Ecosyste.ms: Issues

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GitHub / bento-platform/bento_drs issues and pull requests

#100 - fix: write temp file uploads (during upload) to ingest tmp dir

Pull Request - State: closed - Opened by davidlougheed 6 months ago - 1 comment

#99 - chore: update base image + dev dependencies

Pull Request - State: closed - Opened by davidlougheed 6 months ago - 1 comment

#98 - chore!: switch to generating spec-compliant DRS URIs

Pull Request - State: closed - Opened by davidlougheed 6 months ago - 1 comment

#97 - chore: update base image + lockfile dependencies

Pull Request - State: closed - Opened by davidlougheed 6 months ago - 1 comment

#96 - chore: update VS code debugpy launch.json

Pull Request - State: closed - Opened by davidlougheed 6 months ago - 1 comment

#95 - chore: update lockfile dependencies + base image version

Pull Request - State: closed - Opened by davidlougheed 7 months ago - 1 comment

#94 - chore(deps-dev): bump cryptography from 42.0.2 to 42.0.4

Pull Request - State: closed - Opened by dependabot[bot] 7 months ago
Labels: dependencies

#93 - chore: update dependencies + bump version to 0.15.2

Pull Request - State: closed - Opened by davidlougheed 8 months ago

#92 - chore(deps-dev): bump cryptography from 41.0.7 to 42.0.0

Pull Request - State: closed - Opened by dependabot[bot] 8 months ago
Labels: dependencies

#91 - chore(deps): bump aiohttp from 3.9.1 to 3.9.2

Pull Request - State: closed - Opened by dependabot[bot] 8 months ago
Labels: dependencies

#90 - chore(deps): bump jinja2 from 3.1.2 to 3.1.3

Pull Request - State: closed - Opened by dependabot[bot] 9 months ago
Labels: dependencies

#88 - chore: update base image + lockfile deps

Pull Request - State: closed - Opened by davidlougheed 9 months ago

#87 - fix: support credentials in CORS requests

Pull Request - State: closed - Opened by davidlougheed 9 months ago

#86 - chore: update dependencies

Pull Request - State: closed - Opened by davidlougheed 9 months ago

#85 - chore: respond to standard DRS endpoint for service-info

Pull Request - State: closed - Opened by davidlougheed 9 months ago

#84 - chore: update bento_lib and lockfile dependencies

Pull Request - State: closed - Opened by davidlougheed 10 months ago

#83 - fix: response range headers for object download

Pull Request - State: closed - Opened by davidlougheed 10 months ago

#82 - fix: ingest logging

Pull Request - State: closed - Opened by davidlougheed 10 months ago

#81 - feat: add public flag for making public DRS objects

Pull Request - State: closed - Opened by davidlougheed 10 months ago

#80 - [WIP] refact: rewrite DRS using FastAPI framework

Pull Request - State: closed - Opened by davidlougheed 10 months ago

#79 - chore: update deps + add mypy in dev

Pull Request - State: closed - Opened by davidlougheed 10 months ago

#78 - chore(deps-dev): bump cryptography from 41.0.5 to 41.0.6

Pull Request - State: closed - Opened by dependabot[bot] 10 months ago
Labels: dependencies

#77 - chore(deps): bump aiohttp from 3.8.6 to 3.9.0

Pull Request - State: closed - Opened by dependabot[bot] 10 months ago
Labels: dependencies

#76 - chore: bump version to 0.14.0 & update lockfile

Pull Request - State: closed - Opened by davidlougheed 11 months ago

#75 - chore(deps): bump werkzeug from 2.2.3 to 2.3.8

Pull Request - State: open - Opened by dependabot[bot] 11 months ago
Labels: dependencies

#74 - chore: update docker base image & lockfile dependencies

Pull Request - State: closed - Opened by davidlougheed 11 months ago

#73 - fix: secure filename + keep filename if uploading file bytes

Pull Request - State: closed - Opened by davidlougheed 11 months ago

#72 - feat: switch to new authz api

Pull Request - State: closed - Opened by davidlougheed 12 months ago

#71 - chore(deps): bump urllib3 from 1.26.17 to 1.26.18

Pull Request - State: closed - Opened by dependabot[bot] 12 months ago
Labels: dependencies

#70 - fix!: wrong access method type (http -> https)

Pull Request - State: closed - Opened by davidlougheed 12 months ago

#69 - chore: update base images, dependencies, and CI actions

Pull Request - State: closed - Opened by davidlougheed 12 months ago

#68 - chore: bump version to 0.12.6

Pull Request - State: closed - Opened by davidlougheed 12 months ago

#67 - chore(deps): bump urllib3 from 1.26.16 to 1.26.17

Pull Request - State: closed - Opened by dependabot[bot] 12 months ago
Labels: dependencies

