Ecosyste.ms: Issues

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GitHub / clinical-genomics/loqusdbapi issues and pull requests

#52 - Update setuptools to address package_index vulnerability

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

#50 - Address security issue in setuptools < 70.0

Issue - State: closed - Opened by northwestwitch 7 months ago
Labels: Effort S

#49 - Update issue templates

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

#48 - Fix MT variants query for genome build 38

Pull Request - State: closed - Opened by northwestwitch about 1 year ago - 10 comments

#45 - Fix gunicorn workers booting by modifying Dockerfile to use python bullseye

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

#44 - Docker base image causes gunicorn error

Issue - State: closed - Opened by northwestwitch over 1 year ago - 1 comment
Labels: Bug

#43 - Fix docker release tag naming to make deploying easier

Pull Request - State: closed - Opened by northwestwitch over 1 year ago - 3 comments

#42 - Update loqusdb version to >=2.7.3 in requirements

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

#41 - fuse-overlayfs use a lot of cpu using the latest version of the repo on podman cg-vm1

Issue - State: closed - Opened by northwestwitch over 1 year ago - 5 comments
Labels: Bug

#39 - Fix PyYaml installation error

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

#38 - Deprecated config in `setup.cfg`

Issue - State: closed - Opened by northwestwitch over 1 year ago
Labels: Bug

#37 - Unfreeze loqusdb and pymongo-related dependencies

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

#36 - unfreeze PyMongo

Issue - State: closed - Opened by northwestwitch over 1 year ago

#35 - Add entrypoint for exporting variants in vcf format

Issue - State: open - Opened by mhkc over 2 years ago

#34 - Include sshfs in Docker image

Issue - State: open - Opened by mhkc over 2 years ago

#33 - Fix ports in docker-compose

Pull Request - State: closed - Opened by northwestwitch almost 3 years ago - 1 comment

#31 - Tests

Issue - State: open - Opened by dnil almost 3 years ago
Labels: Effort M, Enhancement, Gain L, Urgency S

#30 - Fix #28 - _id type

Pull Request - State: closed - Opened by dnil almost 3 years ago - 4 comments

#28 - Missing SV frequencies?

Issue - State: closed - Opened by dnil almost 3 years ago - 4 comments
Labels: Bug

#27 - Increase test coverage

Issue - State: open - Opened by northwestwitch about 3 years ago - 1 comment
Labels: Enhancement

#26 - Reintroduce total number of hits in Variant and SV Variant models

Pull Request - State: closed - Opened by northwestwitch about 3 years ago - 2 comments

#25 - Problem retrieving totals with v0.1.4

Issue - State: closed - Opened by dnil about 3 years ago - 2 comments

#24 - another way

Pull Request - State: closed - Opened by mayabrandi about 3 years ago - 1 comment

#23 - Extend API to handle load

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

#22 - Add an endpoint to return loqusdbapi version

Issue - State: open - Opened by northwestwitch about 3 years ago
Labels: Effort S, Enhancement, Gain M

#21 - Fix mongo adapter timeout

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

#20 - Load loqusdb data via api

Issue - State: open - Opened by Mropat about 3 years ago
Labels: on hold

#19 - loqusdbapi calls for SVs failed on scout-stage test?

Issue - State: closed - Opened by dnil over 3 years ago - 2 comments

#18 - fix bump string

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

#17 - Vm ready package

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

#16 - Need export of loquesdb schema

Issue - State: closed - Opened by Mropat over 3 years ago - 2 comments

#15 - Use MongoDB 4.4.9 in docker-compose

Pull Request - State: closed - Opened by northwestwitch over 3 years ago - 1 comment

#13 - Docker image not pushed to Docker Hub on release event

Issue - State: closed - Opened by northwestwitch over 3 years ago - 2 comments
Labels: Bug

#12 - Add a CHANGELOG and prepare release 1.0

Pull Request - State: closed - Opened by northwestwitch over 3 years ago - 1 comment

#11 - Starting using versioning for this repo?

Issue - State: closed - Opened by northwestwitch over 3 years ago
Labels: question

#10 - Push image to Docker Hub prod and stage

Pull Request - State: closed - Opened by northwestwitch over 3 years ago - 9 comments

#9 - Add the image of this repo to Docker hub

Issue - State: closed - Opened by northwestwitch over 3 years ago
Labels: Effort S, Enhancement

#8 - Rename "nr_cases" to "total" in returned variant info

Pull Request - State: closed - Opened by northwestwitch almost 4 years ago - 1 comment

#7 - Provide examples to query for SVs and cases in readme file

Pull Request - State: closed - Opened by northwestwitch about 4 years ago - 6 comments

#6 - How do I send queries to the svs endpoint?

Issue - State: closed - Opened by northwestwitch about 4 years ago - 1 comment
Labels: question

#5 - Endpoint returning number of cases with SNVs and SVs

Pull Request - State: closed - Opened by northwestwitch about 4 years ago - 4 comments

#4 - The app returns an HTTP error when the variant is not found

Issue - State: closed - Opened by northwestwitch about 4 years ago - 10 comments
Labels: question

#3 - Return loqusdb version info from / endpoint

Pull Request - State: closed - Opened by northwestwitch about 4 years ago - 2 comments

#2 - Endpoint that returns loqusdb version?

Issue - State: closed - Opened by northwestwitch about 4 years ago - 3 comments

#1 - Does the API support requests of variants by institute?

Issue - State: closed - Opened by northwestwitch about 4 years ago - 2 comments
Labels: question