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Release v2.9.8 #279

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merged 57 commits into from
Apr 27, 2023
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40ac323
Bumping version
Dec 2, 2021
d0d5814
support for extracting dug elements from graph (#197)
YaphetKG Feb 3, 2022
a66ca59
Display es scores (#199)
gingin77 Feb 8, 2022
e648bba
Update _version.py (#200)
YaphetKG Feb 15, 2022
4c9dbc3
Dev version bump (#202)
YaphetKG Mar 29, 2022
256d1e0
Attribute mapping from node to dug element (#203)
YaphetKG Apr 1, 2022
b43ee87
Changed DbGaP to SPARC in the scicrunch parser (#204)
HowardLander Apr 11, 2022
447d325
Anvil (#207)
alexwaldrop Apr 18, 2022
ef43201
Anvil parser (#208)
YaphetKG May 2, 2022
7d3f541
Initial Kaniko build.
cnbennett3 May 18, 2022
38f8bc8
Move version file definition.
cnbennett3 May 18, 2022
4aabf6f
Quote env vars.
cnbennett3 May 18, 2022
403b9b7
Update env vars.
cnbennett3 May 18, 2022
fe82b95
Update env vars.
cnbennett3 May 18, 2022
2968acd
Update env vars.
cnbennett3 May 18, 2022
e63ac74
env var changes.
cnbennett3 May 18, 2022
39b79d6
env var changes.
cnbennett3 May 18, 2022
e821a44
env var changes.
cnbennett3 May 18, 2022
cd23318
env var changes.
cnbennett3 May 18, 2022
c034754
Update DOCKER_IMAGE var.
cnbennett3 May 19, 2022
eb43dc8
Update DOCKER_IMAGE var in kaniko cmd.
cnbennett3 May 19, 2022
337f3b2
Update kaniko destination line.
cnbennett3 May 19, 2022
4d0a723
Update kaniko destination line.
cnbennett3 May 19, 2022
b7674fe
Moree variable madness.
cnbennett3 May 19, 2022
2674ef0
Programatically remove quotes from version tag.
cnbennett3 May 19, 2022
06c09b7
dug dump concepts api created and tested (#229)
braswent May 23, 2022
4e06ca6
Update _version.py (#234)
YaphetKG Jun 8, 2022
af3fe8b
Version changes + separate build and publish.
cnbennett3 Jun 8, 2022
70ed22f
Semantic versioning prep.
cnbennett3 Jun 8, 2022
3d2bbd7
Add develop and master versioning and tagging.
cnbennett3 Jun 28, 2022
c68a991
Merge pull request #242 from helxplatform/jenkins-test
cnbennett3 Jun 29, 2022
4784983
Bump version.
cnbennett3 Jun 29, 2022
c3642bd
Revert version to dug format.
cnbennett3 Jun 29, 2022
d74a991
Ncpi index fix (#232)
alexwaldrop Jun 30, 2022
0401a14
Add github creds env var.
cnbennett3 Jul 11, 2022
f5eb706
Fix version typo.
cnbennett3 Jul 11, 2022
57612d7
Merge pull request #245 from helxplatform/jenkins-test
cnbennett3 Jul 11, 2022
5e2d5a6
Initial commit
Hoid Jul 13, 2022
0294ed2
Reduce ephemeral storage limits and requests
Hoid Jul 13, 2022
87b374d
Merge pull request #247 from helxplatform/use-pipeline-utils
Hoid Jul 18, 2022
b6f4730
More parsers (#248)
YaphetKG Aug 17, 2022
de738e0
Master to develop sync (#262)
YaphetKG Aug 25, 2022
0212f6f
Sprint (#264)
YaphetKG Oct 4, 2022
30ced9a
Coverage and Makefile improvements (#267)
Hoid Oct 10, 2022
2fb3ee4
feat: Use buildAndPush() from pipeline-utils
Hoid Oct 18, 2022
5cb0aef
feat: Add .githooks and commit-msg hook
Hoid Oct 18, 2022
d31be7d
fix: Add CCV variable (oops)
Hoid Oct 18, 2022
380021f
doc: Update README
Hoid Oct 18, 2022
3529c9f
Merge pull request #268 from helxplatform/auto-versioning
Hoid Oct 18, 2022
54e0c21
Bacpac parser (#270)
YaphetKG Dec 19, 2022
df81dbb
adding dug installer in makefile (#271)
YaphetKG Dec 19, 2022
cfd0884
Lib bump (#273)
YaphetKG Jan 24, 2023
2043926
Dev master sync (#274)
YaphetKG Jan 24, 2023
b2a6f0f
Async web api (#276)
YaphetKG Apr 4, 2023
18f4024
Update _version.py
YaphetKG Apr 4, 2023
76d45f2
Merge branch 'master' into Release-v2.9.8
YaphetKG Apr 4, 2023
97ef284
Update docker-compose.yaml (#280) (#282)
YaphetKG Apr 18, 2023
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3 changes: 2 additions & 1 deletion docker-compose.yaml
Original file line number Diff line number Diff line change
Expand Up @@ -44,7 +44,8 @@ services:
entrypoint: [ "gunicorn",
"--workers=$API_WORKERS", "--name=dug",
"--bind=0.0.0.0:$API_PORT", "--timeout=$API_TIMEOUT",
"--log-level=DEBUG", "--enable-stdio-inheritance", "--reload", "dug.api:app" ]
"--log-level=DEBUG", "--enable-stdio-inheritance",
"-k", "uvicorn.workers.UvicornWorker", "--reload", "dug.server:APP" ]
volumes:
- ./src:/home/dug/dug/
ports:
Expand Down
53 changes: 16 additions & 37 deletions requirements.txt
Original file line number Diff line number Diff line change
@@ -1,39 +1,18 @@
aniso8601==9.0.1
attrs==20.3.0
biolinkml==1.4.9
certifi==2020.12.5
chardet==3.0.4
click==7.1.2
elasticsearch==7.12.0
flake8==3.9.0
flasgger==0.9.5
Flask==1.1.1
Flask-Cors==3.0.9
Flask-RESTful==0.3.8
gunicorn==20.0.4
idna==2.8
itsdangerous==1.1.0
Jinja2==2.11.3
jsonschema==3.2.0
MarkupSafe==1.1.1
mistune==0.8.4
pluggy==0.13.1
elasticsearch[async]==7.16.3
fastapi==0.95.0
uvicorn
gunicorn
itsdangerous
Jinja2
jsonschema
MarkupSafe
mistune==2.0.3
pluggy==1.0.0
pyrsistent==0.17.3
pytest==6.2.2
pytest
pytz==2021.1
PyYAML==5.4.1
redis==3.4.1
requests==2.22.0
requests-cache==0.5.2
six==1.15.0
Sphinx==2.4.4
sphinx-click==2.3.1
sphinx-rtd-theme==0.4.3
sphinxcontrib-applehelp==1.0.2
sphinxcontrib-devhelp==1.0.2
sphinxcontrib-htmlhelp==1.0.3
sphinxcontrib-jsmath==1.0.1
sphinxcontrib-qthelp==1.0.3
sphinxcontrib-serializinghtml==1.1.4
urllib3==1.25.11
Werkzeug==0.16.1
PyYAML==6.0
redis==4.4.2
requests==2.28.2
requests-cache==0.9.8
six==1.16.0
2 changes: 1 addition & 1 deletion src/dug/_version.py
Original file line number Diff line number Diff line change
@@ -1 +1 @@
__version__ = "2.9.6"
__version__ = "2.9.8"
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