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lines changed Original file line number Diff line number Diff line change @@ -94,11 +94,11 @@ jobs:
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python -m venv env-tskit
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source env-tskit/bin/activate
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python -m pip install .
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- python -m bio2zarr tskit2zarr convert tests/data/ts /example.trees ts.vcz > ts.txt 2>&1 || echo $? > ts_exit.txt
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+ python -m bio2zarr tskit2zarr convert tests/data/tskit /example.trees ts.vcz > ts.txt 2>&1 || echo $? > ts_exit.txt
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test "$(cat ts_exit.txt)" = "1"
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grep -q "This process requires the optional tskit module. Install it with: pip install bio2zarr\[tskit\]" ts.txt
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python -m pip install '.[tskit]'
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- python -m bio2zarr tskit2zarr convert tests/data/ts /example.trees ts.vcz
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+ python -m bio2zarr tskit2zarr convert tests/data/tskit /example.trees ts.vcz
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deactivate
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python -m venv env-vcf
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