning - for details, see https://docs.pytest.org/en/stable/how-to/mark.html
@dec.slow
prody/tests/proteins/test_pdbfile.py:377
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.14_prody/build/prody/tests/proteins/test_pdbfile.py:377: PytestUnknownMarkWarning: Unknown pytest.mark.slow - is this a typo? You can register custom marks to avoid this warning - for details, see https://docs.pytest.org/en/stable/how-to/mark.html
@dec.slow
prody/tests/proteins/test_pdbfile.py:386
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.14_prody/build/prody/tests/proteins/test_pdbfile.py:386: PytestUnknownMarkWarning: Unknown pytest.mark.slow - is this a typo? You can register custom marks to avoid this warning - for details, see https://docs.pytest.org/en/stable/how-to/mark.html
@dec.slow
prody/tests/proteins/test_pdbfile.py:395
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.14_prody/build/prody/tests/proteins/test_pdbfile.py:395: PytestUnknownMarkWarning: Unknown pytest.mark.slow - is this a typo? You can register custom marks to avoid this warning - for details, see https://docs.pytest.org/en/stable/how-to/mark.html
@dec.slow
prody/tests/proteins/test_pdbfile.py:409
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.14_prody/build/prody/tests/proteins/test_pdbfile.py:409: PytestUnknownMarkWarning: Unknown pytest.mark.slow - is this a typo? You can register custom marks to avoid this warning - for details, see https://docs.pytest.org/en/stable/how-to/mark.html
@dec.slow
prody/tests/proteins/test_pdbfile.py:439
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.14_prody/build/prody/tests/proteins/test_pdbfile.py:439: PytestUnknownMarkWarning: Unknown pytest.mark.slow - is this a typo? You can register custom marks to avoid this warning - for details, see https://docs.pytest.org/en/stable/how-to/mark.html
@dec.slow
prody/tests/proteins/test_pdbfile.py:499
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.14_prody/build/prody/tests/proteins/test_pdbfile.py:499: PytestUnknownMarkWarning: Unknown pytest.mark.slow - is this a typo? You can register custom marks to avoid this warning - for details, see https://docs.pytest.org/en/stable/how-to/mark.html
@dec.slow
prody/tests/proteins/test_pdbfile.py:509
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.14_prody/build/prody/tests/proteins/test_pdbfile.py:509: PytestUnknownMarkWarning: Unknown pytest.mark.slow - is this a typo? You can register custom marks to avoid this warning - for details, see https://docs.pytest.org/en/stable/how-to/mark.html
@dec.slow
prody/tests/proteins/test_pdbfile.py:526
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.14_prody/build/prody/tests/proteins/test_pdbfile.py:526: PytestUnknownMarkWarning: Unknown pytest.mark.slow - is this a typo? You can register custom marks to avoid this warning - for details, see https://docs.pytest.org/en/stable/how-to/mark.html
@dec.slow
prody/tests/proteins/test_pdbfile.py:543
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.14_prody/build/prody/tests/proteins/test_pdbfile.py:543: PytestUnknownMarkWarning: Unknown pytest.mark.slow - is this a typo? You can register custom marks to avoid this warning - for details, see https://docs.pytest.org/en/stable/how-to/mark.html
@dec.slow
prody/tests/proteins/test_waterbridges.py:43
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.14_prody/build/prody/tests/proteins/test_waterbridges.py:43: PytestUnknownMarkWarning: Unknown pytest.mark.slow - is this a typo? You can register custom marks to avoid this warning - for details, see https://docs.pytest.org/en/stable/how-to/mark.html
@dec.slow
prody/tests/proteins/test_waterbridges.py:66
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.14_prody/build/prody/tests/proteins/test_waterbridges.py:66: PytestUnknownMarkWarning: Unknown pytest.mark.slow - is this a typo? You can register custom marks to avoid this warning - for details, see https://docs.pytest.org/en/stable/how-to/mark.html
@dec.slow
prody/tests/proteins/test_waterbridges.py:88
