Ecosyste.ms: Issues

An open API service for providing issue and pull request metadata for open source projects.

GitHub / mskcc/ridgeback issues and pull requests

#100 - Setup a chronological database backup

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

#99 - Backport Hotfixes

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

#97 - Add server logging

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

#96 - Skip access jobs when tracking command line status

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

#95 - Release/1.3.0

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

#94 - Add migrtion tests and update migrations

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

#93 - Add migration testing

Issue - State: closed - Opened by nikhil over 4 years ago

#92 - Added missing migration

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

#91 - Version bump

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

#90 - Feature/fix ridgeback job resonse and add task testing

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

#89 - Fail to get LSF job status

Issue - State: closed - Opened by sivkovic over 4 years ago - 1 comment

#88 - Feature/update ridgeback job response

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

#87 - Develop

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

#86 - Feature/update dates

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

#85 - Bump django from 2.2.10 to 2.2.13

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

#84 - Feature/stability fixes

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

#83 - Occasionally fails to parse output_meta from lsf.log

Issue - State: closed - Opened by nikhil over 4 years ago
Labels: bug

#82 - Command line status tool occasionally fails to read stats files

Issue - State: closed - Opened by nikhil over 4 years ago
Labels: bug

#81 - Does not handle case where LSF id no longer exists

Issue - State: closed - Opened by nikhil over 4 years ago
Labels: bug

#80 - LSF status function trying to split None type

Issue - State: closed - Opened by nikhil over 4 years ago
Labels: bug

#79 - Input/Output Templates

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

#78 - Nextflow Orchestrator

Issue - State: open - Opened by sivkovic over 4 years ago
Labels: enhancement

#77 - Remove external swagger validation

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

#76 - Feature/small fixes

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

#75 - Add ridgeback version in the init file

Issue - State: closed - Opened by nikhil over 4 years ago

#74 - Access pipeline working in Ridgeback

Pull Request - State: closed - Opened by aef- almost 5 years ago

#73 - Fix python dependency issues with toil 3.21.0

Issue - State: closed - Opened by nikhil almost 5 years ago - 1 comment

#72 - Feature/update image

Pull Request - State: closed - Opened by nikhil almost 5 years ago

#71 - Update ridgeback_service.def

Pull Request - State: closed - Opened by nikhil almost 5 years ago

#70 - Configurable ALLOWED_HOSTS

Pull Request - State: closed - Opened by sivkovic almost 5 years ago

#69 - Develop

Pull Request - State: closed - Opened by nikhil almost 5 years ago

#68 - Patch delay in tests

Pull Request - State: closed - Opened by sivkovic almost 5 years ago

#67 - Feature/resume and api fixes

Pull Request - State: closed - Opened by nikhil almost 5 years ago

#66 - Feature/resume and api fixes

Pull Request - State: closed - Opened by nikhil almost 5 years ago

#65 - Add travis testing

Issue - State: closed - Opened by nikhil almost 5 years ago - 1 comment

#64 - Update jobsubmitter.py

Pull Request - State: closed - Opened by aef- almost 5 years ago

#63 - Add lsf state UNKOWN to states being checked by Ridgeback

Issue - State: closed - Opened by allanbolipata almost 5 years ago

#62 - Removed 'outputs' from job_outputs_dir

Pull Request - State: closed - Opened by allanbolipata almost 5 years ago

#61 - Updated serializer

Pull Request - State: closed - Opened by nikhil almost 5 years ago

#60 - Added missing migration for removing job output

Pull Request - State: closed - Opened by nikhil almost 5 years ago

#59 - Hotfix/fix status and output dir

Pull Request - State: closed - Opened by nikhil almost 5 years ago

#58 - Hotfix/fix status and output dir

Pull Request - State: closed - Opened by nikhil almost 5 years ago

#57 - Issue with running ACCESS pipeline

Issue - State: closed - Opened by aef- almost 5 years ago - 5 comments
Labels: help wanted

#56 - Fixed variable name after refactor

Pull Request - State: closed - Opened by nikhil almost 5 years ago

#55 - Robustify job submission

Pull Request - State: closed - Opened by nikhil almost 5 years ago

#54 - robustify submit process

Pull Request - State: closed - Opened by nikhil almost 5 years ago - 1 comment

#53 - Feature/improve lsf client

Pull Request - State: closed - Opened by nikhil almost 5 years ago

#52 - Organize ridgeback run metadata

Issue - State: open - Opened by nikhil almost 5 years ago
Labels: enhancement

#51 - Add resume support

Issue - State: closed - Opened by nikhil almost 5 years ago - 1 comment
Labels: enhancement

