Ecosyste.ms: Issues

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

GitHub / biocore/oecophylla issues and pull requests

#166 - Updating tool_params.yml

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

#165 - Update oecophylla-centrifuge.yaml

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

#164 - Added catch to handle common file format

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

#163 - Set snakemake dependency to v4.8.1

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

#162 - updated humann2 install with explicit glpk version

Pull Request - State: closed - Opened by tanaes over 6 years ago - 1 comment

#160 - Shogun version update

Pull Request - State: closed - Opened by tanaes over 6 years ago - 4 comments

#159 - updated envs files for clusters

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

#158 - update envs in cluster_configs

Issue - State: open - Opened by tanaes over 6 years ago

#157 - updated centrifuge conda

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

#156 - updated temp dir specifications in a few rules

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

#155 - sourmash version error

Issue - State: open - Opened by tkosciol over 6 years ago

#155 - sourmash version error

Issue - State: open - Opened by tkosciol over 6 years ago

#154 - taxonomy module won't install

Issue - State: open - Opened by tkosciol over 6 years ago

#154 - taxonomy module won't install

Issue - State: open - Opened by tkosciol over 6 years ago

#153 - Add Anvi'o module

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

#152 - Added binning module

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

#151 - added mapping rule

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

#150 - updated module installs

Pull Request - State: closed - Opened by tanaes almost 7 years ago - 1 comment

#150 - updated module installs

Pull Request - State: closed - Opened by tanaes almost 7 years ago - 1 comment

#149 - updated documentation

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

#148 - typo

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

#148 - typo

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

#147 - removed metaquast from default assembly workflow

Pull Request - State: closed - Opened by tanaes almost 7 years ago - 1 comment

#147 - removed metaquast from default assembly workflow

Pull Request - State: closed - Opened by tanaes almost 7 years ago - 1 comment

#146 - updated kraken install

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

#146 - updated kraken install

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

#145 - Change raw_combine_files to local rule

Issue - State: open - Opened by tanaes almost 7 years ago

#145 - Change raw_combine_files to local rule

Issue - State: open - Opened by tanaes almost 7 years ago

#144 - Documentation improvements

Issue - State: open - Opened by tanaes almost 7 years ago

#144 - Documentation improvements

Issue - State: open - Opened by tanaes almost 7 years ago

#143 - Launch fixes

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

#143 - Launch fixes

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

#142 - Documentation

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

#142 - Documentation

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

#141 - converted documentation to rst to enable readthedocs integration

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

#141 - converted documentation to rst to enable readthedocs integration

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

#140 - cluster_logs must be created manually in profile mode

Issue - State: open - Opened by tanaes almost 7 years ago

#140 - cluster_logs must be created manually in profile mode

Issue - State: open - Opened by tanaes almost 7 years ago

#139 - Merging dev into master

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

#139 - Merging dev into master

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

#137 - Update install

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

#137 - Update install

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

#136 - Combine configs

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

#136 - Combine configs

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

#135 - Fix parse duplicates

Pull Request - State: closed - Opened by tanaes almost 7 years ago - 1 comment

#135 - Fix parse duplicates

Pull Request - State: closed - Opened by tanaes almost 7 years ago - 1 comment

#134 - Improve error message for missing config file

Issue - State: closed - Opened by tanaes almost 7 years ago

#134 - Improve error message for missing config file

Issue - State: closed - Opened by tanaes almost 7 years ago

#132 - "Run QC with Oecophylla" Write-Up

Issue - State: closed - Opened by stephanieorch about 7 years ago

#132 - "Run QC with Oecophylla" Write-Up

Issue - State: closed - Opened by stephanieorch about 7 years ago

#131 - Cleanup log names

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

#131 - Cleanup log names

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

#130 - Added local execution for raw_combine_files

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

#130 - Added local execution for raw_combine_files

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

#129 - Fix parse input

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

#129 - Fix parse input

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

#128 - fixed resource request bug in launch scripts

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

#128 - fixed resource request bug in launch scripts

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

#127 - Comet

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

#127 - Comet

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

#126 - Comet

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

#126 - Comet

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

#125 - fix sourmash typo

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

#125 - fix sourmash typo

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

#124 - updated Centrifuge and others

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

#124 - updated Centrifuge and others

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

#123 - SHOGUN binary file name update

Issue - State: open - Opened by qiyunzhu about 7 years ago

#123 - SHOGUN binary file name update

Issue - State: open - Opened by qiyunzhu about 7 years ago

#122 - detach Bracken from Centrifuge

Issue - State: closed - Opened by qiyunzhu about 7 years ago - 1 comment

#122 - detach Bracken from Centrifuge

Issue - State: closed - Opened by qiyunzhu about 7 years ago - 1 comment

#121 - update Kraken to 1.0

Issue - State: closed - Opened by qiyunzhu about 7 years ago - 1 comment

#121 - update Kraken to 1.0

Issue - State: closed - Opened by qiyunzhu about 7 years ago - 1 comment

#120 - Some small fixes

Pull Request - State: closed - Opened by tanaes about 7 years ago - 4 comments

#120 - Some small fixes

Pull Request - State: closed - Opened by tanaes about 7 years ago - 4 comments

#119 - Fix tests

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

#119 - Fix tests

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

#118 - Metaphlan map

Pull Request - State: closed - Opened by sjanssen2 about 7 years ago - 7 comments

#118 - Metaphlan map

Pull Request - State: closed - Opened by sjanssen2 about 7 years ago - 7 comments

#117 - Barnacle instructions

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

#117 - Barnacle instructions

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

#116 - added SHOGUN functional profiling

Pull Request - State: closed - Opened by qiyunzhu about 7 years ago - 5 comments

#116 - added SHOGUN functional profiling

Pull Request - State: closed - Opened by qiyunzhu about 7 years ago - 5 comments

#115 - updated diamond db version to 8.36

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

#115 - updated diamond db version to 8.36

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

#114 - added back in bowtie test db

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

#114 - added back in bowtie test db

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

#113 - shogun conda environment messes up environment variables

Issue - State: closed - Opened by qiyunzhu about 7 years ago - 1 comment

#113 - shogun conda environment messes up environment variables

Issue - State: closed - Opened by qiyunzhu about 7 years ago - 1 comment

#112 - Updated documentation for new installs and tests

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

#112 - Updated documentation for new installs and tests

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

#111 - Taxonomy fixes

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

#111 - Taxonomy fixes

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

#110 - Improve launch script

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

#110 - Improve launch script

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

#109 - Adding in another skeleton for install within the launch script

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