Ecosyste.ms: Issues
An open API service for providing issue and pull request metadata for open source projects.
GitHub / SED-ML/KiSAO issues and pull requests
#115 - Create new 'DAE Solver' category; put IDA-like things in it.
Pull Request -
State: closed - Opened by luciansmith 7 months ago
- 1 comment
#114 - Make 407 the root-finding steady state algorithm.
Pull Request -
State: closed - Opened by luciansmith over 1 year ago
#113 - A handful of changes:
Pull Request -
State: closed - Opened by luciansmith over 1 year ago
- 1 comment
#112 - Automatic releases no longer working
Issue -
State: open - Opened by luciansmith over 1 year ago
- 2 comments
Labels: bug
#111 - Update for release
Pull Request -
State: closed - Opened by luciansmith over 1 year ago
#110 - Add two new terms, change organization.
Pull Request -
State: closed - Opened by luciansmith over 1 year ago
- 5 comments
#109 - Request: New base 'simulate in time' algorithm
Issue -
State: closed - Opened by luciansmith about 2 years ago
- 4 comments
Labels: New term
#108 - Fix typo in definition of "biological state optimization method"
Issue -
State: closed - Opened by jonrkarr over 2 years ago
Labels: bug
#107 - feat: added algorithm concepts for MPP
Pull Request -
State: closed - Opened by jonrkarr over 2 years ago
- 6 comments
#106 - Enable query algorithms for recommendations for algorithms to be terms for abstract classes of algorithms (e.g., Gillespie-like rather than SSA)
Issue -
State: open - Opened by jonrkarr over 2 years ago
#105 - feat: Added algorithms and characteristics for attractor methods in mpbn
Pull Request -
State: open - Opened by jonrkarr over 2 years ago
#104 - New terms for mpbn
Issue -
State: open - Opened by pauleve over 2 years ago
- 8 comments
Labels: New term
#103 - Automatic update of KISAO on obo foundry and ontology lookup service (OLS)
Issue -
State: open - Opened by matthiaskoenig almost 3 years ago
- 6 comments
Labels: bug
#102 - Release 2.30 not triggered
Issue -
State: closed - Opened by matthiaskoenig almost 3 years ago
- 3 comments
#101 - SED-ML aggregation functions
Pull Request -
State: closed - Opened by matthiaskoenig almost 3 years ago
#100 - Add terms for terms of UniformTimeCourse
Issue -
State: open - Opened by luciansmith about 3 years ago
- 4 comments
Labels: New term
#99 - labels of systems properties should be lowercase
Issue -
State: closed - Opened by matthiaskoenig about 3 years ago
- 5 comments
Labels: enhancement, convention
#98 - Some KISAO terms fail lookup with `get_normalized_id`
Issue -
State: closed - Opened by matthiaskoenig about 3 years ago
- 3 comments
Labels: bug, irreproducible
#97 - Some KISAO terms do not match KISAO pattern
Issue -
State: closed - Opened by matthiaskoenig about 3 years ago
- 3 comments
Labels: bug
#96 - New terms for uniform time course attributes
Issue -
State: open - Opened by jonrkarr over 3 years ago
#95 - Specify that math functions ignore NaN.
Pull Request -
State: closed - Opened by luciansmith over 3 years ago
- 1 comment
#94 - Clarify math functions as to whether to ignore NaN
Issue -
State: closed - Opened by luciansmith over 3 years ago
- 3 comments
Labels: bug
#93 - SED-ML Aggregation function (New terms for count, stddev, variance)
Issue -
State: closed - Opened by jonrkarr over 3 years ago
- 5 comments
#92 - Lps karr new terms
Pull Request -
State: closed - Opened by jonrkarr over 3 years ago
- 1 comment
#91 - New KiSAO terms from https://docs.google.com/spreadsheets/d/1f3rBUUhO…
Pull Request -
State: closed - Opened by luciansmith over 3 years ago
- 2 comments
#90 - New terms for SED-ML use
Issue -
State: closed - Opened by luciansmith over 3 years ago
- 13 comments
Labels: New term
#88 - Automate release to BioPortal in GitHub action
Issue -
State: closed - Opened by jonrkarr over 3 years ago
- 2 comments
Labels: Other
#87 - Change redirect for biomodels.net from SourceForge to GitHub
Issue -
State: closed - Opened by jonrkarr over 3 years ago
- 1 comment
Labels: Other
#86 - Add terms for slices of dimensions of (in)dependent variables of outputs of simulations
Issue -
State: open - Opened by jonrkarr over 3 years ago
- 2 comments
Labels: New term
#85 - Add terms for (in)dependent variables of outputs of simulations
Issue -
State: closed - Opened by jonrkarr over 3 years ago
- 11 comments
Labels: New term
#84 - New algorithm for GillesPy2 Hybrid Tau-Leaping Method
Issue -
State: closed - Opened by jonrkarr almost 4 years ago
- 2 comments
Labels: Auto-migrated from SourceForge, Algorithm
