draeger-lab ModelPolisher issues

draeger-lab / ModelPolisher

ModelPolisher accesses the BiGG Models knowledgebase to annotate SBML models.

23 stars 7 forks source link

issues

Newest

Newest Most commented Recently updated Oldest Least commented Least recently updated

Changing Travis, Gradle and Docker config to use Docker Hub images where possible

#75 mephenor closed 5 years ago
0
Feature to produce CombineArchive, update Travis.

#74 codekaust closed 5 years ago
1
fix #71

#73 codekaust closed 5 years ago
2
Changed Travis configuration to run dockerized ModelPolisher

#72 mephenor closed 5 years ago
0
Production of output fails if `output` location is given as file and file not present.

#71 codekaust closed 5 years ago
2
update readme, minor updates in Message.xml, fix #66, fix #64

#70 codekaust closed 5 years ago
0
Produce glossary only when BiGG Annotations added.

#69 codekaust closed 5 years ago
1
Adapt Travis configuration to recent changes

#68 mephenor closed 5 years ago
2
Remove SQLite version

#67 mephenor closed 5 years ago
4
Add documentation of all command line arguments in README

#66 matthiaskoenig closed 5 years ago
0
Feature to produce COMBINE Archives.

#65 codekaust closed 5 years ago
3
Add Table of Contents in README.

#64 codekaust closed 5 years ago
1
Reformatting

#63 codekaust closed 5 years ago
0
Produce a single COMBINE archive containing the annotated model and glossary.

#62 codekaust closed 5 years ago
1
Fix #60

#61 codekaust closed 5 years ago
0
Produce glossary from annotated models.

#60 codekaust closed 5 years ago
0
Integrate ADB and containerized project.

#59 codekaust closed 5 years ago
1
Integration of ADB in ModelPolisher.

#58 codekaust closed 5 years ago
0
Separate instructions for developers and users for running and building ModelPolisher.

#57 codekaust closed 5 years ago
0
ModelPolisher cannot find any relations in ADB.

#56 codekaust closed 5 years ago
10
Update default parameters for running ModelPolisher.

#55 codekaust closed 5 years ago
0
Check if species is BiGG Metabolite, reaction is BiGG Reaction before getting ADB annotations

#54 codekaust closed 5 years ago
0
Use AnnotateDB to annotate species and reactions.

#53 codekaust closed 5 years ago
0
gradle build fails

#52 matthiaskoenig closed 5 years ago
5
GSoC 2019 Coding Phase 1

#51 codekaust closed 5 years ago
0
Containerise ModelPolisher

#50 codekaust closed 5 years ago
2
Restructure ModelPolisher.

#49 codekaust closed 5 years ago
1
Remove instruction to use Java8 from README.md

#48 codekaust closed 5 years ago
1
Remove objective if SBML has an objective, but no listOfFluxObjectives.

#47 codekaust closed 2 years ago
7
Update matlab parser, fix #37

#46 codekaust closed 5 years ago
0
Adds compatibility with openjdk-11.

#45 codekaust closed 5 years ago
0
Adds feature of annotation of to annotate species, reactions, genes which do not have BiGG Id.

#44 codekaust closed 5 years ago
0
Update README.md

#43 codekaust closed 5 years ago
0
Fix issue #40

#42 codekaust closed 5 years ago
0
Extend ModelPolisher's annotation capabilities for geneProducts not having BiGGIds.

#41 codekaust closed 5 years ago
0
lightJar, bareJar fetches bigg.zip

#40 codekaust closed 5 years ago
0
Extend ModelPolisher's annotation capabilities for species and reactions not having BiGGIds but links to other databases' identifiers.

#39 codekaust closed 5 years ago
0
Containerisation of ModelPolisher using Docker.

#38 codekaust closed 5 years ago
0
Update or deprecate matlab parser

#37 matthiaskoenig closed 5 years ago
6
Error in building : setupDB FAILED

#36 codekaust closed 5 years ago
3
Solves issue #34 and #36

#35 codekaust closed 5 years ago
1
Update ModelPolisher compatibility with openjdk-11

#34 codekaust closed 5 years ago
3
small fixes and clarifications in docs

#33 matthiaskoenig closed 5 years ago
0
Add detailed example with steps showing ModelPolisher at work.

#32 codekaust closed 5 years ago
4
Improve documentation on built instructions

#31 draeger closed 5 years ago
2
Refactoring

#30 mephenor closed 5 years ago
0
Improve integration with Travis using an environment variable

#29 draeger closed 4 years ago
2
incorrect id - geneProduct correspondence

#28 silviamorins closed 4 years ago
4
COBRAparser and JSONparser failing on current bigg_models

#27 mephenor closed 2 years ago
12
Subsystem information missing

#26 draeger closed 6 years ago
1

Previous Next