#50 - Prepend output directory UUID with timestamp

Issue - State: closed - Opened by allanbolipata almost 5 years ago

#49 - Preserve SINGULARITY_CACHEDIR environment

Pull Request - State: closed - Opened by nikhil almost 5 years ago

#48 - Version bump of PythonGit

Pull Request - State: closed - Opened by sivkovic almost 5 years ago

#47 - Robustify toil cleanup

Issue - State: closed - Opened by nikhil almost 5 years ago

#46 - Remove Output dir from Job model

Issue - State: closed - Opened by sivkovic almost 5 years ago

#45 - Consistency between dev instance setup and production deployment methods

Issue - State: open - Opened by stevekm almost 5 years ago - 1 comment

#44 - update Makefile with commands and config to run Singularity instance

Pull Request - State: closed - Opened by stevekm almost 5 years ago - 3 comments

#43 - Toil error on getJobExitCode; may need to refactor logic

Issue - State: closed - Opened by allanbolipata almost 5 years ago - 1 comment
Labels: bug

#42 - Fix dev box

Pull Request - State: closed - Opened by stevekm almost 5 years ago

#41 - Update requirements with versions

Pull Request - State: closed - Opened by aef- almost 5 years ago - 1 comment

#40 - Hotfix/migrations

Pull Request - State: closed - Opened by nikhil almost 5 years ago

#39 - Bump django from 2.2.9 to 2.2.10

Pull Request - State: closed - Opened by dependabot[bot] almost 5 years ago
Labels: dependencies

#38 - Roslin job submitted to Ridgeback gets stuck in 'CREATED' state

Issue - State: closed - Opened by stevekm about 5 years ago - 1 comment

#37 - jobs get stuck on LSF due to `type==X86_64` requirements

Issue - State: closed - Opened by stevekm about 5 years ago - 1 comment

#36 - Develop

Pull Request - State: closed - Opened by nikhil about 5 years ago

#35 - Add configurable queues

Pull Request - State: closed - Opened by nikhil about 5 years ago

#34 - Fixed readme typo

Pull Request - State: closed - Opened by nikhil about 5 years ago

#33 - Develop

Pull Request - State: closed - Opened by nikhil about 5 years ago

#32 - Upgrade Django

Pull Request - State: closed - Opened by nikhil about 5 years ago

#31 - Feature/fix toil lsf args

Pull Request - State: closed - Opened by nikhil about 5 years ago - 1 comment

#30 - Feature/toil cleanup

Pull Request - State: closed - Opened by nikhil about 5 years ago - 1 comment

#28 - write 'bsub' command to file before submitting

Issue - State: closed - Opened by stevekm about 5 years ago - 2 comments

#27 - TOIL_LSF_ARGS not set by ridgeback

Issue - State: closed - Opened by nikhil about 5 years ago - 1 comment

#26 - Fixed typo for DB_PORT

Pull Request - State: closed - Opened by nikhil about 5 years ago

#25 - Dev box

Pull Request - State: closed - Opened by stevekm about 5 years ago - 1 comment

#24 - Feature/toil 3.21

Pull Request - State: closed - Opened by nikhil about 5 years ago

#23 - Add singularity containers

Issue - State: closed - Opened by nikhil about 5 years ago

#22 - Develop

Pull Request - State: closed - Opened by allanbolipata about 5 years ago - 2 comments

#21 - Feature/singularity container

Pull Request - State: closed - Opened by allanbolipata about 5 years ago - 1 comment

#19 - Upgrade Ridgeback CWL executor to toil 3.21.0

Issue - State: closed - Opened by allanbolipata about 5 years ago - 1 comment

#18 - Add Nextflow support

Issue - State: open - Opened by allanbolipata about 5 years ago - 1 comment

#17 - Make RabbitMQ queues configurable

Issue - State: closed - Opened by allanbolipata about 5 years ago - 1 comment

#16 - Add configurable port for DB

Pull Request - State: closed - Opened by sivkovic about 5 years ago

#15 - No external id saved for certain jobs submitted

Issue - State: closed - Opened by allanbolipata about 5 years ago - 2 comments
Labels: bug

#14 - Need way to clear TMP directories

Issue - State: closed - Opened by allanbolipata about 5 years ago - 1 comment

#13 - handle retry fail when submitting to lsf

Pull Request - State: closed - Opened by sivkovic about 5 years ago

#11 - LSF status RUN, but job fails

Issue - State: closed - Opened by allanbolipata about 5 years ago - 1 comment

#10 - Feature/prepare dirs

Pull Request - State: closed - Opened by allanbolipata about 5 years ago

#9 - Fix list jobs when result is empty

Pull Request - State: closed - Opened by sivkovic about 5 years ago

#8 - Feature/add toil params

Pull Request - State: closed - Opened by allanbolipata about 5 years ago

#7 - Feature/toil jobs error handling

Pull Request - State: closed - Opened by sivkovic about 5 years ago

#6 - Add -S 1 to ridgeback env

Issue - State: closed - Opened by allanbolipata about 5 years ago - 2 comments

#5 - Implement toil status feature

Pull Request - State: closed - Opened by nikhil over 5 years ago

#4 - Add Toil Status script to Ridgeback

Issue - State: closed - Opened by allanbolipata over 5 years ago

#3 - Feature/toil submit

Pull Request - State: closed - Opened by sivkovic over 5 years ago

#2 - Connect Ridgeback to Beagle

Issue - State: closed - Opened by allanbolipata over 5 years ago

#1 - `bsub` from Ridgeback; return status

Issue - State: closed - Opened by allanbolipata over 5 years ago