Paprikant/galaxy-beacon | GitHub

Loading...

Readme

Loading...

requirements.txt pypi

a2wsgi ==1.4.1
adal ==1.2.7
aiofiles ==0.8.0
alembic ==1.8.0
amqp ==5.1.1
anyio ==3.6.1
apispec ==5.2.2
appdirs ==1.4.4
argcomplete ==2.0.0
asgiref ==3.5.2
attmap ==0.13.2
attrs ==21.4.0
babel ==2.10.3
bagit ==1.8.1
bagit-profile ==1.3.1
bcrypt ==3.2.2
bdbag ==1.6.3
beaker ==1.11.0
billiard ==3.6.4.0
bioblend ==0.17.0
bleach ==5.0.0
boltons ==21.0.0
boto ==2.49.0
bx-python ==0.8.13
cachecontrol ==0.12.11
cached-property ==1.5.2
celery ==5.2.7
certifi ==2022.6.15
cffi ==1.15.0
charset-normalizer ==2.0.12
cheetah3 ==3.2.6.post1
circus ==0.17.1
click ==8.1.3
click-didyoumean ==0.3.0
click-plugins ==1.1.1
click-repl ==0.2.0
cloudauthz ==0.6.0
cloudbridge ==3.0.0
colorama ==0.4.5
coloredlogs ==15.0.1
commonmark ==0.9.1
cryptography ==37.0.2
cwltool ==3.1.20211107152837
decorator ==5.1.1
defusedxml ==0.7.1
deprecation ==2.1.0
dictobj ==0.4
docopt ==0.6.2
docutils ==0.16
ecdsa ==0.17.0
edam-ontology ==1.25.2
fastapi ==0.78.0
fastapi-utils ==0.2.1
fs ==2.4.16
funcsigs ==1.0.2
future ==0.18.2
galaxy-sequence-utils ==1.1.5
gravity ==0.13.1
greenlet ==1.1.2
gunicorn ==20.1.0
gxformat2 ==0.15.0
h11 ==0.12.0
h5py ==3.7.0
humanfriendly ==10.0
idna ==3.3
importlib-metadata ==4.11.4
importlib-resources ==5.8.0
isa-rwval ==0.10.10
isodate ==0.6.1
jsonref ==0.2
jsonschema ==4.6.0
kombu ==5.2.4
lagom ==1.7.1
lockfile ==0.12.2
lxml ==4.9.0
mako ==1.2.0
markdown ==3.3.7
markupsafe ==2.1.1
mercurial ==6.1.4
mistune ==0.8.4
mrcfile ==1.3.0
msgpack ==1.0.4
mypy-extensions ==0.4.3
networkx ==2.5
nodeenv ==1.6.0
nose ==1.3.7
numpy ==1.21.6
oauthlib ==3.2.0
oyaml ==1.0
packaging ==21.3
paramiko ==2.11.0
parsley ==1.3
paste ==3.5.0
pastedeploy ==2.1.1
pbr ==5.9.0
pebble ==4.6.3
prompt-toolkit ==3.0.29
prov ==1.5.1
psutil ==5.9.1
pulsar-galaxy-lib ==0.14.13
py ==1.11.0
pyasn1 ==0.4.8
pycparser ==2.21
pycryptodome ==3.14.1
pydantic ==1.9.1
pydot ==1.4.2
pyeventsystem ==0.1.0
pyfaidx ==0.7.0
pygments ==2.12.0
pyjwt ==2.4.0
pykwalify ==1.8.0
pylibmagic ==0.2.0
pynacl ==1.5.0
pyparsing ==3.0.9
pyreadline ==2.1
pyreadline3 ==3.4.1
pyrsistent ==0.18.1
pysam ==0.19.1
python-dateutil ==2.8.2
python-jose ==3.3.0
python-magic ==0.4.27
python-multipart ==0.0.5
python3-openid ==3.2.0
pytz ==2022.1
pyyaml ==6.0
pyzmq ==23.1.0
rdflib ==6.0.2
refgenconf ==0.12.2
repoze.lru ==0.7
requests ==2.28.0
requests-oauthlib ==1.3.1
requests-toolbelt ==0.9.1
rich ==12.4.4
routes ==2.5.1
rsa ==4.8
ruamel.yaml ==0.17.17
ruamel.yaml.clib ==0.2.6
schema-salad ==8.3.20220525163636
setuptools-scm ==5.0.2
shellescape ==3.8.1
six ==1.16.0
sniffio ==1.2.0
social-auth-core ==4.0.3
sortedcontainers ==2.4.0
sqlalchemy ==1.4.37
sqlalchemy-migrate ==0.13.0
sqlitedict ==2.0.0
sqlparse ==0.4.2
starlette ==0.19.1
starlette-context ==0.3.3
supervisor ==4.2.4
svgwrite ==1.4.2
tempita ==0.5.2
tenacity ==8.0.1
tifffile ==2021.11.2
tornado ==6.1
tqdm ==4.64.0
tuswsgi ==0.5.4
typing-extensions ==4.2.0
tzlocal ==2.1
ubiquerg ==0.6.2
urllib3 ==1.26.9
uvicorn ==0.17.6
uvloop ==0.16.0
vine ==5.0.0
wcwidth ==0.2.5
webencodings ==0.5.1
webob ==1.8.7
whoosh ==2.7.4
yacman ==0.8.4
zipp ==3.8.0
zipstream-new ==1.1.8