#66 - chore(deps-dev): bump cryptography from 41.0.3 to 41.0.4

Pull Request - State: closed - Opened by dependabot[bot] about 1 year ago
Labels: dependencies

#65 - [WIP] refact!: start working on moving DRS to s3-only backend

Pull Request - State: open - Opened by davidlougheed about 1 year ago

#64 - chore(deps-dev): bump cryptography from 41.0.2 to 41.0.3

Pull Request - State: closed - Opened by dependabot[bot] about 1 year ago - 1 comment
Labels: dependencies

#63 - chore(deps): bump certifi from 2023.5.7 to 2023.7.22

Pull Request - State: closed - Opened by dependabot[bot] about 1 year ago
Labels: dependencies

#62 - chore: implement post object download

Pull Request - State: closed - Opened by davidlougheed about 1 year ago

#61 - chore: bump version to 0.12.3

Pull Request - State: closed - Opened by davidlougheed about 1 year ago

#60 - fix: non-403 errors masked by 403

Pull Request - State: closed - Opened by davidlougheed about 1 year ago

#59 - fix: correct permissions for querying drs objects + downloading

Pull Request - State: closed - Opened by davidlougheed about 1 year ago

#58 - chore: bump version to 0.12.0

Pull Request - State: closed - Opened by davidlougheed about 1 year ago

#57 - feat: add cors

Pull Request - State: closed - Opened by davidlougheed about 1 year ago

#56 - fix: saving file bytes posted to ingest endpoint

Pull Request - State: closed - Opened by davidlougheed about 1 year ago

#55 - chore!: rm old bento git-related service info fields

Pull Request - State: closed - Opened by davidlougheed about 1 year ago

#54 - chore!: rename endpoint /private/ingest to /ingest

Pull Request - State: closed - Opened by davidlougheed about 1 year ago

#53 - feat: new permissions-aware/remote-file formdata ingest setup

Pull Request - State: closed - Opened by davidlougheed about 1 year ago

#52 - feat!: Bento authz

Pull Request - State: closed - Opened by davidlougheed about 1 year ago

#51 - chore!: switch to poetry for deps; drop python <3.10 support

Pull Request - State: closed - Opened by davidlougheed about 1 year ago

#50 - build(deps): bump cryptography from 39.0.2 to 41.0.0

Pull Request - State: closed - Opened by dependabot[bot] over 1 year ago - 1 comment
Labels: dependencies

#49 - fix: db and data dirs creation in container

Pull Request - State: closed - Opened by v-rocheleau over 1 year ago - 2 comments

#48 - build(deps): bump requests from 2.28.2 to 2.31.0

Pull Request - State: closed - Opened by dependabot[bot] over 1 year ago - 1 comment
Labels: dependencies

#47 - build(deps): bump flask from 2.2.3 to 2.2.5

Pull Request - State: closed - Opened by dependabot[bot] over 1 year ago
Labels: dependencies

#46 - build(deps): bump flask from 2.2.3 to 2.3.2

Pull Request - State: closed - Opened by dependabot[bot] over 1 year ago - 2 comments
Labels: dependencies

#45 - Fix/data folders

Pull Request - State: closed - Opened by davidlougheed over 1 year ago - 2 comments

#44 - build(deps): bump redis from 4.5.1 to 4.5.4

Pull Request - State: closed - Opened by dependabot[bot] over 1 year ago
Labels: dependencies

#43 - build(deps): bump redis from 4.5.1 to 4.5.3

Pull Request - State: closed - Opened by dependabot[bot] over 1 year ago - 2 comments
Labels: dependencies

#42 - Dev image work

Pull Request - State: closed - Opened by davidlougheed over 1 year ago - 1 comment

#41 - DRS spec compliance, add generic object search, fix generated HTTP access urls

Pull Request - State: closed - Opened by davidlougheed over 1 year ago - 1 comment

#40 - Image permissions

Pull Request - State: closed - Opened by davidlougheed over 1 year ago - 1 comment

#39 - build(deps): bump werkzeug from 2.2.2 to 2.2.3

Pull Request - State: closed - Opened by dependabot[bot] over 1 year ago - 1 comment
Labels: dependencies

#38 - Bump cryptography from 39.0.0 to 39.0.1

Pull Request - State: closed - Opened by dependabot[bot] over 1 year ago - 1 comment
Labels: dependencies