#83 - Some recently added terms are not visibile in the Ontology Lookup Service
Issue -
State: closed - Opened by jonrkarr almost 4 years ago
- 3 comments
Labels: bug, Auto-migrated from SourceForge, Algorithm, Ontology Lookup Service
#82 - New parameter for species transition probabilities for asynchonrous logical model simulation method
Issue -
State: closed - Opened by jonrkarr almost 4 years ago
- 2 comments
Labels: Auto-migrated from SourceForge, Algorithm
#81 - New algorithm for probabilistic logical model simulation method
Issue -
State: closed - Opened by jonrkarr almost 4 years ago
- 2 comments
Labels: Auto-migrated from SourceForge, Algorithm
#80 - New parameter for noise level
Issue -
State: closed - Opened by jonrkarr almost 4 years ago
- 2 comments
Labels: Auto-migrated from SourceForge, Algorithm
#79 - New parameter for absolute tolerance adjustment factor for CVODE
Issue -
State: closed - Opened by jonrkarr almost 4 years ago
- 2 comments
Labels: Auto-migrated from SourceForge, Algorithm
#78 - New parameter for auto reduce tolerances
Issue -
State: closed - Opened by jonrkarr almost 4 years ago
- 2 comments
Labels: Auto-migrated from SourceForge, Algorithm
#77 - New algorithm for Stochastic second order Runge-Kutta method
Issue -
State: closed - Opened by jonrkarr almost 4 years ago
- 2 comments
Labels: Auto-migrated from SourceForge, Algorithm
#76 - New algorithm for nleq2
Issue -
State: closed - Opened by jonrkarr almost 4 years ago
- 2 comments
Labels: Auto-migrated from SourceForge, Algorithm
#75 - New algorithm for Stochastic differential equation method
Issue -
State: closed - Opened by jonrkarr almost 4 years ago
- 3 comments
Labels: Auto-migrated from SourceForge, Algorithm
#74 - New parameter for force physical correctness
Issue -
State: closed - Opened by jonrkarr almost 4 years ago
- 2 comments
Labels: Auto-migrated from SourceForge, Algorithm
#73 - New parameter for absolute tolerance for root finding
Issue -
State: closed - Opened by jonrkarr almost 4 years ago
- 2 comments
Labels: Auto-migrated from SourceForge, Algorithm parameter
#72 - New algorithm for stochastic Runge-Kutta method
Issue -
State: closed - Opened by jonrkarr almost 4 years ago
- 2 comments
Labels: Auto-migrated from SourceForge, Algorithm
#71 - Pahle hybrid Gibson-Bruck Next Reaction method/RK-45 method
Issue -
State: closed - Opened by jonrkarr almost 4 years ago
- 2 comments
Labels: Auto-migrated from SourceForge, Algorithm
#70 - New algorithm for Pahle hybrid Gibson-Bruck Next Reaction method/LSODA method
Issue -
State: closed - Opened by jonrkarr almost 4 years ago
- 2 comments
Labels: Auto-migrated from SourceForge, Algorithm
#69 - New algorithm for Pahle hybrid Gibson-Bruck Next Reaction method/Runge-Kutta metho
Issue -
State: closed - Opened by jonrkarr almost 4 years ago
- 4 comments
Labels: Auto-migrated from SourceForge, Algorithm
#68 - New algorithm for LSODA or LSODAR
Issue -
State: closed - Opened by jonrkarr almost 4 years ago
- 2 comments
Labels: Auto-migrated from SourceForge, Algorithm
#67 - New parameter for initial step size
Issue -
State: closed - Opened by jonrkarr almost 4 years ago
- 2 comments
Labels: Auto-migrated from SourceForge, Algorithm
#66 - Parameter for relative steady-state tolerance for CVODES
Issue -
State: closed - Opened by jonrkarr almost 4 years ago
- 2 comments
Labels: Auto-migrated from SourceForge, Algorithm
#65 - Parameter for absolute steady-state tolerance for CVODES
Issue -
State: closed - Opened by jonrkarr almost 4 years ago
- 2 comments
Labels: Auto-migrated from SourceForge, Algorithm
#64 - Parameter for relative quadrature tolerance for CVODES
Issue -
State: closed - Opened by jonrkarr almost 4 years ago
- 2 comments
Labels: Auto-migrated from SourceForge, Algorithm
#63 - Parameter for absolute quadrature tolerance for CVODES
Issue -
State: closed - Opened by jonrkarr almost 4 years ago
- 2 comments
Labels: Auto-migrated from SourceForge, Algorithm
#62 - New algorithm for parsimonious FBA (min number of active fluxes)
Issue -
State: closed - Opened by jonrkarr almost 4 years ago
- 2 comments
Labels: Auto-migrated from SourceForge, Algorithm
#61 - New algorithm for quadratic convex optimization
Issue -
State: closed - Opened by jonrkarr almost 4 years ago
- 2 comments
Labels: Auto-migrated from SourceForge, Algorithm
#60 - New algorithm for linear convex optimization
Issue -
State: closed - Opened by jonrkarr almost 4 years ago
- 2 comments
Labels: Auto-migrated from SourceForge, Algorithm
