Bioconductor/galaxy | GitHub | Ecosyste.ms: Repos

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requirements.txt pypi

a2wsgi ==1.7.0
adal ==1.2.7
aiobotocore ==2.4.2
aiofiles ==23.2.1
aiohttp ==3.8.5
aioitertools ==0.11.0
aiosignal ==1.3.1
alembic ==1.11.2
amqp ==5.1.1
anyio ==3.7.1
apispec ==6.3.0
appdirs ==1.4.4
arcp ==0.2.1
argcomplete ==3.1.1
async-timeout ==4.0.3
asynctest ==0.13.0
attmap ==0.13.2
attrs ==23.1.0
babel ==2.12.1
backports-zoneinfo ==0.2.1
bagit ==1.8.1
bagit-profile ==1.3.1
bcrypt ==4.0.1
bdbag ==1.7.1
beaker ==1.12.1
billiard ==3.6.4.0
bioblend ==1.2.0
bleach ==6.0.0
boltons ==23.0.0
boto ==2.49.0
botocore ==1.27.59
bx-python ==0.10.0
cachecontrol ==0.13.1
cached-property ==1.5.2
celery ==5.2.7
certifi ==2023.7.22
cffi ==1.15.1
charset-normalizer ==3.2.0
cheetah3 ==3.2.6.post1
circus ==0.18.0
click ==8.1.6
click-didyoumean ==0.3.0
click-plugins ==1.1.1
click-repl ==0.3.0
cloudauthz ==0.6.0
cloudbridge ==3.1.0
colorama ==0.4.6
coloredlogs ==15.0.1
conda-package-streaming ==0.9.0
cryptography ==41.0.3
cwl-upgrader ==1.2.8
cwl-utils ==0.28
cwltool ==3.1.20221109155812
cython ==3.0.0
decorator ==5.1.1
defusedxml ==0.7.1
deprecation ==2.1.0
dictobj ==0.4
dnspython ==2.3.0
docopt ==0.6.2
docutils ==0.18.1
dparse ==0.6.3
ecdsa ==0.18.0
edam-ontology ==1.25.2
email-validator ==2.0.0.post2
exceptiongroup ==1.1.2
fastapi ==0.98.0
fastapi-utils ==0.2.1
filelock ==3.12.2
frozenlist ==1.3.3
fs ==2.4.16
fsspec ==2023.1.0
future ==0.18.3
galaxy-sequence-utils ==1.1.5
galaxy2cwl ==0.1.4
gravity ==1.0.3
greenlet ==2.0.2
gunicorn ==21.2.0
gxformat2 ==0.18.0
h11 ==0.14.0
h5grove ==1.3.0
h5py ==3.8.0
humanfriendly ==10.0
idna ==3.4
importlib-metadata ==4.13.0
importlib-resources ==5.12.0
isa-rwval ==0.10.10
isodate ==0.6.1
jinja2 ==3.1.2
jmespath ==1.0.1
jsonref ==1.1.0
jsonschema ==4.17.3
kombu ==5.2.4
lagom ==2.4.1
lxml ==4.9.3
mako ==1.2.4
markdown ==3.4.4
markdown-it-py ==2.2.0
markupsafe ==2.1.3
mdurl ==0.1.2
mercurial ==6.5.1
mistune ==2.0.5
mrcfile ==1.4.3
msal ==1.23.0
msgpack ==1.0.5
multidict ==6.0.4
mypy-extensions ==1.0.0
networkx ==2.5
nodeenv ==1.8.0
numpy ==1.21.6
numpy ==1.24.4
numpy ==1.25.2
oauthlib ==3.2.2
orjson ==3.9.4
oyaml ==1.0
packaging ==23.1
paramiko ==3.3.1
parsley ==1.3
paste ==3.5.3
pastedeploy ==3.0.1
pebble ==5.0.3
pkgutil-resolve-name ==1.3.10
prompt-toolkit ==3.0.39
prov ==1.5.1
psutil ==5.9.5
pulsar-galaxy-lib ==0.15.3
pyasn1 ==0.5.0
pycparser ==2.21
pycryptodome ==3.18.0
pydantic ==1.10.12
pydantic-tes ==0.1.5
pydot ==1.4.2
pyeventsystem ==0.1.0
pyfaidx ==0.7.2.1
pygments ==2.16.1
pyjwt ==2.8.0
pykwalify ==1.8.0
pylibmagic ==0.4.0
pynacl ==1.5.0
pyparsing ==3.0.9
pyreadline ==2.1
pyreadline3 ==3.4.1
pyrsistent ==0.19.3
pysam ==0.21.0
python-dateutil ==2.8.2
python-jose ==3.3.0
python-magic ==0.4.27
python-multipart ==0.0.6
python3-openid ==3.2.0
pytz ==2023.3
pyyaml ==6.0.1
pyzmq ==25.1.1
rdflib ==6.2.0
refgenconf ==0.12.2
repoze-lru ==0.7
requests ==2.31.0
requests-oauthlib ==1.3.1
requests-toolbelt ==1.0.0
requests-unixsocket ==0.3.0
rich ==13.5.2
rocrate ==0.8.0
routes ==2.5.1
rsa ==4.9
ruamel-yaml ==0.17.21
ruamel-yaml-clib ==0.2.7
s3fs ==2023.1.0
schema-salad ==8.4.20230808163024
setuptools ==68.0.0
setuptools-scm ==5.0.2
shellescape ==3.8.1
six ==1.16.0
sniffio ==1.3.0
social-auth-core ==4.0.3
sortedcontainers ==2.4.0
sqlalchemy ==1.4.49
sqlitedict ==2.1.0
sqlparse ==0.4.4
starlette ==0.27.0
starlette-context ==0.3.5
supervisor ==4.2.5
svgwrite ==1.4.3
tenacity ==8.2.2
tifffile ==2021.11.2
tinydb ==4.8.0
tornado ==6.2
tqdm ==4.66.1
tuspy ==1.0.1
tuswsgi ==0.5.5
typing-extensions ==4.7.1
tzdata ==2023.3
tzlocal ==5.0.1
ubiquerg ==0.6.3
urllib3 ==1.26.16
uvicorn ==0.22.0
uvloop ==0.17.0
vine ==5.0.0
wcwidth ==0.2.6
webencodings ==0.5.1
webob ==1.8.7
whoosh ==2.7.4
wrapt ==1.15.0
yacman ==0.9.1
yarl ==1.9.2
zipp ==3.15.0
zipstream-new ==1.1.8
zstandard ==0.21.0

