rjpbonnal/bioruby-ngs issues and pull requests

#58 - Bump activerecord from 3.2.13 to 6.1.7.1

Pull Request - State: open - Opened by dependabot[bot] over 1 year ago
Labels: dependencies

#57 - Bump git from 1.2.5 to 1.13.0

Pull Request - State: open - Opened by dependabot[bot] over 1 year ago
Labels: dependencies

#56 - Bump nokogiri from 1.5.9 to 1.13.9

Pull Request - State: open - Opened by dependabot[bot] almost 2 years ago
Labels: dependencies

#55 - Bump addressable from 2.3.4 to 2.8.1

Pull Request - State: open - Opened by dependabot[bot] almost 2 years ago
Labels: dependencies

#54 - Bump tzinfo from 0.3.37 to 0.3.61

Pull Request - State: open - Opened by dependabot[bot] about 2 years ago
Labels: dependencies

#53 - Bump activerecord from 3.2.13 to 5.2.8.1

Pull Request - State: closed - Opened by dependabot[bot] about 2 years ago - 1 comment
Labels: dependencies

#52 - Bump nokogiri from 1.5.9 to 1.13.6

Pull Request - State: closed - Opened by dependabot[bot] over 2 years ago - 1 comment
Labels: dependencies

#51 - Bump git from 1.2.5 to 1.11.0

Pull Request - State: closed - Opened by dependabot[bot] over 2 years ago - 1 comment
Labels: dependencies

#50 - Bump nokogiri from 1.5.9 to 1.13.4

Pull Request - State: closed - Opened by dependabot[bot] over 2 years ago - 1 comment
Labels: dependencies

#49 - Bump nokogiri from 1.5.9 to 1.13.3

Pull Request - State: closed - Opened by dependabot[bot] over 2 years ago - 2 comments
Labels: dependencies

#48 - Bump nokogiri from 1.5.9 to 1.12.5

Pull Request - State: closed - Opened by dependabot[bot] about 3 years ago - 1 comment
Labels: dependencies

#47 - Bump rdoc from 4.0.1 to 6.3.2

Pull Request - State: open - Opened by dependabot[bot] about 3 years ago
Labels: dependencies

#46 - Bump addressable from 2.3.4 to 2.8.0

Pull Request - State: closed - Opened by dependabot[bot] about 3 years ago - 1 comment
Labels: dependencies

#45 - Bump nokogiri from 1.5.9 to 1.11.4

Pull Request - State: closed - Opened by dependabot[bot] over 3 years ago - 1 comment
Labels: dependencies

#44 - Bump json from 1.7.7 to 2.3.0

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

#43 - Bump rack from 1.5.2 to 2.2.3

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

#42 - Bump rake from 10.0.4 to 12.3.3

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

#41 - Bump nokogiri from 1.5.9 to 1.10.8

Pull Request - State: closed - Opened by dependabot[bot] over 4 years ago - 1 comment
Labels: dependencies

#40 - Bump rack from 1.5.2 to 2.0.8

Pull Request - State: closed - Opened by dependabot[bot] almost 5 years ago - 1 comment
Labels: dependencies

#39 - Bump nokogiri from 1.5.9 to 1.10.5

Pull Request - State: closed - Opened by dependabot[bot] almost 5 years ago - 1 comment
Labels: dependencies

#38 - Fix typographical error(s)

Pull Request - State: open - Opened by orthographic-pedant almost 9 years ago

#37 - Tophat: fastq.gz and generic paired names

Issue - State: open - Opened by rjpbonnal over 12 years ago

#36 - Shift to Trimmomatic

Issue - State: open - Opened by fstrozzi over 12 years ago - 2 comments
Labels: ToDo

#35 - Keep installed binaries/compiled application when reinstalling

Issue - State: open - Opened by rjpbonnal over 12 years ago

#34 - Create new reference annotation merging different gtf files

Issue - State: open - Opened by valeria11 over 12 years ago
Labels: ToDo, Severe

#33 - ActiveRecord 3.2.5 problems

Issue - State: open - Opened by fstrozzi over 12 years ago
Labels: Severe, Refactor

#32 - support demultiplexing

Issue - State: open - Opened by valeria11 over 12 years ago - 1 comment
Labels: ToDo

#31 - Conventional names for files

Issue - State: open - Opened by rjpbonnal over 12 years ago
Labels: June 5th

#30 - Tasks that do not depend on project:new

Issue - State: open - Opened by rjpbonnal over 12 years ago
Labels: June 5th

#29 - Use gnuplot?