.github/workflows/build_container_image.yaml actions

actions-hub/docker master composite
actions-hub/docker/login master composite
actions/checkout v3 composite

.github/workflows/codeql-analysis.yml actions

actions/checkout v3 composite
github/codeql-action/analyze v2 composite
github/codeql-action/autobuild v2 composite
github/codeql-action/init v2 composite

.github/workflows/converter_tests.yaml actions

actions/cache v3 composite
actions/checkout v3 composite
actions/setup-python v3 composite
actions/upload-artifact v3 composite

.github/workflows/cwl_conformance.yaml actions

actions/cache v3 composite
actions/checkout v3 composite
actions/setup-python v3 composite
actions/upload-artifact v3 composite
codecov/codecov-action v2 composite
postgres 13 docker

.github/workflows/db_indexes.yaml actions

actions/cache v3 composite
actions/checkout v3 composite
actions/setup-python v3 composite
postgres ${{ matrix.postgresql-version }} docker

.github/workflows/dependencies.yaml actions

actions/cache v3 composite
actions/checkout v3 composite
actions/setup-python v3 composite
peter-evans/create-pull-request v4 composite

.github/workflows/docs.yaml actions

actions/cache v3 composite
actions/checkout v3 composite
actions/setup-python v3 composite

.github/workflows/first_startup.yaml actions

actions/cache v3 composite
actions/checkout v3 composite
actions/setup-python v3 composite
mvdbeek/gha-yarn-cache master composite

.github/workflows/framework.yaml actions

actions/cache v3 composite
actions/checkout v3 composite
actions/setup-python v3 composite
actions/upload-artifact v3 composite
codecov/codecov-action v2 composite
postgres 13 docker

.github/workflows/integration.yaml actions

CodingNagger/minikube-setup-action v1.0.3 composite
actions/cache v3 composite
actions/checkout v3 composite
actions/setup-python v3 composite
actions/upload-artifact v3 composite
codecov/codecov-action v2 composite
postgres 13 docker
rabbitmq * docker

.github/workflows/integration_selenium.yaml actions

actions/cache v3 composite
actions/checkout v3 composite
actions/setup-python v3 composite
actions/upload-artifact v3 composite
codecov/codecov-action v2 composite
mvdbeek/gha-yarn-cache master composite
nanasess/setup-chromedriver v1 composite
postgres 13 docker

.github/workflows/jest.yaml actions

actions/checkout v3 composite
actions/setup-node v3 composite

.github/workflows/labels-verifier.yaml actions

actions/github-script v6 composite

.github/workflows/lint.yaml actions

actions/cache v3 composite
actions/checkout v3 composite
actions/setup-python v3 composite
jamescurtin/isort-action master composite
psf/black stable composite

.github/workflows/maintenance_bot.yaml actions

actions/github-script v6 composite
actions/labeler v4 composite

.github/workflows/mulled.yaml actions

actions/cache v3 composite
actions/checkout v3 composite
actions/setup-python v3 composite
actions/upload-artifact v3 composite

.github/workflows/osx_startup.yaml actions

actions/cache v3 composite
actions/checkout v3 composite
conda-incubator/setup-miniconda v2 composite