.github/workflows/build_container_image.yaml actions

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client/package.json npm

@babel/core ^7.20.12 development
@babel/helper-validator-identifier ^7.19.1 development
@babel/plugin-syntax-dynamic-import ^7.8.3 development
@babel/plugin-transform-runtime ^7.19.6 development
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@babel/preset-typescript ^7.18.6 development
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@pinia/testing 0.1.0 development
@testing-library/jest-dom ^5.16.4 development
@types/d3 ^7.4.0 development
@types/jquery ^3.5.16 development
@types/lodash ^4.14.194 development
@types/lodash.isequal ^4.5.6 development
@types/markdown-it ^12.2.3 development
@types/underscore ^1.11.4 development
@typescript-eslint/eslint-plugin ^5.60.1 development
@typescript-eslint/parser ^5.60.1 development
@vue/test-utils ^1.3.4 development
@vue/tsconfig ^0.4.0 development
@vue/vue2-jest ^29.2.2 development
amdi18n-loader ^0.9.4 development
autoprefixer 10.4.13 development
axios-mock-adapter ^1.20.0 development
babel-jest ^29.3.1 development
babel-plugin-transform-import-meta ^2.2.0 development
buffer ^6.0.3 development
cpy-cli ^4.2.0 development
css-loader ^6.7.3 development
css-minimizer-webpack-plugin ^4.0.0 development
del ^6.0.0 development
eslint ^8.43.0 development
eslint-plugin-compat ^4.1.4 development
eslint-plugin-import ^2.27.5 development
eslint-plugin-simple-import-sort ^10.0.0 development
eslint-plugin-vue ^9.15.1 development
eslint-plugin-vuejs-accessibility ^2.1.0 development
expose-loader ^4.0.0 development
gulp ^4.0.2 development
ignore-loader ^0.1.2 development
imports-loader ^4.0.1 development
jest ^29.3.1 development
jest-environment-jsdom ^29.3.1 development
jest-location-mock ^1.0.9 development
jsdom-worker ^0.3.0 development
json-loader ^0.5.7 development
mini-css-extract-plugin ^2.5.3 development
postcss-loader ^7.0.2 development
prettier ^2.8.8 development
process ^0.11.10 development
raw-loader ^4.0.2 development
sass ^1.58.0 development
sass-loader ^13.2.0 development
sinon ^13.0.1 development
store ^2.0.12 development
style-loader ^3.3.1 development
ts-jest ^29.1.0 development
ts-loader ^9.4.3 development
tsconfig-paths-webpack-plugin ^4.0.1 development
typescript ^5.0.4 development
vue-loader ^15.10.1 development
vue-template-compiler ^2.7.14 development
webpack ^5.75.0 development
webpack-cli ^5.0.1 development
webpack-dev-server ^4.12.0 development
webpack-merge ^5.8.0 development
xml-js ^1.6.11 development
yaml-jest ^1.2.0 development
yaml-loader ^0.8.0 development
@fontsource/atkinson-hyperlegible ^4.5.11
@fortawesome/fontawesome-free ^5.15.4
@fortawesome/fontawesome-svg-core ^6.2.1
@fortawesome/free-brands-svg-icons ^5.15.4
@fortawesome/free-regular-svg-icons ^5.15.4
@fortawesome/free-solid-svg-icons ^5.15.4
@fortawesome/vue-fontawesome ^2.0.9
@handsontable/vue ^2.0.0
@hirez_io/observer-spy ^2.1.2
@johmun/vue-tags-input ^2.1.0
@popperjs/core ^2.11.5
@sentry/browser ^6.17.4
@vueuse/core ^9.10.0
assert ^2.0.0
axios ^0.25.0
babel-runtime ^6.26.0
backbone 1.4.1
bootstrap 4.6
bootstrap-vue ^2.23.0
citation-js ^0.6.4
core-js ^3.27.2
csv-parse ^5.3.0
d3 ^7.8.0
d3-zoom ^3.0.0
d3v3 npm:d3@3
date-fns ^2.28.0
decode-uri-component ^0.2.1
dom-to-image ^2.6.0
dompurify ^3.0.1
dumpmeta-webpack-plugin ^0.2.0
elkjs ^0.7.1
file-saver ^2.0.5
flush-promises ^1.0.2
glob ^7.2.0
handsontable ^4.0.0
hsluv ^0.1.0
imask ^6.4.0
jquery 2
jquery-migrate ~1.4
jquery-mousewheel ^3.1.13
jquery-ui ^1.13.2
jspdf ^2.5.1
linkify-html ^3.0.5
linkifyjs ^3.0.5
localforage ^1.10.0
lodash.isequal ^4.5.0
markdown-it ^12.3.2
markdown-it-regexp ^0.4.0
object-hash ^3.0.0
openapi-typescript ^6.1.0
openapi-typescript-fetch ^1.1.3
pinia ^2.0.36
popper.js ^1.16.1
pretty-bytes ^6.0.0
pyre-to-regexp ^0.0.5
querystring-es3 ^0.2.1
regenerator-runtime ^0.13.9
requirejs 2.3.6
rxjs ^7.5.2
rxjs-spy ^8.0.2
rxjs-spy-devtools-plugin ^0.0.4
slugify ^1.6.5
snake-case ^3.0.4
splitpanes 2.3.8
stream-browserify ^3.0.0
timers-browserify ^2.0.12
toastr ^2.1.4
tus-js-client ^2.3.0
underscore ^1.13.2
util ^0.12.4
vue ^2.7.14
vue-infinite-scroll ^2.0.2
vue-multiselect ^2.1.7
vue-observe-visibility ^1.0.0
vue-prismjs ^1.2.0
vue-router ^3.6.5
vue-rx ^6.2.0
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vuedraggable ^2.24.3
vuex ^3.6.2
vuex-cache ^3.4.0
vuex-persist 2.3
winbox ^0.2.4
xml-beautifier ^0.5.0

