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[pytest]
# ignore biopython's deprecation warnings about alphabet that are outside of our control
filterwarnings =
ignore::PendingDeprecationWarning:Bio.Alphabet
ignore:Coverage disabled
addopts =
# do not capture any output---necessary for interactive breakpoints
-s
# report any tests that are skipped, xfailed, or xpassed
-rsxX
# report local variables with every stack trace
-l
# output verbosity
# show individual test names
-vv
# run any doctests found in .py modules
--doctest-modules
# calculate test coverage for the `augur` module
--cov=augur
# add html coverage report generation
--cov-report=html
# output short traceback
--tb=short
testpaths =
augur/
tests/
|
