Ecosyste.ms: Issues

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

GitHub / mskcc/cmo issues and pull requests

#83 - Create stripepricingtable

Pull Request - State: open - Opened by ztobin92 over 1 year ago

#80 - cmo.util.normalize_vcf crashes on duplicates

Issue - State: closed - Opened by kpjonsson over 6 years ago - 2 comments

#79 - Can specify java version in cmo_index

Pull Request - State: closed - Opened by nikhil about 7 years ago

#79 - Can specify java version in cmo_index

Pull Request - State: closed - Opened by nikhil about 7 years ago

#78 - Index allows you to choose the version of picard

Pull Request - State: closed - Opened by nikhil about 7 years ago

#78 - Index allows you to choose the version of picard

Pull Request - State: closed - Opened by nikhil about 7 years ago

#77 - New Picard and qc fix

Pull Request - State: closed - Opened by nikhil about 7 years ago

#77 - New Picard and qc fix

Pull Request - State: closed - Opened by nikhil about 7 years ago

#76 - Fixed Jenkins testing

Pull Request - State: closed - Opened by nikhil about 7 years ago - 3 comments

#75 - abra bugfix

Pull Request - State: closed - Opened by lordzappo about 7 years ago

#75 - abra bugfix

Pull Request - State: closed - Opened by lordzappo about 7 years ago

#74 - abra 2.12 lazy patch

Pull Request - State: closed - Opened by lordzappo about 7 years ago

#74 - abra 2.12 lazy patch

Pull Request - State: closed - Opened by lordzappo about 7 years ago

#73 - Add ProcessLoopUMIFastq tool

Pull Request - State: closed - Opened by ionox0 about 7 years ago - 2 comments

#73 - Add ProcessLoopUMIFastq tool

Pull Request - State: closed - Opened by ionox0 about 7 years ago - 2 comments

#72 - Add marianas tool

Pull Request - State: closed - Opened by ionox0 about 7 years ago - 1 comment

#72 - Add marianas tool

Pull Request - State: closed - Opened by ionox0 about 7 years ago - 1 comment

#71 - Delly cmo wrapper

Pull Request - State: closed - Opened by nikhil about 7 years ago - 1 comment

#71 - Delly cmo wrapper

Pull Request - State: closed - Opened by nikhil about 7 years ago - 1 comment

#70 - 1.9.1

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

#70 - 1.9.1

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

#69 - 1.9.0

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

#69 - 1.9.0

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

#68 - 1.9.0

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

#68 - 1.9.0

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

#67 - Ij/bwa args fix

Pull Request - State: closed - Opened by ionox0 over 7 years ago - 3 comments

#67 - Ij/bwa args fix

Pull Request - State: closed - Opened by ionox0 over 7 years ago - 3 comments

#66 - cmoqcpdf return success no matter what

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

#66 - cmoqcpdf return success no matter what

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

#65 - Fixed spelling mistake

Pull Request - State: closed - Opened by nikhil over 7 years ago - 1 comment

#65 - Fixed spelling mistake

Pull Request - State: closed - Opened by nikhil over 7 years ago - 1 comment

#64 - cmo qc pdf

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

#64 - cmo qc pdf

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

#63 - Dev

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

#63 - Dev

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

#62 - __init__ . py less crappy

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

#62 - __init__ . py less crappy

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

#61 - dangling /bin/bash commit

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

#61 - dangling /bin/bash commit

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

#60 - fix picard parser, add executable to subprocess.call, increment version

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

#59 - cmo_fillout now gets sample IDs from BAMs instead of MAF

Pull Request - State: closed - Opened by ckandoth over 7 years ago - 2 comments

#59 - cmo_fillout now gets sample IDs from BAMs instead of MAF

Pull Request - State: closed - Opened by ckandoth over 7 years ago - 2 comments

#58 - Retain input MAF columns in portal fillout MAF

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

#58 - Retain input MAF columns in portal fillout MAF

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

#57 - increment version

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

#57 - increment version

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

#56 - cmo_fillout now generates portal-friendly MAFs

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

#56 - cmo_fillout now generates portal-friendly MAFs

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

#55 - Cmo installer

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

#55 - Cmo installer

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

#54 - Abra2

Pull Request - State: closed - Opened by lordzappo over 7 years ago - 1 comment

#54 - Abra2

Pull Request - State: closed - Opened by lordzappo over 7 years ago - 1 comment

#53 - Cmoabra

Pull Request - State: closed - Opened by lordzappo over 7 years ago - 2 comments

#53 - Cmoabra

Pull Request - State: closed - Opened by lordzappo over 7 years ago - 2 comments

#52 - Cmoabra

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

#52 - Cmoabra

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

#51 - Cmoabra

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

#51 - Cmoabra

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

#50 - Cmoabra

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

#50 - Cmoabra

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

#49 - Cmoabra

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

#49 - Cmoabra

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

#48 - Abra2 support

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

#48 - Abra2 support

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

#47 - Fof installation....

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

#46 - Fof

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

#46 - Fof

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

#45 - Facets no fail

Pull Request - State: closed - Opened by lordzappo over 7 years ago - 1 comment

#45 - Facets no fail

Pull Request - State: closed - Opened by lordzappo over 7 years ago - 1 comment

#44 - Cmo qcpdf

Pull Request - State: closed - Opened by lordzappo over 7 years ago - 1 comment

#44 - Cmo qcpdf

Pull Request - State: closed - Opened by lordzappo over 7 years ago - 1 comment

#43 - use proper separator when renaming fastq

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

#43 - use proper separator when renaming fastq

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

#42 - add sample option to cmo_split_reads

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

#42 - add sample option to cmo_split_reads

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

#41 - Add ppflag-fixer to cmo

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

#41 - Add ppflag-fixer to cmo

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

#40 - Added 3 commands for testing and more R fixing

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

#40 - Added 3 commands for testing and more R fixing

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

#39 - REFERENCE_SEQUENCE I BANISH THEE

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

#39 - REFERENCE_SEQUENCE I BANISH THEE

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

#38 - Test update

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

#38 - Test update

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

#37 - add 1.96 version to picard calls in test

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

#37 - add 1.96 version to picard calls in test

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

#36 - cmo_bwa_mem returns incorrect exit code

Issue - State: closed - Opened by hisplan over 7 years ago - 2 comments

#35 - Multiple values for PROGRAM and R requirement handling

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

#35 - Multiple values for PROGRAM and R requirement handling

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

#34 - Made R propagate into picard.py

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

#34 - Made R propagate into picard.py

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

#33 - scratch scratch scratch

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

#33 - scratch scratch scratch

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

#32 - Minor update

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

#32 - Minor update

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

#31 - Minor update

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

#31 - Minor update

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

#30 - Fixes to refalign workflow; add vcf2vcf to setup

Pull Request - State: closed - Opened by ckandoth over 7 years ago - 2 comments

#29 - Added testing for 3 production commands

Pull Request - State: closed - Opened by nikhil over 7 years ago - 8 comments

#29 - Added testing for 3 production commands

Pull Request - State: closed - Opened by nikhil over 7 years ago - 8 comments

#28 - Many RNASeq pipline changes, (SUPPA, MISO, JunctionSeq)

Pull Request - State: closed - Opened by alexpenson over 7 years ago - 10 comments