.github/workflows/performance.yaml actions

actions/cache v3 composite
actions/checkout v3 composite
actions/setup-python v3 composite
actions/upload-artifact v3 composite
postgres 13 docker

.github/workflows/reports_startup.yaml actions

actions/cache v3 composite
actions/checkout v3 composite
actions/setup-python v3 composite
mvdbeek/gha-yarn-cache master composite

.github/workflows/selenium.yaml actions

actions/cache v3 composite
actions/checkout v3 composite
actions/setup-python v3 composite
actions/upload-artifact v3 composite
codecov/codecov-action v2 composite
mvdbeek/gha-yarn-cache master composite
nanasess/setup-chromedriver v1 composite
postgres 13 docker

.github/workflows/selenium_beta.yaml actions

actions/cache v3 composite
actions/checkout v3 composite
actions/setup-python v3 composite
actions/upload-artifact v3 composite
codecov/codecov-action v2 composite
mvdbeek/gha-yarn-cache master composite
nanasess/setup-chromedriver v1 composite
postgres 13 docker

.github/workflows/test_galaxy_packages.yaml actions

actions/cache v3 composite
actions/checkout v3 composite
actions/setup-python v3 composite

.github/workflows/test_galaxy_release.yaml actions

actions/checkout v3 composite

.github/workflows/toolshed.yaml actions

actions/cache v3 composite
actions/checkout v3 composite
actions/setup-python v3 composite
actions/upload-artifact v3 composite
postgres 13 docker

.github/workflows/unit-postgres.yaml actions

actions/cache v3 composite
actions/checkout v3 composite
actions/setup-python v3 composite
postgres 13 docker

.github/workflows/unit.yaml actions

actions/cache v3 composite
actions/checkout v3 composite
actions/setup-python v3 composite
actions/upload-artifact v3 composite
codecov/codecov-action v2 composite