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config/plugins/visualizations/PCA_3Dplot/package.json npm

d3 ^7.4.4
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config/plugins/visualizations/annotate_image/package.json npm

babel-preset-env ^1.6.1
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config/plugins/visualizations/chiraviz/package.json npm

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bootstrap 3.3.7
font-awesome ^4.7.0
jquery 3.2.1
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underscore 1.8.3

config/plugins/visualizations/cytoscape/package.json npm

babel-preset-env ^1.6.1
backbone ^1.3.3
bootstrap ^3.3.7
cytoscape ^3.2.8
jquery ^3.1.1
parcel-bundler ^1.4.1

config/plugins/visualizations/drawrna/package.json npm

babel-preset-env ^1.6.1
backbone ^1.3.3
bootstrap ^3.3.7
drawrnajs ^1.2.6
jquery ^3.1.1
parcel-bundler ^1.4.1

config/plugins/visualizations/editor/package.json npm

css-loader ^3.4.2 development
extract-text-webpack-plugin ^3.0.2 development
file-loader ^5.0.2 development
mini-css-extract-plugin ^0.9.0 development
style-loader ^1.1.3 development
webpack ^4.41.6 development
webpack-cli ^3.3.11 development
ace-builds ^1.4.8

config/plugins/visualizations/example/package.json npm

@galaxyproject/charts ^0.0.6
babel-preset-env ^1.6.1
backbone ^1.3.3
bootstrap ^3.3.7
d3 ^4.12.2
jquery ^3.1.1
parcel-bundler ^1.4.1
underscore ^1.8.3

config/plugins/visualizations/fits_image_viewer/package.json npm

aladin-lite-galaxy ^1.0.0
parcel-bundler ^1.4.1

config/plugins/visualizations/h5web/package.json npm

parcel ^2.9.3 development
@h5web/app ^8.0.0
buffer ^6.0.3
normalize.css ^8.0.1
react 18.2.0
react-dom 18.2.0

config/plugins/visualizations/heatmap/heatmap_default/package.json npm

@galaxyproject/charts ^0.0.6
babel-preset-env ^1.6.1
backbone ^1.4.0
bootstrap ^3.3.7
d3 3
jquery ^3.5.1
parcel-bundler ^1.4.1
underscore ^1.11.0

config/plugins/visualizations/hyphyvision/package.json npm

css-loader ^3.4.2 development
expose-loader ^0.7.5 development
file-loader ^5.0.2 development
hyphy-vision 2.6.3 development
mini-css-extract-plugin ^0.9.0 development
phylotree 0.1.6 development
style-loader ^1.1.3 development
webpack ^4.41.6 development
webpack-cli ^3.3.11 development
fbjs ^1.0.0
underscore ^1.9.2

