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v0.12 rc #221

Merged
merged 26 commits into from
Jul 4, 2023
Merged

v0.12 rc #221

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0029cbc
add a function to create splice sites similar to create_introns
Juke34 Jun 29, 2023
b0bbc73
interfeatures creates list of IDs: concat list of ID to create uniq I…
Juke34 Jul 1, 2023
b25e19f
fix test 197 by changing _ by - when concatenating IDs together
Juke34 Jul 2, 2023
1d160f6
fix test 139 and 174 by testing if ID attribute exists before to conc…
Juke34 Jul 2, 2023
364f59e
fix test 107, instead of a list of ID the result is now concatenated …
Juke34 Jul 2, 2023
0c48894
remove test 181 because not relevant anymore. The create_introns func…
Juke34 Jul 2, 2023
131ac6a
notes in test_issue_197
daler Jul 4, 2023
f360c1e
handle ID concatenation in _prep_for_yield
daler Jul 4, 2023
cf7c205
Merge pull request #222 from Juke34/v0.12rc
daler Jul 4, 2023
20a9102
rm deprecated OptimizedUnicode text factory
daler Jul 4, 2023
a4b443b
add test for #213
daler Jul 4, 2023
f8ae462
additional comments to refer to PR
daler Jul 4, 2023
448c00e
update changelog
daler Jul 4, 2023
c19e96b
test on py 3.11
daler Jul 4, 2023
47a8349
disable 3.11 testing until pkgs available on bioconda
daler Jul 4, 2023
728156e
update version
daler Jul 4, 2023
185c676
update readme and setup for better pypi formatting
daler Jul 4, 2023
1e6010e
Merge branch 'v0.12rc' into create_splice_sites
Juke34 Jul 4, 2023
5778b4e
update the docstring to refer to splice sites everywhere instead of i…
Juke34 Jul 4, 2023
4b2e2be
add PEP8 spaces around = and +
Juke34 Jul 4, 2023
8125292
Merge remote-tracking branch 'origin/v0.12rc' into Juke34-create_spli…
daler Jul 4, 2023
c6b27cd
rename test.py -> test_1.py so pytest finds it
daler Jul 4, 2023
11aaac6
mark parallel db creation test as skip for now
daler Jul 4, 2023
3826571
add test for create_spice_sites
daler Jul 4, 2023
e480e11
Merge pull request #220 from Juke34/create_splice_sites
daler Jul 4, 2023
ca68ef2
update changelog
daler Jul 4, 2023
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disable 3.11 testing until pkgs available on bioconda
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@daler
daler committed Jul 4, 2023
commit 47a8349dc4c1855092b4511606cbe4eb2a4800d8
2 changes: 1 addition & 1 deletion .github/workflows/main.yml
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Expand Up @@ -4,7 +4,7 @@ jobs:
build-and-test:
strategy:
matrix:
python-version: ["3.7", "3.8", "3.9", "3.10", "3.11"]
python-version: ["3.7", "3.8", "3.9", "3.10"]
runs-on: ubuntu-latest
steps:
- uses: actions/checkout@v3
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