client/Dockerfile docker

digitallyseamless/nodejs-bower-grunt latest build

lib/galaxy/web/proxy/js/Dockerfile docker

node 0.11.13 build

test/functional/tools/realtime/simple/Dockerfile docker

python 2.7 build

client/package.json npm

@babel/core ^7.17.0 development
@babel/eslint-parser ^7.17.0 development
@babel/helper-validator-identifier ^7.16.7 development
@babel/plugin-syntax-dynamic-import ^7.8.3 development
@babel/plugin-transform-runtime ^7.17.0 development
@babel/preset-env ^7.16.11 development
@cerner/duplicate-package-checker-webpack-plugin ^2.1.0 development
@testing-library/jest-dom ^5.16.2 development
@vue/test-utils ^1.3.0 development
@vue/vue2-jest ^27.0.0-alpha.4 development
amdi18n-loader ^0.9.3 development
autoprefixer ^10.4.2 development
axios-mock-adapter ^1.20.0 development
babel-core ^7.0.0-bridge.0 development
babel-jest ^27.4.6 development
babel-loader ^8.2.3 development
babel-plugin-transform-inline-environment-variables ^0.4.3 development
babel-plugin-transform-vue-template ^0.4.2 development
buffer ^6.0.3 development
css-loader ^6.6.0 development
css-minimizer-webpack-plugin ^3.4.1 development
del ^6.0.0 development
eslint ^8.13.0 development
eslint-plugin-compat ^4.0.2 development
eslint-plugin-vue ^8.6.0 development
expose-loader ^3.1.0 development
gulp ^4.0.2 development
ignore-loader ^0.1.2 development
imports-loader ^3.1.1 development
jest ^27.4.7 development
jest-location-mock ^1.0.9 development
jest-raw-loader ^1.0.1 development
jest-transform-yaml 1.0.0 development
json-loader ^0.5.7 development
karma ^6.3.16 development
karma-chrome-launcher ^3.1.0 development
karma-polyfill ^1.1.0 development
karma-qunit ^4.1.2 development
karma-webpack ^5.0.0 development
mini-css-extract-plugin ^2.5.3 development
postcss-loader ^6.2.1 development
prettier ^2.5.1 development
process ^0.11.10 development
qunit ^2.17.2 development
raw-loader ^4.0.2 development
sass ^1.49.7 development
sass-loader ^12.4.0 development
sinon ^13.0.1 development
store ^2.0.12 development
style-loader ^3.3.1 development
vue-loader ^15.9.8 development
vue-template-compiler ^2.6.14 development
webpack ^5.68.0 development
webpack-cli ^4.9.2 development
webpack-dev-server ^4.7.4 development
webpack-merge ^5.8.0 development
yaml-loader ^0.6.0 development
@fortawesome/fontawesome-free ^5.15.4
@fortawesome/fontawesome-svg-core ^1.2.36
@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 ^2.0.6
@handsontable/vue ^2.0.0-beta1
@hirez_io/observer-spy ^2.1.2
@johmun/vue-tags-input ^2.1.0
@popperjs/core ^2.11.5
@sentry/browser ^6.17.4
assert ^2.0.0
axios ^0.25.0
babel-runtime ^6.26.0
backbone 1.4.0
bootstrap 4.6
bootstrap-vue ^2.21.2
citation-js ^0.5.5
core-js ^3.21.0
d3 3
date-fns ^2.28.0
date-fns-tz ^1.3.3
decode-uri-component ^0.2.0
dom-to-image ^2.6.0
elkjs ^0.7.1
file-saver ^2.0.5
flush-promises ^1.0.2
glob ^7.2.0
handsontable ^2.0.0
imask ^6.4.0
jquery 2
jquery-migrate ~1.4
jquery-mousewheel ^3.1.13
jquery-ui ^1.13.1
jspdf ^2.5.1
linkify-html ^3.0.5
linkifyjs ^3.0.5
localforage ^1.10.0
markdown-it ^12.3.2
markdown-it-regexp ^0.4.0
object-hash ^2.2.0
popper.js ^1.16.1
pretty-bytes ^5.6.0
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 ^2.6.14
vue-infinite-scroll ^2.0.2
vue-multiselect ^2.1.6
vue-observe-visibility ^1.0.0
vue-prismjs ^1.2.0
vue-router ^3.5.3
vue-rx ^6.2.0
vue-virtual-scroll-list ^2.3.3
vuedraggable 2.24.3
vueisotope ^3.1.2
vuex ^3.6.2
vuex-cache ^3.4.0
vuex-persist 2.3
winbox ^0.2.1
xml-beautifier ^0.5.0

.github/workflows/api.yaml actions

actions/cache v3 composite
actions/checkout v3 composite
actions/setup-python v3 composite
actions/upload-artifact v3 composite
codecov/codecov-action v2 composite
postgres 13 docker

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

d3 ^7.4.4
pca-js ^1.0.2
plotly.js ^2.11.1

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

babel-preset-env ^1.6.1
backbone ^1.3.3
jquery ^3.3.1
jquery-contextmenu ^2.7.1
jquery.ui.position ^1.11.4
paper ^0.12.3
parcel-bundler ^1.4.1
underscore ^1.8.3

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

copy-webpack-plugin ^5.1.1 development
css-loader ^3.4.2 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
system ^2.0.1 development
url-loader ^4.0.0 development
webpack ^4.42.1 development
webpack-cli ^3.3.11 development
bootstrap 3.3.7
font-awesome ^4.7.0
jquery 3.2.1
plotly.js ^1.52.3
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/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
backbone ^1.3.3
bootstrap ^3.3.7
es2015 0.0.0
jquery ^3.1.1
msa ^1.0.3
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

babel-preset-env ^1.6.1
backbone ^1.3.3
bootstrap ^3.3.7
jquery ^3.1.1
parcel-bundler ^1.4.1
phylocanvas ^2.8.1

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/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 ^6.0.3 development
css-loader ^3.4.2 development
expose-loader ^0.7.5 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
@galaxyproject/new_user_welcome ^1.0.6
fbjs ^1.0.0
underscore ^1.9.2