config/plugins/visualizations/jqplot/jqplot_bar/package.json npm

@galaxyproject/charts ^0.0.6
babel-preset-env ^1.6.1
backbone ^1.3.3
bootstrap ^3.3.7
d3 ^4.12.2
jqplot-exported ^1.0.9-pm.9
jquery ^3.1.1
parcel-bundler ^1.4.1
underscore ^1.13.1

config/plugins/visualizations/media_player/package.json npm

plyr ^3.6.2

config/plugins/visualizations/msa/package.json npm

babel-plugin-transform-export-extensions ^6.22.0
babel-preset-env ^1.6.1
parcel-bundler ^1.4.1

config/plugins/visualizations/mvpapp/package.json npm

clean-webpack-plugin ^3.0.0 development
copy-webpack-plugin ^6.0.3 development
css-loader ^3.4.2 development
extract-text-webpack-plugin ^3.0.2 development
file ^0.2.2 development
file-loader ^5.0.2 development
mini-css-extract-plugin ^0.9.0 development
script-loader ^0.7.2 development
style-loader ^1.2.0 development
system ^2.0.1 development
url-loader ^4.0.0 development
webpack ^4.42.1 development
webpack-cli ^3.3.11 development
bootstrap 3
igv ^2.6.6

config/plugins/visualizations/ngl/package.json npm

babel-preset-env ^1.6.1
backbone ^1.3.3
bootstrap ^3.3.7
jquery ^3.1.1
ngl ^0.10.4
parcel-bundler ^1.4.1

config/plugins/visualizations/nora/package.json npm

@galaxyproject/nora 1.1.2
cpy-cli ^3.1.1

config/plugins/visualizations/nvd3/nvd3_bar/package.json npm

babel-core ^6.26.3 development
@galaxyproject/charts ^0.0.6
babel-preset-env ^1.6.1
backbone ^1.3.3
bootstrap ^3.3.7
d3 ^3.4.5
jquery ^3.3.1
nvd3 ^1.8.6
parcel-bundler ^1.4.1
underscore ^1.8.3

config/plugins/visualizations/openlayers/package.json npm

axios ^0.19.0
babel-preset-env ^1.6.1
backbone ^1.3.3
bootstrap ^3.3.7
file-saver ^2.0.2
jquery ^3.3.1
jszip ^3.2.2
jszip-utils ^0.1.0
ol ^5.3.3
parcel-bundler ^1.4.1
proj4 ^2.5.0
shpjs ^3.4.3
underscore ^1.8.3

config/plugins/visualizations/openseadragon/package.json npm

cpy-cli ^3.1.1
openseadragon ^2.4.2

config/plugins/visualizations/phylocanvas/package.json npm

@phylocanvas/phylocanvas.gl ^1.48.0
babel-preset-env ^1.6.1
deck.gl ^8.8.23
parcel-bundler ^1.4.1

config/plugins/visualizations/pv/package.json npm

bio-pv ^1.8.1
parcel-bundler ^1.12.4

config/plugins/visualizations/scatterplot/package.json npm

babel-core ^6.26.3 development
babel-plugin-auto-import ^0.7.1
babel-preset-env ^1.6.1
backbone ^1.3.3
bootstrap ^3.3.7
d3 ^3.5.17
jquery ^3.2.1
jquery-ui-bundle ^1.12.1-migrate
parcel-bundler ^1.6.2
underscore ^1.8.3

config/plugins/visualizations/ts_visjs/package.json npm

vis ^4.21.0

config/plugins/visualizations/venn/package.json npm

@galaxyproject/charts ^0.0.6
babel-preset-env ^1.6.1
backbone ^1.3.3
bootstrap ^3.3.7
d3 ^3.4.5
jquery ^3.1.1
parcel-bundler ^1.4.1
underscore ^1.13.1

config/plugins/webhooks/demo/tour_generator/package.json npm

backbone ^1.3.3
parcel-bundler ^1.10.3
toastr ^2.1.4

config/plugins/welcome_page/new_user/package.json npm

copy-webpack-plugin ^11.0.0 development
file-loader ^6.2.0 development
webpack ^5.75.0 development
webpack-cli ^4.10.0 development
@galaxyproject/new_user_welcome ^1.0.6

lib/galaxy/web/proxy/js/package.json npm

commander ~2.20.3
eventemitter3 3.1.2
http-proxy 1.18.1
node-watch 0.7.0
sqlite3 4.2.0

