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update ubuntu in tests #1353

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petrelharp opened this issue Sep 5, 2022 · 0 comments
Closed

update ubuntu in tests #1353

petrelharp opened this issue Sep 5, 2022 · 0 comments

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@petrelharp
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Github warns us about our tests now:

The ubuntu-18.04 environment is deprecated, consider switching to ubuntu-20.04(ubuntu-latest), or ubuntu-22.04 instead. For more details see https://github.com/actions/virtual-environments/issues/6002

... I figure we should just change to 20.04 here.
petrelharp added a commit that referenced this issue Sep 5, 2022
@petrelharp
update ubuntu in tests (closes #1353)
7621a6d
nspope pushed a commit to nspope/stdpopsim that referenced this issue Sep 15, 2022
@petrelharp @nspope
update ubuntu in tests (closes popsim-consortium#1353) (popsim-consor…
5174662 
…tium#1354)
andrewkern pushed a commit that referenced this issue Sep 15, 2022
@nspope @petrelharp
Add API to get contig from region of named chromosome (#1348)
3f54a89 
* update ubuntu in tests (closes #1353) (#1354)

* Add left, right to get contig from chromosome interval

Make sure to convert boundaries to int

Add test to bump coverage

And another small test to bump coverage

Update test to use HapMapII_GRCh8 to avoid stochastic failure

Store contig origin as tuple rather than string

Use numpy ops for interval clipping

Mark pytest fixtures for masking tests

Disable length multiplier with left,right coordinates

Clean up interaction b/w length_multiplier and left,right

Add docs

Co-authored-by: Peter Ralph <petrel.harp@gmail.com>
nspope pushed a commit to nspope/stdpopsim that referenced this issue Sep 20, 2022
@petrelharp @nspope
update ubuntu in tests (closes popsim-consortium#1353) (popsim-consor…
b97bb92 
…tium#1354)
andrewkern pushed a commit that referenced this issue Sep 20, 2022
@nspope @petrelharp
Add API for selective sweeps (#1341)
f4052bc 
* update ubuntu in tests (closes #1353) (#1354)

* Add selective sweep API and tests

Co-authored-by: Peter Ralph <petrel.harp@gmail.com>
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