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

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

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

a2wsgi ==1.4.1 development
adal ==1.2.7 development
aiofiles ==0.8.0 development
alabaster ==0.7.12 development
alembic ==1.8.0 development
amqp ==5.1.1 development
anyio ==3.6.1 development
apispec ==5.2.2 development
appdirs ==1.4.4 development
argcomplete ==2.0.0 development
ase ==3.22.1 development
asgiref ==3.5.2 development
async-generator ==1.10 development
atomicwrites ==1.4.0 development
attmap ==0.13.2 development
attrs ==21.4.0 development
babel ==2.10.3 development
bagit ==1.8.1 development
bagit-profile ==1.3.1 development
bcrypt ==3.2.2 development
bdbag ==1.6.3 development
beaker ==1.11.0 development
billiard ==3.6.4.0 development
bioblend ==0.17.0 development
black ==22.3.0 development
bleach ==5.0.0 development
boltons ==21.0.0 development
boto ==2.49.0 development
bx-python ==0.8.13 development
cachecontrol ==0.12.11 development
cached-property ==1.5.2 development
celery ==5.2.7 development
certifi ==2022.6.15 development
cffi ==1.15.0 development
charset-normalizer ==2.0.12 development
cheetah3 ==3.2.6.post1 development
circus ==0.17.1 development
click ==8.1.3 development
click-didyoumean ==0.3.0 development
click-plugins ==1.1.1 development
click-repl ==0.2.0 development
cloudauthz ==0.6.0 development
cloudbridge ==3.0.0 development
colorama ==0.4.5 development
coloredlogs ==15.0.1 development
commonmark ==0.9.1 development
coverage ==6.4.1 development
cryptography ==37.0.2 development
cwltest ==2.2.20210901154959 development
cwltool ==3.1.20211107152837 development
cycler ==0.11.0 development
darker ==1.5.0 development
decorator ==5.1.1 development
defusedxml ==0.7.1 development
deprecated ==1.2.13 development
deprecation ==2.1.0 development
dictobj ==0.4 development
docopt ==0.6.2 development
docutils ==0.16 development
ecdsa ==0.17.0 development
edam-ontology ==1.25.2 development
fastapi ==0.78.0 development
fastapi-utils ==0.2.1 development
fluent-logger ==0.10.0 development
fonttools ==4.33.3 development
fs ==2.4.16 development
funcsigs ==1.0.2 development
future ==0.18.2 development
galaxy-sequence-utils ==1.1.5 development
gravity ==0.13.1 development
greenlet ==1.1.2 development
gunicorn ==20.1.0 development
gxformat2 ==0.15.0 development
h11 ==0.12.0 development
h5py ==3.7.0 development
httpcore ==0.15.0 development
httpx ==0.23.0 development
humanfriendly ==10.0 development
idna ==3.3 development
imagesize ==1.3.0 development
importlib-metadata ==4.11.4 development
importlib-resources ==5.8.0 development
iniconfig ==1.1.1 development
isa-rwval ==0.10.10 development
isodate ==0.6.1 development
isort ==5.10.1 development
jinja2 ==3.1.2 development
jsonref ==0.2 development
jsonschema ==4.6.0 development
junit-xml ==1.9 development
kiwisolver ==1.4.3 development
kombu ==5.2.4 development
lagom ==1.7.1 development
lockfile ==0.12.2 development
lxml ==4.9.0 development
mako ==1.2.0 development
markdown ==3.3.7 development
markdown-it-reporter ==0.0.2 development
markupsafe ==2.1.1 development
matplotlib ==3.5.2 development
mercurial ==6.1.4 development
mirakuru ==2.4.2 development
mistune ==0.8.4 development
mrcfile ==1.3.0 development
msgpack ==1.0.4 development
mypy-extensions ==0.4.3 development
networkx ==2.5 development
nodeenv ==1.6.0 development
nose ==1.3.7 development
nosehtml ==0.4.6 development
numpy ==1.21.6 development
oauthlib ==3.2.0 development
outcome ==1.2.0 development
oyaml ==1.0 development
packaging ==21.3 development
paramiko ==2.11.0 development
parsley ==1.3 development
paste ==3.5.0 development
pastedeploy ==2.1.1 development
pathspec ==0.9.0 development
pbr ==5.9.0 development
pebble ==4.6.3 development
pillow ==9.1.1 development
