Ecosyste.ms: Issues

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

GitHub / nci-gdc/gdc-dnaseq-cwl issues and pull requests

#104 - fix: decodeuri

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

#103 - Feat/binf 309

Pull Request - State: closed - Opened by czyszCTDS almost 4 years ago

#102 - (feat) initialize detect-secrets

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

#101 - Added url_type flag to bio-client upload

Pull Request - State: open - Opened by bilalbaqar almost 5 years ago - 1 comment

#100 - revert gatk 4.1.2.0 to 4.0.7.0

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

#99 - Feat/input sq header

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

#98 - License/ccbysa4

Pull Request - State: closed - Opened by jeremiahsavage almost 6 years ago

#97 - Feat/bam rg from meta

Pull Request - State: closed - Opened by jeremiahsavage about 6 years ago

#96 - feat(mirna): updated docker for slurm usage

Pull Request - State: closed - Opened by dmiller15 over 6 years ago

#95 - Feat/mirna auto update

Pull Request - State: closed - Opened by dmiller15 over 6 years ago

#94 - feat(mirnaseq): changed quant file naming

Pull Request - State: closed - Opened by dmiller15 over 6 years ago

#93 - BINF-132: mirnaseq automation changes

Pull Request - State: closed - Opened by dmiller15 over 6 years ago

#92 - Feat/calculate contamination

Pull Request - State: closed - Opened by jeremiahsavage over 6 years ago

#91 - add required subworkflows

Pull Request - State: closed - Opened by jeremiahsavage over 6 years ago

#90 - Feat/add fastq cleaner

Pull Request - State: closed - Opened by jeremiahsavage over 6 years ago

#89 - update docker provenance

Pull Request - State: closed - Opened by jeremiahsavage over 6 years ago

#88 - Feat/optional samtools index

Pull Request - State: closed - Opened by jeremiahsavage over 6 years ago

#87 - generic glob to handle any fastq input

Pull Request - State: closed - Opened by jeremiahsavage over 6 years ago

#86 - remove components of PU

Pull Request - State: closed - Opened by jeremiahsavage over 6 years ago

#85 - default kmers to 7

Pull Request - State: closed - Opened by jeremiahsavage over 6 years ago

#84 - proper source for output uuid

Pull Request - State: closed - Opened by jeremiahsavage over 6 years ago

#83 - accept job_creation_uuid

Pull Request - State: closed - Opened by jeremiahsavage over 6 years ago

#82 - remove unused variable

Pull Request - State: closed - Opened by jeremiahsavage over 6 years ago

#81 - syntax: add missing }

Pull Request - State: closed - Opened by jeremiahsavage over 6 years ago

#80 - task_creation_uuid to job_creation_uuid

Pull Request - State: closed - Opened by jeremiahsavage over 6 years ago

#79 - remove dead var

Pull Request - State: closed - Opened by jeremiahsavage over 6 years ago

#78 - Fix/fastq readgroup stats

Pull Request - State: closed - Opened by jeremiahsavage over 6 years ago

#77 - update workflow

Pull Request - State: closed - Opened by jeremiahsavage over 6 years ago

#76 - update workflow

Pull Request - State: closed - Opened by jeremiahsavage over 6 years ago

#75 - update workflow

Pull Request - State: closed - Opened by jeremiahsavage over 6 years ago

#74 - update hs and targeted picard metrics from 8G to 32G

Pull Request - State: closed - Opened by jeremiahsavage over 6 years ago

#73 - Chore/mirna edam format

Pull Request - State: closed - Opened by jeremiahsavage over 6 years ago

#72 - Feat/amplicon

Pull Request - State: closed - Opened by jeremiahsavage over 6 years ago

#71 - Develop

Pull Request - State: closed - Opened by jeremiahsavage almost 7 years ago

#70 - Develop

Pull Request - State: closed - Opened by jeremiahsavage almost 7 years ago

#69 - Develop

Pull Request - State: closed - Opened by jeremiahsavage almost 7 years ago

#68 - load_bam to proper url

Pull Request - State: closed - Opened by jeremiahsavage almost 7 years ago

#67 - resolves OPS-269 removing last references to gdc-api.nci.nih.gov ahea…

Pull Request - State: closed - Opened by rayisbadat almost 7 years ago

#66 - drop usage of curl when remote resources are available over http

Pull Request - State: closed - Opened by mr-c almost 7 years ago - 2 comments

#65 - Update README.md

Pull Request - State: closed - Opened by danbills almost 7 years ago

#64 - Feat/exomes

Pull Request - State: closed - Opened by jeremiahsavage almost 7 years ago

#63 - Feat/bio client

Pull Request - State: closed - Opened by jeremiahsavage almost 7 years ago

#62 - Feat/bqsr

Pull Request - State: closed - Opened by jeremiahsavage almost 7 years ago

#61 - Gdc active submission

Pull Request - State: closed - Opened by jeremiahsavage almost 7 years ago

#60 - Featdev/ga4gh

Pull Request - State: closed - Opened by jeremiahsavage almost 7 years ago

#59 - notes for corner case no RG, default_1.fq

Pull Request - State: closed - Opened by jeremiahsavage almost 7 years ago

#58 - Featdev/unix bwa pattern

Pull Request - State: closed - Opened by jeremiahsavage almost 7 years ago

#57 - Fix/null