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.14_prody/build/prody/tests/proteins/test_waterbridges.py:88: PytestUnknownMarkWarning: Unknown pytest.mark.slow - is this a typo? You can register custom marks to avoid this warning - for details, see https://docs.pytest.org/en/stable/how-to/mark.html
@dec.slow
prody/tests/proteins/test_waterbridges.py:103
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.14_prody/build/prody/tests/proteins/test_waterbridges.py:103: PytestUnknownMarkWarning: Unknown pytest.mark.slow - is this a typo? You can register custom marks to avoid this warning - for details, see https://docs.pytest.org/en/stable/how-to/mark.html
@dec.slow
prody/tests/proteins/test_wwpdb.py:29
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.14_prody/build/prody/tests/proteins/test_wwpdb.py:29: PytestUnknownMarkWarning: Unknown pytest.mark.slow - is this a typo? You can register custom marks to avoid this warning - for details, see https://docs.pytest.org/en/stable/how-to/mark.html
@dec.slow
prody/tests/proteins/test_wwpdb.py:46
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.14_prody/build/prody/tests/proteins/test_wwpdb.py:46: PytestUnknownMarkWarning: Unknown pytest.mark.slow - is this a typo? You can register custom marks to avoid this warning - for details, see https://docs.pytest.org/en/stable/how-to/mark.html
@dec.slow
prody/tests/atomic/test_select.py: 35 warnings
prody/tests/ensemble/test_ensemble.py: 1 warning
prody/tests/proteins/test_ciffile.py: 3 warnings
prody/tests/proteins/test_waterbridges.py: 3 warnings
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.14_prody/build/prody/atomic/select.py:1100: PyparsingDeprecationWarning: 'infixNotation' deprecated - use 'infix_notation'
parser = operatorPrecedence(expr, oplist)
prody/tests/atomic/test_select.py: 35 warnings
prody/tests/ensemble/test_ensemble.py: 1 warning
prody/tests/proteins/test_ciffile.py: 3 warnings
prody/tests/proteins/test_waterbridges.py: 3 warnings
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.14_prody/build/prody/atomic/select.py:1101: PyparsingDeprecationWarning: 'setParseAction' deprecated - use 'set_parse_action'
parser.setParseAction(self._default)
prody/tests/atomic/test_select.py: 35 warnings
prody/tests/ensemble/test_ensemble.py: 1 warning
prody/tests/proteins/test_ciffile.py: 3 warnings
prody/tests/proteins/test_waterbridges.py: 3 warnings
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.14_prody/build/prody/atomic/select.py:1102: PyparsingDeprecationWarning: 'leaveWhitespace' deprecated - use 'leave_whitespace'
parser.leaveWhitespace()
prody/tests/atomic/test_select.py: 35 warnings
prody/tests/ensemble/test_ensemble.py: 1 warning
prody/tests/proteins/test_ciffile.py: 3 warnings
prody/tests/proteins/test_waterbridges.py: 3 warnings
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.14_prody/build/prody/atomic/select.py:1103: PyparsingDeprecationWarning: 'enablePackrat' deprecated - use 'enable_packrat'
parser.enablePackrat()
prody/tests/atomic/test_select.py: 272 warnings
prody/tests/ensemble/test_ensemble.py: 2 warnings
prody/tests/ensemble/test_functions.py: 1 warning
prody/tests/proteins/test_ciffile.py: 3 warnings
prody/tests/proteins/test_waterbridges.py: 25 warnings
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.14_prody/build/prody/atomic/select.py:1005: PyparsingDeprecationWarning: 'parseString' deprecated - use 'parse_string'
tokens = parser(selstr, parseAll=True)
prody/tests/atomic/test_select.py: 272 warnings
prody/tests/ensemble/test_ensemble.py: 2 warnings
prody/tests/ensemble/test_functions.py: 1 warning
prody/tests/proteins/test_ciffile.py: 3 warnings
prody/tests/proteins/test_waterbridges.py: 25 warnings
/usr/lib/python3/dist-packages/pyparsing/util.py:466: PyparsingDeprecationWarning: 'parseAll' argument is deprecated, use 'parse_all'
return fn(self, *args, **kwargs)
prody/tests/atomic/test_select.py: 9 warnings
prody/tests/proteins/test_waterbridges.py: 2 warnings
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.14_prody/build/prody/atomic/select.py:1082: PyparsingDeprecationWarning: 'oneOf' deprecated - use 'one_of'
(pp.oneOf('+ -'), 1, pp.opAssoc.RIGHT, self._sign),
prody/tests/atomic/test_select.py: 9 warnings
prody/tests/proteins/test_waterbridges.py: 2 warnings
