Ecosyste.ms: Issues

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

GitHub / projectglow/glow issues and pull requests

#513 - Test recalibration + DBR 9.1 Docker images

Pull Request - State: closed - Opened by a0x8o over 2 years ago - 4 comments

#512 - Docker build.sh script is not current in tagged release

Issue - State: closed - Opened by jebbd over 2 years ago - 1 comment

#510 - move databricks docs to glow docs

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

#509 - Release of Glow v1.2.1

Pull Request - State: closed - Opened by williambrandler over 2 years ago

#507 - Release with spark3.2 support

Issue - State: closed - Opened by bogdang989 over 2 years ago - 1 comment

#506 - Revert "upgrade spark version from 3.1 to 3.2, with shim"

Pull Request - State: closed - Opened by williambrandler over 2 years ago

#505 - Optimize CircleCI Config

Pull Request - State: closed - Opened by dvcastillo over 2 years ago - 3 comments

#504 - fix broken liftOver notebook link in docs

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

#503 - Oss docker

Pull Request - State: closed - Opened by williambrandler over 2 years ago - 2 comments

#502 - add docker architecture to readme

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

#501 - upgrade spark version from 3.1 to 3.2, with shim

Pull Request - State: closed - Opened by jkbradley over 2 years ago - 3 comments

#500 - add plink example to docs

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

#499 - upgrade spark dependency from 3.1 to 3.2

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

#498 - update legacy convenience image

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

#497 - bump log4j version

Pull Request - State: closed - Opened by williambrandler over 2 years ago

#496 - Track dockerhub

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

#495 - update liftOver notebook and add to integration test

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

#494 - Installing and running glow outside of databricks

Issue - State: open - Opened by edg1983 over 2 years ago - 10 comments

#493 - update notebooks for new multitask continuous integration

Pull Request - State: closed - Opened by williambrandler over 2 years ago

#492 - docker container update

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

#491 - Glow integration test with multitask jobs and git repos integration

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

#490 - Supply params to pipe transformer as json - docs example

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

#489 - Add ganglia image / layer deployment to Glow docker

Pull Request - State: closed - Opened by a0x8o over 2 years ago - 1 comment

#488 - Fix for Databricks ES-257648

Pull Request - State: closed - Opened by a0x8o almost 3 years ago - 1 comment

#487 - Fix for ES-257648; Ganglia deployment Docker image / layer

Pull Request - State: closed - Opened by a0x8o almost 3 years ago - 3 comments

#486 - Ganglia

Pull Request - State: closed - Opened by a0x8o almost 3 years ago

#485 - Explain regenie's domain of applicability

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

#484 - Enable ganglia on DCS & resolve Databricks ES-257648

Pull Request - State: closed - Opened by a0x8o almost 3 years ago

#483 - define output_delta in 0_setup_constants_glow.py

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

#482 - Sim1000G installation patch

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

#481 - upgrade spark version from 3.1 to 3.2

Pull Request - State: closed - Opened by JassAbidi almost 3 years ago - 9 comments

#480 - Improve handling of environment variables in the pipe transformer

Issue - State: closed - Opened by Hoeze almost 3 years ago - 5 comments

#479 - VEP exone/intron annotations failure

Issue - State: closed - Opened by PROJECT-DEFIANT almost 3 years ago - 5 comments

#478 - configure sparkSession with glow

Issue - State: closed - Opened by PROJECT-DEFIANT almost 3 years ago - 2 comments

#477 - Notebook continuous integration 01/24/22: simplify genotype simulation notebooks

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

#476 - fix broken links

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

#475 - Support whitespaces for variant datasources

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

#474 - VCF files with spaces in the file name cannot be read

Issue - State: open - Opened by arunbhat almost 3 years ago - 3 comments

#473 - Improve docs: Document usage of schema when reading/writing VCF

Issue - State: closed - Opened by Hoeze almost 3 years ago - 3 comments

#472 - Simplify writing of sharded VCFs

Issue - State: closed - Opened by Hoeze almost 3 years ago - 6 comments

#471 - Minor inconsistencies in score-logistic p-values

Issue - State: closed - Opened by alev000 almost 3 years ago - 4 comments

#470 - notebook continous integration, Jan 06 2022 update

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

#469 - Iss463 quarantine full ds

Pull Request - State: closed - Opened by mah-databricks almost 3 years ago - 2 comments