platformdirs ==2.5.2 development
pluggy ==1.0.0 development
port-for ==0.6.2 development
prettytable ==3.3.0 development
prompt-toolkit ==3.0.29 development
prov ==1.5.1 development
psutil ==5.9.1 development
pulsar-galaxy-lib ==0.14.13 development
py ==1.11.0 development
pyasn1 ==0.4.8 development
pycparser ==2.21 development
pycryptodome ==3.14.1 development
pydantic ==1.9.1 development
pydot ==1.4.2 development
pyeventsystem ==0.1.0 development
pyfaidx ==0.7.0 development
pygithub ==1.55 development
pygments ==2.12.0 development
pyjwt ==2.4.0 development
pykwalify ==1.8.0 development
pylibmagic ==0.2.0 development
pynacl ==1.5.0 development
pyopenssl ==22.0.0 development
pyparsing ==3.0.9 development
pyreadline ==2.1 development
pyreadline3 ==3.4.1 development
pyrsistent ==0.18.1 development
pysam ==0.19.1 development
pysocks ==1.7.1 development
pytest ==7.1.2 development
pytest-asyncio ==0.18.3 development
pytest-celery ==0.0.0 development
pytest-cov ==3.0.0 development
pytest-html ==3.1.1 development
pytest-json-report ==1.5.0 development
pytest-metadata ==2.0.1 development
pytest-mock ==3.7.0 development
pytest-postgresql ==4.1.1 development
pytest-shard ==0.1.2 development
python-dateutil ==2.8.2 development
python-irodsclient ==1.1.3 development
python-jose ==3.3.0 development
python-magic ==0.4.27 development
python-multipart ==0.0.5 development
python3-openid ==3.2.0 development
pytz ==2022.1 development
pyyaml ==6.0 development
pyzmq ==23.1.0 development
rdflib ==6.0.2 development
recommonmark ==0.7.1 development
refgenconf ==0.12.2 development
repoze.lru ==0.7 development
requests ==2.28.0 development
requests-oauthlib ==1.3.1 development
requests-toolbelt ==0.9.1 development
responses ==0.21.0 development
rfc3986 ==1.5.0 development
rich ==12.4.4 development
routes ==2.5.1 development
rsa ==4.8 development
ruamel.yaml ==0.17.17 development
ruamel.yaml.clib ==0.2.6 development
schema-salad ==8.3.20220525163636 development
scipy ==1.7.3 development
selenium ==4.2.0 development
setuptools-scm ==5.0.2 development
shellescape ==3.8.1 development
six ==1.16.0 development
sniffio ==1.2.0 development
snowballstemmer ==2.2.0 development
social-auth-core ==4.0.3 development
sortedcontainers ==2.4.0 development
sphinx ==5.0.2 development
sphinx-markdown-tables ==0.0.15 development
sphinx-rtd-theme ==1.0.0 development
sphinxcontrib-applehelp ==1.0.2 development
sphinxcontrib-devhelp ==1.0.2 development
sphinxcontrib-htmlhelp ==2.0.0 development
sphinxcontrib-jsmath ==1.0.1 development
sphinxcontrib-qthelp ==1.0.3 development
sphinxcontrib-serializinghtml ==1.1.5 development
sqlalchemy ==1.4.37 development
sqlalchemy-migrate ==0.13.0 development
sqlitedict ==2.0.0 development
sqlparse ==0.4.2 development
starlette ==0.19.1 development
starlette-context ==0.3.3 development
statsd ==3.3.0 development
supervisor ==4.2.4 development
svgwrite ==1.4.2 development
tempita ==0.5.2 development
tenacity ==8.0.1 development
testfixtures ==6.18.5 development
tifffile ==2021.11.2 development
tinydb ==4.7.0 development
toml ==0.10.2 development
tomli ==2.0.1 development
tornado ==6.1 development
tqdm ==4.64.0 development
trio ==0.21.0 development
trio-websocket ==0.9.2 development
tuspy ==0.2.5 development
tuswsgi ==0.5.4 development
twill ==3.0.2 development
typed-ast ==1.5.4 development
typing-extensions ==4.2.0 development
tzlocal ==2.1 development
ubiquerg ==0.6.2 development
urllib3 ==1.26.9 development
uvicorn ==0.17.6 development
uvloop ==0.16.0 development
vine ==5.0.0 development
watchdog ==2.1.9 development
wcwidth ==0.2.5 development
webencodings ==0.5.1 development
webob ==1.8.7 development
whoosh ==2.7.4 development
wrapt ==1.14.1 development
wsproto ==1.1.0 development
yacman ==0.8.4 development
zipp ==3.8.0 development
zipstream-new ==1.1.8 development