Pull Request - State: closed - Opened by jeremiahsavage almost 7 years ago

#56 - output bai with bam

Pull Request - State: closed - Opened by jeremiahsavage over 7 years ago

#53 - Develop

Pull Request - State: closed - Opened by jeremiahsavage almost 8 years ago

#52 - Featdev/coclean modern

Pull Request - State: closed - Opened by jeremiahsavage almost 8 years ago

#51 - Fixed double-column in "arguments" key

Pull Request - State: closed - Opened by StarvingMarvin almost 8 years ago

#49 - Featdev/ga4gh

Pull Request - State: closed - Opened by jeremiahsavage almost 8 years ago

#48 - add ftp_proxy to curl and fix the uuid

Pull Request - State: closed - Opened by jeremiahsavage almost 8 years ago

#47 - init

Pull Request - State: closed - Opened by jeremiahsavage almost 8 years ago

#46 - init

Pull Request - State: closed - Opened by jeremiahsavage almost 8 years ago

#45 - fix transform scatter ports

Pull Request - State: closed - Opened by jeremiahsavage almost 8 years ago

#44 - all in one part 2

Pull Request - State: closed - Opened by jeremiahsavage about 8 years ago

#43 - fix sudo commands to append to /etc/default/docker

Pull Request - State: closed - Opened by jeremiahsavage about 8 years ago

#42 - add docker.com apt key

Pull Request - State: closed - Opened by jeremiahsavage about 8 years ago

#41 - Dev

Pull Request - State: closed - Opened by jeremiahsavage about 8 years ago - 1 comment

#39 - Dev

Pull Request - State: closed - Opened by jeremiahsavage about 8 years ago

#38 - Dev

Pull Request - State: closed - Opened by jeremiahsavage about 8 years ago

#37 - only covers 14.04

Pull Request - State: closed - Opened by jeremiahsavage about 8 years ago

#36 - Dev

Pull Request - State: closed - Opened by jeremiahsavage about 8 years ago

#35 - Dev

Pull Request - State: closed - Opened by jeremiahsavage about 8 years ago

#34 - Dev

Pull Request - State: closed - Opened by jeremiahsavage about 8 years ago

#33 - Dev

Pull Request - State: closed - Opened by jeremiahsavage about 8 years ago

#32 - Dev

Pull Request - State: closed - Opened by jeremiahsavage over 8 years ago

#31 - Feat/dnaseq

Pull Request - State: closed - Opened by jeremiahsavage over 8 years ago

#30 - Feat/dnaseq

Pull Request - State: closed - Opened by jeremiahsavage over 8 years ago

#29 - Feat/dnaseq

Pull Request - State: closed - Opened by jeremiahsavage over 8 years ago

#28 - force cleanup

Pull Request - State: closed - Opened by jeremiahsavage over 8 years ago

#27 - Feat/dnaseq

Pull Request - State: closed - Opened by jeremiahsavage over 8 years ago

#26 - Feat/dnaseq

Pull Request - State: closed - Opened by jeremiahsavage over 8 years ago

#25 - Feat/fastqc workflow

Pull Request - State: closed - Opened by jeremiahsavage over 8 years ago

#24 - Feat/markduplicates

Pull Request - State: closed - Opened by jeremiahsavage over 8 years ago

#23 - Develop

Pull Request - State: closed - Opened by jeremiahsavage over 8 years ago

#22 - Feat/dnaseq legacy

Pull Request - State: closed - Opened by jeremiahsavage over 8 years ago

#21 - Develop

Pull Request - State: closed - Opened by jeremiahsavage over 8 years ago

#20 - Feat/dnaseq etl

Pull Request - State: closed - Opened by jeremiahsavage over 8 years ago

#19 - Develop

Pull Request - State: closed - Opened by jeremiahsavage over 8 years ago

#18 - Feat/dnaseq workflow

Pull Request - State: closed - Opened by jeremiahsavage over 8 years ago

#17 - Feat/rnaseq db

Pull Request - State: closed - Opened by jeremiahsavage almost 9 years ago

#16 - use '==' for sting equality, not '-eq'

Pull Request - State: closed - Opened by jeremiahsavage almost 9 years ago

#15 - reserve 18000 MiB of RAM per job

Pull Request - State: closed - Opened by jeremiahsavage almost 9 years ago

#14 - Feat/more exit exception

Pull Request - State: closed - Opened by jeremiahsavage almost 9 years ago

#13 - Hotfix/derace pip virtualenvwrapper

Pull Request - State: closed - Opened by jeremiahsavage almost 9 years ago

#11 - make a ceph specific bucket

Pull Request - State: closed - Opened by jeremiahsavage almost 9 years ago

#10 - update status table with COMPLETE, then remove cwltool

Pull Request - State: closed - Opened by jeremiahsavage almost 9 years ago

#8 - Improve/variable queue table

Pull Request - State: closed - Opened by jeremiahsavage almost 9 years ago - 1 comment

#7 - Feat/queue status cwl

Pull Request - State: closed - Opened by jeremiahsavage almost 9 years ago

#6 - implement queue_status_update() to do RUNNING, COMPLETE, FAIL

Pull Request - State: closed - Opened by jeremiahsavage almost 9 years ago

#4 - coclean slurm script, and table updates to report complete status

Pull Request - State: closed - Opened by jeremiahsavage about 9 years ago

#3 - Slurm script

Pull Request - State: closed - Opened by jeremiahsavage about 9 years ago

#2 - switch from .idx to .tbi for compressed vcf files

Pull Request - State: closed - Opened by jeremiahsavage about 9 years ago - 1 comment

#1 - fix typo

Pull Request - State: closed - Opened by jeremiahsavage about 9 years ago - 1 comment