#37 - Default deduplicate to True and add more logging + testing

Pull Request - State: closed - Opened by davidlougheed over 1 year ago - 1 comment

#36 - Misc updates + extraneous debugpy warning fix

Pull Request - State: closed - Opened by davidlougheed over 1 year ago - 1 comment

#35 - Bump certifi from 2021.5.30 to 2022.12.7

Pull Request - State: closed - Opened by dependabot[bot] almost 2 years ago - 1 comment
Labels: dependencies

#34 - v0.7.0 rc-1

Pull Request - State: closed - Opened by brouillette almost 2 years ago - 1 comment

#33 - Features/service drs version

Pull Request - State: closed - Opened by noctillion about 2 years ago - 2 comments

#32 - Bump mako from 1.1.5 to 1.2.2

Pull Request - State: closed - Opened by dependabot[bot] about 2 years ago - 1 comment
Labels: dependencies

#31 - Qa/v0.5

Pull Request - State: closed - Opened by ppillot about 2 years ago - 2 comments

#30 - Changed service name

Pull Request - State: closed - Opened by SanjeevLakhwani about 2 years ago - 1 comment

#29 - Get file path

Pull Request - State: closed - Opened by ppillot over 2 years ago - 1 comment

#28 - begin public ingest endpoint

Pull Request - State: closed - Opened by brouillette almost 3 years ago

#27 - Add api specs to docs

Pull Request - State: closed - Opened by zxenia about 3 years ago

#26 - Chunked responses + range tweaks

Pull Request - State: closed - Opened by davidlougheed about 3 years ago

#25 - send_file mimetype patch

Pull Request - State: closed - Opened by brouillette about 3 years ago

#24 - Move Dockerfile into repo

Pull Request - State: closed - Opened by daisieh about 3 years ago

#23 - Bump urllib3 from 1.25.11 to 1.26.5

Pull Request - State: closed - Opened by dependabot[bot] over 3 years ago - 1 comment
Labels: dependencies

#22 - GA4GH API compatibility + dependency updates

Pull Request - State: closed - Opened by davidlougheed over 3 years ago

#21 - Bump cryptography from 3.2.1 to 3.3.2

Pull Request - State: closed - Opened by dependabot[bot] over 3 years ago
Labels: dependencies

#20 - Bump cryptography from 2.9.2 to 3.2

Pull Request - State: closed - Opened by dependabot[bot] almost 4 years ago - 1 comment
Labels: dependencies

#19 - Enable CORS support

Issue - State: closed - Opened by fcoralsasso about 4 years ago - 4 comments

#18 - add CORS support

Issue - State: closed - Opened by jimmyhli about 4 years ago

#16 - For now, don't attach Prometheus if CHORD_URL is set

Pull Request - State: closed - Opened by davidlougheed over 4 years ago

#15 - Bump version to 0.2.0

Pull Request - State: closed - Opened by davidlougheed over 4 years ago

#14 - Add option for a deduplicated ingest, fix compliance issues

Pull Request - State: closed - Opened by davidlougheed over 4 years ago

#13 - Miscellaneous refactoring

Pull Request - State: closed - Opened by davidlougheed over 4 years ago

#12 - Added Prometheus lib

Pull Request - State: closed - Opened by fcoralsasso over 4 years ago

#11 - implement python-dotenv - read either from var env or a .env file

Pull Request - State: closed - Opened by afrosimon over 4 years ago

#10 - Minio backend

Pull Request - State: closed - Opened by afrosimon over 4 years ago - 1 comment

#9 - Search and a bit of refactoring

Pull Request - State: closed - Opened by afrosimon over 4 years ago

#8 - Fix miscellaneous issues, Bento ingestion

Pull Request - State: closed - Opened by davidlougheed over 4 years ago - 1 comment

#7 - Properly handle multiple files with the same name

Issue - State: open - Opened by davidlougheed over 4 years ago

#6 - Ingest endpoint

Pull Request - State: closed - Opened by afrosimon over 4 years ago - 1 comment

#5 - Refactor

Pull Request - State: closed - Opened by afrosimon over 4 years ago

#4 - Add a command or hook for checking file integrity

Issue - State: open - Opened by davidlougheed over 4 years ago

#3 - Add Travis integration

Pull Request - State: closed - Opened by davidlougheed over 4 years ago

#2 - Update dependencies, fix chord_lib to 0.1.0

Pull Request - State: closed - Opened by davidlougheed over 4 years ago

#1 - Fix license classifier in setup.py

Pull Request - State: closed - Opened by davidlougheed over 4 years ago