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

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

attrs ==21.4.0
flake8 ==4.0.1
flake8-bugbear ==22.4.25
importlib-metadata ==4.2.0
mccabe ==0.6.1
mypy ==0.961
mypy-extensions ==0.4.3
pycodestyle ==2.8.0
pyflakes ==2.4.0
tomli ==2.0.1
typed-ast ==1.5.4
types-Markdown ==3.3.28
types-PyYAML ==6.0.8
types-bleach ==5.0.2
types-boto ==2.49.15
types-contextvars ==2.4.6
types-cryptography ==3.3.21
types-dataclasses ==0.6.5
types-docutils ==0.18.3
types-paramiko ==2.10.0
types-pkg-resources ==0.1.3
types-python-dateutil ==2.8.17
types-requests ==2.27.30
types-six ==1.16.16
types-urllib3 ==1.26.15
typing_extensions ==4.2.0
zipp ==3.8.0

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

a2wsgi ==1.4.1
adal ==1.2.7
aiofiles ==0.8.0
alembic ==1.8.0
amqp ==5.1.1
anyio ==3.6.1
apispec ==5.2.2
appdirs ==1.4.4
argcomplete ==2.0.0
asgiref ==3.5.2
attmap ==0.13.2
attrs ==21.4.0
babel ==2.10.3
bagit ==1.8.1
bagit-profile ==1.3.1
bcrypt ==3.2.2
bdbag ==1.6.3
beaker ==1.11.0
billiard ==3.6.4.0
bioblend ==0.17.0
bleach ==5.0.0
boltons ==21.0.0
boto ==2.49.0
bx-python ==0.8.13
cachecontrol ==0.12.11
cached-property ==1.5.2
celery ==5.2.7
certifi ==2022.6.15
cffi ==1.15.0
charset-normalizer ==2.0.12
cheetah3 ==3.2.6.post1
circus ==0.17.1
click ==8.1.3
click-didyoumean ==0.3.0
click-plugins ==1.1.1
click-repl ==0.2.0
cloudauthz ==0.6.0
cloudbridge ==3.0.0
colorama ==0.4.5
coloredlogs ==15.0.1
commonmark ==0.9.1
cryptography ==37.0.2
cwltool ==3.1.20211107152837
decorator ==5.1.1
defusedxml ==0.7.1
deprecation ==2.1.0
dictobj ==0.4
docopt ==0.6.2
docutils ==0.16
ecdsa ==0.17.0
edam-ontology ==1.25.2
fastapi ==0.78.0
fastapi-utils ==0.2.1
fs ==2.4.16
funcsigs ==1.0.2
future ==0.18.2
galaxy-sequence-utils ==1.1.5
gravity ==0.13.1
greenlet ==1.1.2
gunicorn ==20.1.0
gxformat2 ==0.15.0
h11 ==0.12.0
h5py ==3.7.0
humanfriendly ==10.0
idna ==3.3
importlib-metadata ==4.11.4
importlib-resources ==5.8.0
isa-rwval ==0.10.10
isodate ==0.6.1
jsonref ==0.2
jsonschema ==4.6.0
kombu ==5.2.4
lagom ==1.7.1
lockfile ==0.12.2
lxml ==4.9.0
mako ==1.2.0
markdown ==3.3.7
markupsafe ==2.1.1
mercurial ==6.1.4
mistune ==0.8.4
mrcfile ==1.3.0
msgpack ==1.0.4
mypy-extensions ==0.4.3
networkx ==2.5
nodeenv ==1.6.0
nose ==1.3.7
numpy ==1.21.6
oauthlib ==3.2.0
oyaml ==1.0
packaging ==21.3
paramiko ==2.11.0
parsley ==1.3
paste ==3.5.0
pastedeploy ==2.1.1
pbr ==5.9.0
pebble ==4.6.3
prompt-toolkit ==3.0.29
prov ==1.5.1
psutil ==5.9.1
pulsar-galaxy-lib ==0.14.13
py ==1.11.0
pyasn1 ==0.4.8
pycparser ==2.21
pycryptodome ==3.14.1
pydantic ==1.9.1
pydot ==1.4.2
pyeventsystem ==0.1.0
pyfaidx ==0.7.0
pygments ==2.12.0
pyjwt ==2.4.0
pykwalify ==1.8.0
pylibmagic ==0.2.0
pynacl ==1.5.0
pyparsing ==3.0.9
pyreadline ==2.1
pyreadline3 ==3.4.1
pyrsistent ==0.18.1
pysam ==0.19.1
python-dateutil ==2.8.2
python-jose ==3.3.0
python-magic ==0.4.27
python-multipart ==0.0.5
python3-openid ==3.2.0
pytz ==2022.1
pyyaml ==6.0
pyzmq ==23.1.0
rdflib ==6.0.2
refgenconf ==0.12.2
repoze.lru ==0.7
requests ==2.28.0
requests-oauthlib ==1.3.1
requests-toolbelt ==0.9.1
rich ==12.4.4
routes ==2.5.1
rsa ==4.8
ruamel.yaml ==0.17.17
ruamel.yaml.clib ==0.2.6
schema-salad ==8.3.20220525163636
setuptools-scm ==5.0.2
shellescape ==3.8.1
six ==1.16.0
sniffio ==1.2.0
social-auth-core ==4.0.3
sortedcontainers ==2.4.0
sqlalchemy ==1.4.37
sqlalchemy-migrate ==0.13.0
sqlitedict ==2.0.0
sqlparse ==0.4.2
starlette ==0.19.1
starlette-context ==0.3.3
supervisor ==4.2.4
svgwrite ==1.4.2
tempita ==0.5.2
tenacity ==8.0.1
tifffile ==2021.11.2
tornado ==6.1
tqdm ==4.64.0
tuswsgi ==0.5.4
typing-extensions ==4.2.0
tzlocal ==2.1
ubiquerg ==0.6.2
urllib3 ==1.26.9
uvicorn ==0.17.6
uvloop ==0.16.0
vine ==5.0.0
wcwidth ==0.2.5
webencodings ==0.5.1
webob ==1.8.7
whoosh ==2.7.4
yacman ==0.8.4
zipp ==3.8.0
zipstream-new ==1.1.8