package.json npm

@galaxyproject/galaxy-client ^23.0.0
cpy-cli ^4.2.0
vuedraggable ^2.24.3

lib/galaxy/dependencies/conditional-requirements.txt pypi

lib/galaxy/dependencies/dev-requirements.txt pypi

aiohttp ==3.8.5 development
aiosignal ==1.3.1 development
alabaster ==0.7.13 development
amqp ==5.1.1 development
anyio ==3.7.1 development
ase ==3.22.1 development
async-timeout ==4.0.3 development
asynctest ==0.13.0 development
attrs ==23.1.0 development
axe-selenium-python ==2.1.6 development
babel ==2.12.1 development
billiard ==3.6.4.0 development
black ==23.3.0 development
bleach ==6.0.0 development
build ==0.10.0 development
cachecontrol ==0.13.1 development
cached-property ==1.5.2 development
celery ==5.2.7 development
certifi ==2023.7.22 development
cffi ==1.15.1 development
charset-normalizer ==3.2.0 development
click ==8.1.6 development
click-didyoumean ==0.3.0 development
click-plugins ==1.1.1 development
click-repl ==0.3.0 development
codespell ==2.2.5 development
colorama ==0.4.6 development
coverage ==7.2.7 development
cryptography ==41.0.3 development
cwltest ==2.3.20230527113600 development
cycler ==0.11.0 development
darker ==1.7.2 development
defusedxml ==0.7.1 development
deprecated ==1.2.14 development
docutils ==0.18.1 development
exceptiongroup ==1.1.2 development
filelock ==3.12.2 development
fluent-logger ==0.10.0 development
fonttools ==4.38.0 development
frozenlist ==1.3.3 development
future ==0.18.3 development
galaxy-release-util ==0.1.4 development
h11 ==0.14.0 development
httpcore ==0.17.3 development
httpx ==0.24.1 development
idna ==3.4 development
imagesize ==1.4.1 development
importlib-metadata ==4.13.0 development
importlib-resources ==5.12.0 development
iniconfig ==2.0.0 development
isodate ==0.6.1 development
isort ==5.11.5 development
jaraco-classes ==3.2.3 development
jeepney ==0.8.0 development
jinja2 ==3.1.2 development
junit-xml ==1.9 development
keyring ==24.1.1 development
kiwisolver ==1.4.4 development
kombu ==5.2.4 development
lxml ==4.9.3 development
markdown-it-py ==2.2.0 development
markdown-it-reporter ==0.0.2 development
markupsafe ==2.1.3 development
matplotlib ==3.5.3 development
matplotlib ==3.7.2 development
mdit-py-plugins ==0.3.5 development
mdurl ==0.1.2 development
mirakuru ==2.5.1 development
mistune ==2.0.5 development
more-itertools ==9.1.0 development
msgpack ==1.0.5 development
multidict ==6.0.4 development
mypy-extensions ==1.0.0 development
myst-parser ==1.0.0 development
numpy ==1.21.6 development
numpy ==1.24.4 development
numpy ==1.25.2 development
outcome ==1.2.0 development
packaging ==23.1 development
pathspec ==0.11.2 development
pillow ==9.5.0 development
pkce ==1.0.3 development
pkginfo ==1.9.6 development
platformdirs ==3.10.0 development
pluggy ==1.2.0 development
port-for ==0.7.1 development
prettytable ==3.7.0 development
prompt-toolkit ==3.0.39 development
psutil ==5.9.5 development
py ==1.11.0 development
pycparser ==2.21 development
pygithub ==1.59.1 development
pygments ==2.16.1 development
pyjwt ==2.8.0 development
pynacl ==1.5.0 development
pyparsing ==3.0.9 development
pyproject-hooks ==1.0.0 development
pysocks ==1.7.1 development
pytest ==7.4.0 development
pytest-asyncio ==0.21.1 development
pytest-celery ==0.0.0 development
pytest-cov ==4.1.0 development
pytest-html ==3.2.0 development
pytest-httpserver ==1.0.6 development
pytest-json-report ==1.5.0 development
pytest-metadata ==3.0.0 development
pytest-mock ==3.11.1 development
pytest-postgresql ==4.1.1 development
pytest-shard ==0.1.2 development
python-dateutil ==2.8.2 development
python-irodsclient ==1.1.8 development
pytz ==2023.3 development
pywin32-ctypes ==0.2.2 development
pyyaml ==6.0.1 development
rdflib ==6.2.0 development
readme-renderer ==37.3 development
requests ==2.31.0 development
requests-toolbelt ==1.0.0 development
responses ==0.23.3 development
rfc3986 ==2.0.0 development
rich ==13.5.2 development
ruamel-yaml ==0.17.21 development
ruamel-yaml-clib ==0.2.7 development
schema-salad ==8.4.20230808163024 development
scipy ==1.7.3 development
scipy ==1.10.1 development
scipy ==1.11.1 development
secretstorage ==3.3.3 development
selenium ==4.11.2 development
seletools ==1.4.0 development
setuptools ==68.0.0 development
six ==1.16.0 development
sniffio ==1.3.0 development
snowballstemmer ==2.2.0 development
sortedcontainers ==2.4.0 development
sphinx ==5.3.0 development
sphinx-rtd-theme ==1.2.2 development
sphinxcontrib-applehelp ==1.0.2 development
sphinxcontrib-devhelp ==1.0.2 development
sphinxcontrib-htmlhelp ==2.0.0 development
sphinxcontrib-jquery ==4.1 development
sphinxcontrib-jsmath ==1.0.1 development
sphinxcontrib-qthelp ==1.0.3 development
sphinxcontrib-serializinghtml ==1.1.5 development
statsd ==4.0.1 development
testfixtures ==7.1.0 development
tinydb ==4.8.0 development
toml ==0.10.2 development
tomli ==2.0.1 development
trio ==0.22.2 development
trio-websocket ==0.10.3 development
tuspy ==1.0.1 development
twill ==3.1 development
twine ==4.0.2 development
typed-ast ==1.5.5 development
types-pyyaml ==6.0.12.11 development
typing-extensions ==4.7.1 development
urllib3 ==1.26.16 development
vine ==5.0.0 development
watchdog ==3.0.0 development
wcwidth ==0.2.6 development
webencodings ==0.5.1 development
werkzeug ==2.2.3 development
wrapt ==1.15.0 development
wsproto ==1.2.0 development
yarl ==1.9.2 development
zipp ==3.15.0 development