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.14_prody/build/prody/atomic/select.py:1083: PyparsingDeprecationWarning: 'oneOf' deprecated - use 'one_of'
(pp.oneOf('** ^'), 2, pp.opAssoc.LEFT, self._pow),
prody/tests/atomic/test_select.py: 9 warnings
prody/tests/proteins/test_waterbridges.py: 2 warnings
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.14_prody/build/prody/atomic/select.py:1084: PyparsingDeprecationWarning: 'oneOf' deprecated - use 'one_of'
(pp.oneOf('* / %'), 2, pp.opAssoc.LEFT, self._binop),
prody/tests/atomic/test_select.py: 9 warnings
prody/tests/proteins/test_waterbridges.py: 2 warnings
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.14_prody/build/prody/atomic/select.py:1085: PyparsingDeprecationWarning: 'oneOf' deprecated - use 'one_of'
(pp.oneOf('+ -'), 2, pp.opAssoc.LEFT, self._binop),
prody/tests/atomic/test_select.py: 9 warnings
prody/tests/proteins/test_waterbridges.py: 2 warnings
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.14_prody/build/prody/atomic/select.py:1086: PyparsingDeprecationWarning: 'oneOf' deprecated - use 'one_of'
(pp.oneOf('< > <= >= == = !='), 2, pp.opAssoc.LEFT,
prody/tests/atomic/test_select.py::TestSelect::testRangeSelection203
prody/tests/atomic/test_select.py::TestSelect::testRangeSelection204
prody/tests/atomic/test_select.py::TestSelect::testRangeSelection209
prody/tests/atomic/test_select.py::TestSelect::testRangeSelection209
prody/tests/atomic/test_select.py::TestSelect::testRangeSelection210
prody/tests/atomic/test_select.py::TestSelect::testRangeSelection210
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.14_prody/build/prody/atomic/select.py:730: PyparsingDeprecationWarning: 'parseString' deprecated - use 'parse_string'
token = PP_NRANGE.parseString(token)[0]
-- Docs: https://docs.pytest.org/en/stable/how-to/capture-warnings.html
=========================== short test summary info ============================
FAILED prody/tests/atomic/test_select.py::TestSelect::testCompositeSelection301
FAILED prody/tests/atomic/test_select.py::TestSelect::testCompositeSelection302
FAILED prody/tests/atomic/test_select.py::TestSelect::testCompositeSelection303
FAILED prody/tests/atomic/test_select.py::TestSelect::testCompositeSelection304
FAILED prody/tests/atomic/test_select.py::TestSelect::testEquivalentSelection405
FAILED prody/tests/atomic/test_select.py::TestSelect::testEquivalentSelection406
FAILED prody/tests/atomic/test_select.py::TestSelect::testLogicalSelection369
FAILED prody/tests/atomic/test_select.py::TestSelect::testLogicalSelection370
FAILED prody/tests/atomic/test_select.py::TestSelect::testLogicalSelection371
FAILED prody/tests/atomic/test_select.py::TestSelect::testLogicalSelection372
FAILED prody/tests/atomic/test_select.py::TestSelect::testLogicalSelection375
FAILED prody/tests/atomic/test_select.py::TestSelect::testLogicalSelection376
FAILED prody/tests/atomic/test_select.py::TestSelect::testLogicalSelection377
FAILED prody/tests/atomic/test_select.py::TestSelect::testLogicalSelection378
FAILED prody/tests/atomic/test_select.py::TestSelect::testLogicalSelection389
FAILED prody/tests/atomic/test_select.py::TestSelect::testLogicalSelection390
FAILED prody/tests/ensemble/test_functions.py::TestBuildPDBEnsemble::testResults
FAILED prody/tests/proteins/test_ciffile.py::TestParseMMCIF::testBiomolOperationRange
FAILED prody/tests/proteins/test_ciffile.py::TestParseMMCIF::testChimeraxCIFBiomolArguments
FAILED prody/tests/proteins/test_ciffile.py::TestParseMMCIF::testUniteChainsAndBiomolArguments
==== 20 failed, 932 passed, 56 skipped, 891 warnings in 1764.69s (0:29:24) =====
E: pybuild pybuild:485: test: plugin distutils failed with: exit code=1: cd /<<PKGBUILDDIR>>/.pybuild/cpython3_3.14_prody/build; python3.14 -m pytest
dh_auto_test: error: pybuild --test --test-pytest -i python{version} -p 3.14 --parallel=1 returned exit code 13
make: *** [debian/rules:9: binary] Error 25
dpkg-buildpackage: error: debian/rules binary subprocess failed with exit status 2
--------------------------------------------------------------------------------
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