Issue - State: open - Opened by rjpbonnal over 12 years ago - 1 comment
Labels: June 5th

#28 - Create Requirements for README

Issue - State: open - Opened by rjpbonnal over 12 years ago - 1 comment
Labels: June 5th

#27 - Use Markdown for documentation

Issue - State: closed - Opened by rjpbonnal over 12 years ago - 2 comments
Labels: June 5th

#26 - Update README

Issue - State: closed - Opened by rjpbonnal over 12 years ago
Labels: June 5th

#25 - user can install tools after installation

Issue - State: closed - Opened by rjpbonnal over 12 years ago
Labels: June 5th

#24 - field separator

Issue - State: closed - Opened by valeria11 over 12 years ago
Labels: ToDo

#23 - Remove qseq tasks

Issue - State: open - Opened by fstrozzi over 12 years ago - 2 comments
Labels: ToDo

#22 - Support Cufflinks 1.2.0

Issue - State: closed - Opened by rjpbonnal almost 13 years ago

#21 - PKG-CONFIG error in Mac OS X

Issue - State: open - Opened by fstrozzi almost 13 years ago

#20 - Can not execute third party software

Issue - State: closed - Opened by rjpbonnal about 13 years ago

#19 - Support new CASAVA 1.8

Issue - State: open - Opened by rjpbonnal about 13 years ago

#18 - Support BioLinux

Issue - State: closed - Opened by rjpbonnal about 13 years ago - 1 comment

#17 - Minor fix for quality task.

Pull Request - State: closed - Opened by robsyme over 13 years ago - 1 comment

#16 - BioNGS background jobs (EXPERIMENTAL)

Issue - State: closed - Opened by fstrozzi over 13 years ago - 1 comment
Labels: ToDo

#15 - scatter plot for cufflinks quantification values

Pull Request - State: closed - Opened by valeria11 over 13 years ago

#14 - Implementation of Homology and Ontology classes

Pull Request - State: closed - Opened by fstrozzi over 13 years ago

#13 - wrapper parameters or arguments

Issue - State: closed - Opened by rjpbonnal over 13 years ago - 1 comment
Labels: ToDo, Refactor

#12 - Fixed a bug for hash options frozen

Pull Request - State: closed - Opened by fstrozzi over 13 years ago

#11 - Validate directory/project structure before running a task

Issue - State: open - Opened by rjpbonnal over 13 years ago

#10 - Wrapper: add documentation

Issue - State: closed - Opened by rjpbonnal over 13 years ago - 1 comment
Labels: ToDo

#9 - External programs need to find other programs

Issue - State: closed - Opened by rjpbonnal over 13 years ago - 1 comment
Labels: Severe

#8 - Small fixes to wrapper branch

Pull Request - State: closed - Opened by fstrozzi over 13 years ago

#7 - Updated BWA tasks and Utils binary method

Pull Request - State: closed - Opened by fstrozzi over 13 years ago

#6 - Added Sff Extract task and wrapper. Updated RSpecs

Pull Request - State: closed - Opened by fstrozzi over 13 years ago

#5 - Updated Wrapper#thor_task method, added Sff Extract task and specs

Pull Request - State: closed - Opened by fstrozzi over 13 years ago

#4 - Removed Mira code

Pull Request - State: closed - Opened by fstrozzi over 13 years ago

#3 - Support STDOUT

Issue - State: closed - Opened by rjpbonnal over 13 years ago - 1 comment

#2 - History updated and other minor fixes

Pull Request - State: closed - Opened by fstrozzi over 13 years ago

#1 - qseq2fastq

Pull Request - State: closed - Opened by valeria11 over 13 years ago - 1 comment

GitHub / rjpbonnal/bioruby-ngs issues and pull requests