lib/galaxy/dependencies/lint-requirements.txt pypi

lib/galaxy/dependencies/pinned-lint-requirements.txt pypi

attrs ==23.1.0
flake8 ==5.0.4
flake8-bugbear ==23.3.12
importlib-metadata ==4.2.0
mccabe ==0.7.0
pycodestyle ==2.9.1
pyflakes ==2.5.0
ruff ==0.0.284
typing_extensions ==4.7.1
zipp ==3.15.0

lib/galaxy/dependencies/pinned-requirements.txt pypi

a2wsgi ==1.7.0
adal ==1.2.7
aiobotocore ==2.4.2
aiofiles ==23.2.1
aiohttp ==3.8.5
aioitertools ==0.11.0
aiosignal ==1.3.1
alembic ==1.11.2
amqp ==5.1.1
anyio ==3.7.1
apispec ==6.3.0
appdirs ==1.4.4
arcp ==0.2.1
argcomplete ==3.1.1
async-timeout ==4.0.3
asynctest ==0.13.0
attmap ==0.13.2
attrs ==23.1.0
babel ==2.12.1
backports-zoneinfo ==0.2.1
bagit ==1.8.1
bagit-profile ==1.3.1
bcrypt ==4.0.1
bdbag ==1.7.1
beaker ==1.12.1
billiard ==3.6.4.0
bioblend ==1.2.0
bleach ==6.0.0
boltons ==23.0.0
boto ==2.49.0
botocore ==1.27.59
bx-python ==0.10.0
cachecontrol ==0.13.1
cached-property ==1.5.2
celery ==5.2.7
certifi ==2023.7.22
cffi ==1.15.1
charset-normalizer ==3.2.0
cheetah3 ==3.2.6.post1
circus ==0.18.0
click ==8.1.6
click-didyoumean ==0.3.0
click-plugins ==1.1.1
click-repl ==0.3.0
cloudauthz ==0.6.0
cloudbridge ==3.1.0
colorama ==0.4.6
coloredlogs ==15.0.1
conda-package-streaming ==0.9.0
cryptography ==41.0.3
cwl-upgrader ==1.2.8
cwl-utils ==0.28
cwltool ==3.1.20221109155812
cython ==3.0.0
decorator ==5.1.1
defusedxml ==0.7.1
deprecation ==2.1.0
dictobj ==0.4
dnspython ==2.3.0
docopt ==0.6.2
docutils ==0.18.1
dparse ==0.6.3
ecdsa ==0.18.0
edam-ontology ==1.25.2
email-validator ==2.0.0.post2
exceptiongroup ==1.1.2
fastapi ==0.98.0
fastapi-utils ==0.2.1
filelock ==3.12.2
frozenlist ==1.3.3
fs ==2.4.16
fsspec ==2023.1.0
future ==0.18.3
galaxy-sequence-utils ==1.1.5
galaxy2cwl ==0.1.4
gravity ==1.0.3
greenlet ==2.0.2
gunicorn ==21.2.0
gxformat2 ==0.18.0
h11 ==0.14.0
h5grove ==1.3.0
h5py ==3.8.0
humanfriendly ==10.0
idna ==3.4
importlib-metadata ==4.13.0
importlib-resources ==5.12.0
isa-rwval ==0.10.10
isodate ==0.6.1
jinja2 ==3.1.2
jmespath ==1.0.1
jsonref ==1.1.0
jsonschema ==4.17.3
kombu ==5.2.4
lagom ==2.4.1
lxml ==4.9.3
mako ==1.2.4
markdown ==3.4.4
markdown-it-py ==2.2.0
markupsafe ==2.1.3
mdurl ==0.1.2
mercurial ==6.5.1
mistune ==2.0.5
mrcfile ==1.4.3
msal ==1.23.0
msgpack ==1.0.5
multidict ==6.0.4
mypy-extensions ==1.0.0
networkx ==2.5
nodeenv ==1.8.0
numpy ==1.21.6
numpy ==1.24.4
numpy ==1.25.2
oauthlib ==3.2.2
orjson ==3.9.4
oyaml ==1.0
packaging ==23.1
paramiko ==3.3.1
parsley ==1.3
paste ==3.5.3
pastedeploy ==3.0.1
pebble ==5.0.3
pkgutil-resolve-name ==1.3.10
prompt-toolkit ==3.0.39
prov ==1.5.1
psutil ==5.9.5
pulsar-galaxy-lib ==0.15.3
pyasn1 ==0.5.0
pycparser ==2.21
pycryptodome ==3.18.0
pydantic ==1.10.12
pydantic-tes ==0.1.5
pydot ==1.4.2
pyeventsystem ==0.1.0
pyfaidx ==0.7.2.1
pygments ==2.16.1
pyjwt ==2.8.0
pykwalify ==1.8.0
pylibmagic ==0.4.0
pynacl ==1.5.0
pyparsing ==3.0.9
pyreadline ==2.1
pyreadline3 ==3.4.1
pyrsistent ==0.19.3
pysam ==0.21.0
python-dateutil ==2.8.2
python-jose ==3.3.0
python-magic ==0.4.27
python-multipart ==0.0.6
python3-openid ==3.2.0
pytz ==2023.3
pyyaml ==6.0.1
pyzmq ==25.1.1
rdflib ==6.2.0
refgenconf ==0.12.2
repoze-lru ==0.7
requests ==2.31.0
requests-oauthlib ==1.3.1
requests-toolbelt ==1.0.0
requests-unixsocket ==0.3.0
rich ==13.5.2
rocrate ==0.8.0
routes ==2.5.1
rsa ==4.9
ruamel-yaml ==0.17.21
ruamel-yaml-clib ==0.2.7
s3fs ==2023.1.0
schema-salad ==8.4.20230808163024
setuptools ==68.0.0
setuptools-scm ==5.0.2
shellescape ==3.8.1
six ==1.16.0
sniffio ==1.3.0
social-auth-core ==4.0.3
sortedcontainers ==2.4.0
sqlalchemy ==1.4.49
sqlitedict ==2.1.0
sqlparse ==0.4.4
starlette ==0.27.0
starlette-context ==0.3.5
supervisor ==4.2.5
svgwrite ==1.4.3
tenacity ==8.2.2
tifffile ==2021.11.2
tinydb ==4.8.0
tornado ==6.2
tqdm ==4.66.1
tuspy ==1.0.1
tuswsgi ==0.5.5
typing-extensions ==4.7.1
tzdata ==2023.3
tzlocal ==5.0.1
ubiquerg ==0.6.3
urllib3 ==1.26.16
uvicorn ==0.22.0
uvloop ==0.17.0
vine ==5.0.0
wcwidth ==0.2.6
webencodings ==0.5.1
webob ==1.8.7
whoosh ==2.7.4
wrapt ==1.15.0
yacman ==0.9.1
yarl ==1.9.2
zipp ==3.15.0
zipstream-new ==1.1.8
zstandard ==0.21.0