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
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

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/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/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
responses * 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

packages/webapps/dev-requirements.txt pypi

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

packages/webapps/pyproject.toml pypi

packages/webapps/test-requirements.txt pypi

httpx * test
pytest * test
pytest-asyncio * test

pyproject.toml pypi

NoseHTML * develop
PyGithub * develop
Sphinx >=4.0 develop
ase >=3.18.1 develop
black ^22.1.0 develop
cwltest 2.2.20210901154959 develop
darker * develop
fluent-logger * develop
httpx * develop
isort ^5.10.1 develop
lxml !=4.2.2 develop
markdown-it-reporter * develop
pytest * develop
pytest-asyncio * develop
pytest-celery * develop
pytest-cov * develop
pytest-html * develop
pytest-json-report * develop
pytest-mock * develop
pytest-postgresql !=3.0.0 develop
pytest-shard * develop
python-irodsclient !=1.1.2 develop
recommonmark * develop
responses * develop
selenium * develop
sphinx_markdown_tables * develop
sphinx_rtd_theme >=1.0.0 develop
statsd * develop
testfixtures * develop
tuspy * develop
twill * develop
watchdog * develop
Babel *
Beaker 1.11.0
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 *
cwltool ==3.1.20211107152837
dictobj *
docutils !=0.17, !=0.17.1
edam-ontology *
fastapi >=0.68.2, !=0.69.0, !=0.70.0, !=0.70.1
fastapi-utils *
fs *
future *
galaxy_sequence_utils *
gravity >=0.10.0
gunicorn *
gxformat2 *
h5py *
importlib_resources *
isa-rwval *
kombu *
lagom *
mrcfile *
nodeenv *
nose *
numpy *
paramiko !=2.9.0, !=2.9.1
pebble *
psutil *
pulsar-galaxy-lib >=0.14.13
pycryptodome *
pydantic *
pykwalify *
pylibmagic *
pyparsing *
pysam *
python >=3.7,<3.11
python-dateutil *
python-magic *
python-multipart *
refgenconf >=0.12.0
requests *
social-auth-core ==4.0.3
sortedcontainers *
sqlalchemy-migrate *
sqlitedict *
sqlparse *
starlette *
starlette-context *
svgwrite *
tifffile *
tuswsgi *
typing-extensions *
uvicorn *
uvloop *
zipstream-new *

client/yarn.lock npm

1393 dependencies

Ecosyste.ms: Repos

GitHub / Paprikant / galaxy-beacon

Files

Dependencies