Merge requests · bioinformatics / PanTools

Reduce logging build pangenome

!138 · created Mar 03, 2023 by Robin van Esch develop
- Merged
- Approved
updated Mar 15, 2023
Fix backwards compatibility MSA

!134 · created Feb 16, 2023 by Workum, Dirk-Jan van develop
- Merged
- 5
- Approved
updated Mar 14, 2023
fixing linking of mRNA node from non-standard GFF with functional annotation

!136 · created Feb 23, 2023 by Pardeshi, Lakhansing develop
- Merged
- 3
- Approved
updated Feb 24, 2023
Update conda environments

!135 · created Feb 17, 2023 by Workum, Dirk-Jan van develop
- Merged
- Approved
updated Feb 23, 2023
Fix adding annotations with missing mRNAs 1 of 1 checklist item completed

!132 · created Feb 10, 2023 by Workum, Dirk-Jan van develop
- Merged
- 10
- Approved
updated Feb 21, 2023
Remove last jar files from code base

!131 · created Feb 10, 2023 by Workum, Dirk-Jan van develop
- Merged
- Approved
updated Feb 17, 2023
Fix adding annotations 4 of 4 checklist items completed

!60 · created Aug 10, 2022 by Workum, Dirk-Jan van master
- Merged
- Approved
updated Feb 16, 2023
Fix typos in core_phylogeny that mixed up genes and groups

!130 · created Feb 07, 2023 by Workum, Dirk-Jan van develop
- Merged
- Approved
updated Feb 07, 2023
Change functional database parameter for add_functions 2 of 2 checklist items completed

!129 · created Feb 03, 2023 by Workum, Dirk-Jan van develop
- Merged
- Approved
updated Feb 06, 2023
Replace print statements by log4j logging for SequenceDatabase, SequenceScanner, BoundedLocalSequenceAlignment and LocalSequenceAlignment

!122 · created Jan 25, 2023 by Workum, Dirk-Jan van develop
- Merged
- 5
- Approved
updated Feb 03, 2023
Release PanTools v4.1.1

!126 · created Jan 27, 2023 by Workum, Dirk-Jan van
- Merged
- Approved
updated Jan 30, 2023
Merge v4.1.1 changes to develop

!127 · created Jan 30, 2023 by Workum, Dirk-Jan van develop
updated Jan 30, 2023
Merge v4.1.1 to develop

!125 · created Jan 27, 2023 by Workum, Dirk-Jan van develop
- Merged
- Approved
updated Jan 27, 2023
storing scoring matrices as resource files

!123 · created Jan 26, 2023 by Robin van Esch develop
- Merged
- 8
- Approved
updated Jan 27, 2023
Fix NullPointerException in `remove_grouping`

!124 · created Jan 27, 2023 by Workum, Dirk-Jan van develop
- Merged
- Approved
updated Jan 27, 2023
Add PanTools workflows to read the docs

!120 · created Jan 20, 2023 by Workum, Dirk-Jan van develop
- Merged
- 10
- Approved
updated Jan 27, 2023
Fix functional databases version table in documentation

!121 · created Jan 20, 2023 by Workum, Dirk-Jan van develop
- Merged
- 2
- Approved
updated Jan 24, 2023
Added support and configuration options for log4j2 logging

!85 · created Oct 31, 2022 by Robin van Esch master
- Merged
- 8
- Approved
updated Jan 18, 2023
Fix hardcoded pantools target dir 4 of 4 checklist items completed

!117 · created Jan 09, 2023 by Workum, Dirk-Jan van develop
- Merged
- 32
- Approved
updated Jan 18, 2023
Remove existence of ASTER from .idea folder

!119 · created Jan 13, 2023 by Workum, Dirk-Jan van develop
- Merged
- Approved
updated Jan 18, 2023