lib/galaxy/dependencies/pinned-typecheck-requirements.txt pypi

cffi ==1.15.1
cryptography ==41.0.3
mypy ==1.4.1
mypy-extensions ==1.0.0
pycparser ==2.21
pydantic ==1.10.12
tomli ==2.0.1
typed-ast ==1.5.5
types-Markdown ==3.4.2.10
types-PyYAML ==6.0.12.11
types-bleach ==6.0.0.4
types-boto ==2.49.18.9
types-contextvars ==2.4.7.3
types-dataclasses ==0.6.6
types-docutils ==0.20.0.1
types-paramiko ==3.3.0.0
types-pkg-resources ==0.1.3
types-python-dateutil ==2.8.19.14
types-requests ==2.31.0.2
types-six ==1.16.21.9
types-urllib3 ==1.26.25.14
typing_extensions ==4.7.1

lib/galaxy/job_execution/setup.py pypi

packages/app/dev-requirements.txt pypi

build * development
mypy * development
sphinx * development
twine * development

packages/app/pyproject.toml pypi

packages/app/test-requirements.txt pypi

mock-ssh-server * test
pkce * test
pykwalify * test
pytest * test
testfixtures * test

packages/auth/dev-requirements.txt pypi

build * development
mypy * development
sphinx * development
twine * development

packages/auth/pyproject.toml pypi

packages/auth/test-requirements.txt pypi

pytest * test

packages/config/dev-requirements.txt pypi

build * development
mypy * development
sphinx * development
twine * development

packages/config/pyproject.toml pypi

packages/config/test-requirements.txt pypi

gravity * test
pytest * test

packages/data/dev-requirements.txt pypi

build * development
mypy * development
sphinx * development
twine * development

packages/data/pyproject.toml pypi

packages/data/test-requirements.txt pypi

pytest * test

packages/files/dev-requirements.txt pypi

build * development
mypy * development
sphinx * development
twine * development

packages/files/pyproject.toml pypi

packages/files/test-requirements.txt pypi

fs-gcsfs * test
pytest * test
s3fs * test

packages/job_execution/dev-requirements.txt pypi

build * development
mypy * development
sphinx * development
twine * development

packages/job_execution/pyproject.toml pypi

packages/job_execution/test-requirements.txt pypi

pytest * test

packages/job_metrics/dev-requirements.txt pypi

build * development
mypy * development
sphinx * development
twine * development

packages/job_metrics/pyproject.toml pypi

packages/job_metrics/test-requirements.txt pypi

pytest * test

packages/meta/dev-requirements.txt pypi

build * development
mypy * development
sphinx * development
twine * development

packages/meta/pyproject.toml pypi

packages/meta/test-requirements.txt pypi

pytest * test

packages/navigation/dev-requirements.txt pypi

build * development
mypy * development
sphinx * development
twine * development

packages/navigation/pyproject.toml pypi

packages/navigation/test-requirements.txt pypi

pytest * test

packages/objectstore/dev-requirements.txt pypi

build * development
mypy * development
sphinx * development
twine * development

packages/objectstore/pyproject.toml pypi

packages/objectstore/test-requirements.txt pypi

pytest * test

packages/package-dev-requirements.txt pypi

build * development
mypy * development
sphinx * development
twine * development

packages/selenium/dev-requirements.txt pypi

build * development
mypy * development
sphinx * development
twine * development

packages/selenium/pyproject.toml pypi

packages/selenium/test-requirements.txt pypi

pytest * test

packages/test_api/dev-requirements.txt pypi

build * development
mypy * development
sphinx * development
twine * development

packages/test_api/pyproject.toml pypi

packages/test_api/test-requirements.txt pypi

pytest * test