#468 - Variant delta lake

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

#467 - update hadoop version

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

#466 - reorder dockerfile

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

#465 - Hadoop 3 compatibility

Issue - State: closed - Opened by skhalid7 almost 3 years ago - 9 comments

#464 - v1.1.2 release

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

#463 - quarantine functionality in pipe transformer writes out full dataset

Issue - State: closed - Opened by williambrandler almost 3 years ago - 5 comments

#462 - v1.1.2 release

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

#461 - update pipe transformer docs to include quarantine

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

#460 - Upgrade Spark dependency from 3.1.2 to 3.2.0

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

#459 - Set explicit guidelines when running large jobs

Issue - State: open - Opened by williambrandler almost 3 years ago

#458 - Plink demo

Issue - State: closed - Opened by dberma15 almost 3 years ago - 4 comments

#457 - add bgenix tool to dockerfile

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

#456 - Databricks TypeError: 'JavaPackage' object is not callable

Issue - State: open - Opened by helenxl almost 3 years ago - 11 comments

#455 - update quality control continuous integration notebooks

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

#454 - Upgrade Spark dependency from 3.1.2 to 3.2.0

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

#453 - Performance of split and normalize transformers

Issue - State: open - Opened by Hoeze almost 3 years ago - 6 comments

#452 - update docker container to run on ubuntu 20.04

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

#451 - Glow implementation using Scala

Issue - State: open - Opened by veeteehimself almost 3 years ago - 1 comment

#450 - notebook continuous integration 11/18

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

#449 - Finalize benchmarks for upcoming blog post

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

#448 - Fix notebook paths

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

#446 - add new benchmarking notebooks

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

#445 - Update simulations

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

#444 - add ingest notebook for benchmarks

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

#443 - add comparison of gwas results for hail and glow

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

#442 - fix links

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

#441 - How GLOW exports BGEN phased probability data to VCF

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

#440 - benchmarks integration test notebooks

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

#438 - bump hail version

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

#433 - Contributing guide

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

#431 - Quickstart

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

#425 - Sample Quality Control notebook broken

Issue - State: closed - Opened by dberma15 about 3 years ago - 4 comments

#423 - PySpark 3.2.0 support

Issue - State: open - Opened by Hoeze about 3 years ago - 12 comments

#421 - java.lang.ArrayIndexOutOfBoundsException when writing to vcf

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

#418 - Iss375 observability

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

#405 - Regression on large datasets using spot instances/preemptible VMs

Issue - State: closed - Opened by skhalid7 about 3 years ago - 1 comment

#401 - Phenotypes and Covariates not automatically filtered to match genotype table

Issue - State: open - Opened by williambrandler about 3 years ago
Labels: enhancement

#400 - Huge (15x-150x) performance regression in VCF parsing after release 0.2

Issue - State: closed - Opened by dna0ff over 3 years ago - 13 comments

#399 - GLOW vs REGENIE

Issue - State: closed - Opened by Shicheng-Guo over 3 years ago - 1 comment

#395 - Approx firth does not handle failed fit gracefully

Issue - State: open - Opened by bcajes over 3 years ago
Labels: enhancement

#394 - Integrating glow into pipeline

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

#370 - nested NullType in genotypes produced in Hail interoperability function

Issue - State: closed - Opened by williambrandler over 3 years ago - 6 comments

#368 - How to read tsv?

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

#365 - Update GloWGR documentation to fully reflect GloWGR API changes

Pull Request - State: closed - Opened by kianfar77 over 3 years ago - 5 comments

#360 - PySpark and ndarray

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

#355 - Is GQ re-computed after splitting multi-allelic?

Issue - State: closed - Opened by ConnorBarnhill over 3 years ago - 1 comment

#183 - Simple merge utility

Issue - State: closed - Opened by henrydavidge over 4 years ago - 8 comments
Labels: enhancement

#41 - Support BGEN formatters for pipe

Issue - State: closed - Opened by karenfeng about 5 years ago
Labels: enhancement