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fix: explicitly specify how the root and ambiguous states are handled… #3125

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fix: explicitly specify how the root and ambiguous states are handled…

fix: explicitly specify how the root and ambiguous states are handled… #3125

Triggered via pull request December 23, 2024 21:09
@huddlejhuddlej
synchronize #1690
fix/root-state-in-sequence-reconstruction
Status Success
Total duration 20m 22s
Artifacts 18

ci.yaml

on: pull_request
Matrix: pytest-cram
mypy
48s
mypy
pyright
14s
pyright
build-docs  /  build
2m 21s
build-docs / build
check-docs
36s
check-docs
Matrix: pathogen-repo-ci-v0
Matrix: pathogen-repo-ci
release
0s
release
codecov
15s
codecov
rebuild-docker-image
0s
rebuild-docker-image
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37 warnings
pyright
ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636
pyright
The `python-version` input is not set. The version of Python currently in `PATH` will be used.
check-docs
ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636
check-docs
The `python-version` input is not set. The version of Python currently in `PATH` will be used.
mypy
ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636
mypy
The `python-version` input is not set. The version of Python currently in `PATH` will be used.
pathogen-repo-ci-v0 (mumps)
ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636
pathogen-repo-ci-v0 (avian-flu)
ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636
pathogen-repo-ci-v0 (seasonal-flu)
ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636
pathogen-repo-ci-v0 (ebola)
ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636
pathogen-repo-ci-v0 (ncov)
ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636
pathogen-repo-ci (wnv)
ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636
pathogen-repo-ci (mpox)
ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636
pathogen-repo-ci (zika)
ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636
pathogen-repo-ci (measles)
ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636
pathogen-repo-ci-v0 (tb)
ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636
pathogen-repo-ci (oropouche)
ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636
pathogen-repo-ci (seasonal-cov)
ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636
pathogen-repo-ci (rabies)
ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636
build-docs / build
ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636
pathogen-repo-ci (dengue)
ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636
pathogen-repo-ci (yellow-fever)
ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636
pathogen-repo-ci (lassa)
ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636
pathogen-repo-ci-v0 (rsv)
ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636
test (python=3.10 biopython=1.82)
ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636
test (python=3.11 biopython=1.80)
ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636
test (python=3.10 biopython=1.80)
ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636
test (python=3.9 biopython=1.80)
ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636
test (python=3.11 biopython=1.82)
ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636
test (python=3.11 biopython=latest)
ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636
test (python=3.9 biopython=1.82)
ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636
test (python=3.9 biopython=latest)
ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636
test (python=3.10 biopython=latest)
ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636
test (python=3.12 biopython=latest)
ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636
test (python=3.12 biopython=1.82)
ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636
codecov
ubuntu-latest pipelines will use ubuntu-24.04 soon. For more details, see https://github.com/actions/runner-images/issues/10636
codecov
The `python-version` input is not set. The version of Python currently in `PATH` will be used.

Artifacts

Produced during runtime
Name Size
coverage
167 KB
output-avian-flu
96.6 KB
output-dengue
1.33 MB
output-ebola
112 KB
output-lassa
1.41 MB
output-measles
3.86 MB
output-mpox
12.8 MB
output-mumps
340 KB
output-ncov
707 KB
output-oropouche
503 KB
output-rabies
4.89 MB
output-rsv
9.47 MB
output-seasonal-cov
1.62 MB
output-seasonal-flu
54 KB
output-tb
5.02 MB
output-wnv
180 KB
output-yellow-fever
2.1 MB
output-zika
745 KB