packages/test_base/dev-requirements.txt pypi

build * development
mypy * development
sphinx * development
twine * development

packages/test_base/pyproject.toml pypi

packages/test_base/test-requirements.txt pypi

pytest * test

packages/test_driver/dev-requirements.txt pypi

build * development
mypy * development
sphinx * development
twine * development

packages/test_driver/pyproject.toml pypi

packages/test_driver/test-requirements.txt pypi

pytest * test

packages/test_selenium/dev-requirements.txt pypi

build * development
mypy * development
sphinx * development
twine * development

packages/test_selenium/pyproject.toml pypi

packages/test_selenium/test-requirements.txt pypi

pytest * test

packages/tool_util/dev-requirements.txt pypi

build * development
mypy * development
sphinx * development
twine * development

packages/tool_util/pyproject.toml pypi

packages/tool_util/test-requirements.txt pypi

Beaker * test
pytest * test
pytest-mock * test

packages/tours/dev-requirements.txt pypi

build * development
mypy * development
sphinx * development
twine * development

packages/tours/pyproject.toml pypi

packages/tours/test-requirements.txt pypi

pytest * test

packages/util/dev-requirements.txt pypi

build * development
mypy * development
sphinx * development
twine * development

packages/util/pyproject.toml pypi

packages/util/test-requirements.txt pypi

pytest * test
pytest-httpserver * test
responses * test

packages/web_apps/dev-requirements.txt pypi

build * development
mypy * development
sphinx * development
twine * development

packages/web_apps/pyproject.toml pypi

packages/web_apps/test-requirements.txt pypi

httpx * test
pytest * test
pytest-asyncio * test

packages/web_framework/dev-requirements.txt pypi

build * development
mypy * development
sphinx * development
twine * development

packages/web_framework/pyproject.toml pypi

packages/web_framework/test-requirements.txt pypi

pytest * test

packages/web_stack/dev-requirements.txt pypi

build * development
mypy * development
sphinx * development
twine * development

packages/web_stack/pyproject.toml pypi

packages/web_stack/test-requirements.txt pypi

gunicorn * test
pytest * test

pyproject.toml pypi

Babel *
Beaker *
Cheetah3 !=3.2.6.post2
Mako *
Markdown *
MarkupSafe *
Mercurial *
Parsley *
Paste *
PyJWT *
PyYAML *
Routes *
SQLAlchemy >=1.4.25,<2
WebOb *
Whoosh *
a2wsgi *
aiofiles *
alembic *
apispec *
bdbag >=1.6.3
bioblend *
bleach *
boltons *
boto *
bx-python *
celery *
circus *
cloudauthz ==0.6.0
cloudbridge *
conda-package-streaming *
cwltool ==3.1.20221109155812
dictobj *
dnspython *
docutils !=0.17, !=0.17.1
dparse *
edam-ontology *
fastapi >=0.71.0, !=0.89.0, <0.99
fastapi-utils *
fs *
future *
galaxy_sequence_utils *
gravity >=1.0
gunicorn *
gxformat2 *
h5grove >=1.2.1
h5py *
importlib-metadata <5
importlib-resources *
isa-rwval *
kombu *
lagom *
mrcfile *
msal *
nodeenv *
numpy *
packaging *
paramiko !=2.9.0, !=2.9.1
pebble *
psutil *
pulsar-galaxy-lib >=0.15.0.dev0
pycryptodome *
pydantic <2
pykwalify *
pylibmagic *
pyparsing <3.1
pysam >=0.21
python >=3.7,<3.12
python-dateutil *
python-magic *
python-multipart *
refgenconf >=0.12.0
requests *
rocrate *
s3fs ^2023.1.0
schema-salad !=8.3.20220721194857
social-auth-core ==4.0.3
sortedcontainers *
sqlitedict *
sqlparse *
starlette *
starlette-context *
svgwrite *
tifffile *
tuswsgi *
typing-extensions *
uvicorn *
uvloop *
zipstream-new *

client/yarn.lock npm

1616 dependencies

Ecosyste.ms: Repos

GitHub / Bioconductor / galaxy

Files

Dependencies