#59 - New parameter for optimization solver
Issue -
State: closed - Opened by jonrkarr almost 4 years ago
- 2 comments
Labels: Auto-migrated from SourceForge, Algorithm
#58 - New parameter for optimization method
Issue -
State: closed - Opened by jonrkarr almost 4 years ago
- 2 comments
Labels: Auto-migrated from SourceForge, Algorithm
#57 - New algorithm for convex optimization
Issue -
State: closed - Opened by jonrkarr almost 4 years ago
- 2 comments
Labels: Auto-migrated from SourceForge, Algorithm
#56 - New algorithm for interior point method
Issue -
State: closed - Opened by jonrkarr almost 4 years ago
- 2 comments
Labels: Auto-migrated from SourceForge, Algorithm
#55 - New algorithm for simplex method
Issue -
State: closed - Opened by jonrkarr almost 4 years ago
- 2 comments
Labels: Auto-migrated from SourceForge, Algorithm
#54 - New parameter for IDAS Error control strategy
Issue -
State: closed - Opened by jonrkarr almost 4 years ago
- 3 comments
Labels: Auto-migrated from SourceForge, Algorithm
#53 - New algorithm for IDAS
Issue -
State: closed - Opened by jonrkarr almost 4 years ago
- 2 comments
Labels: Auto-migrated from SourceForge, Algorithm
#52 - New parameter for CVODES stability limit detection flag
Issue -
State: closed - Opened by jonrkarr almost 4 years ago
- 3 comments
Labels: Auto-migrated from SourceForge, Algorithm
#51 - New parameter for VODE Jacobian
Issue -
State: closed - Opened by jonrkarr almost 4 years ago
- 2 comments
Labels: Auto-migrated from SourceForge, Algorithm
#50 - New parameter for dopri5 beta
Issue -
State: closed - Opened by jonrkarr almost 4 years ago
- 2 comments
Labels: Auto-migrated from SourceForge, Algorithm
#49 - New parameter for dopri5 ifactor
Issue -
State: closed - Opened by jonrkarr almost 4 years ago
- 2 comments
Labels: Auto-migrated from SourceForge, Algorithm
#48 - New parameter for dopri5 dfactor
Issue -
State: closed - Opened by jonrkarr almost 4 years ago
- 3 comments
Labels: Auto-migrated from SourceForge, Algorithm parameter
#47 - New parameter for dopri5 safety
Issue -
State: closed - Opened by jonrkarr almost 4 years ago
- 2 comments
Labels: Auto-migrated from SourceForge, Algorithm
#46 - New algorithm for RK23
Issue -
State: closed - Opened by jonrkarr almost 4 years ago
- 2 comments
Labels: Auto-migrated from SourceForge, Algorithm
#45 - New algorithm for ZVODE
Issue -
State: closed - Opened by jonrkarr almost 4 years ago
- 2 comments
Labels: Auto-migrated from SourceForge, Algorithm
#44 - New algorithm for VODE
Issue -
State: closed - Opened by jonrkarr almost 4 years ago
- 2 comments
Labels: Auto-migrated from SourceForge, Algorithm
#43 - Parameter for reactions
Issue -
State: closed - Opened by jonrkarr about 4 years ago
- 2 comments
Labels: Migrated, sourceforge, Auto-migrated from SourceForge, Algorithm
#42 - Parameter for pFBA factor
Issue -
State: closed - Opened by jonrkarr about 4 years ago
- 2 comments
Labels: Migrated, sourceforge, Auto-migrated from SourceForge, Algorithm
#41 - Parameter for loopless
Issue -
State: closed - Opened by jonrkarr about 4 years ago
- 2 comments
Labels: Migrated, sourceforge, Auto-migrated from SourceForge, Algorithm
#40 - New parameter for fraction of optimum
Issue -
State: closed - Opened by jonrkarr about 4 years ago
- 2 comments
Labels: Migrated, sourceforge, Auto-migrated from SourceForge, Algorithm
#39 - Parameter for number of parallel processes
Issue -
State: closed - Opened by jonrkarr about 4 years ago
- 2 comments
Labels: Migrated, sourceforge, Auto-migrated from SourceForge, Algorithm
#38 - Algorithm for geometric FBA
Issue -
State: closed - Opened by jonrkarr about 4 years ago
- 2 comments
Labels: Migrated, sourceforge, Auto-migrated from SourceForge, Algorithm
#37 - New algorithm for parsimonious FBA
Issue -
State: closed - Opened by jonrkarr about 4 years ago
- 3 comments
Labels: Migrated, sourceforge, Auto-migrated from SourceForge, Algorithm
#36 - New algorithm for flux variability analysis
Issue -
State: closed - Opened by jonrkarr about 4 years ago
- 2 comments
Labels: Migrated, sourceforge, Auto-migrated from SourceForge, Algorithm
#35 - New parameter for stop condition
Issue -
State: closed - Opened by jonrkarr over 4 years ago
- 2 comments
Labels: Migrated, sourceforge, Auto-migrated from SourceForge, Algorithm
#34 - New term for partitioned leaping
Issue -
State: closed - Opened by jonrkarr over 4 years ago
- 2 comments
Labels: Migrated, sourceforge, Auto-migrated from SourceForge, Algorithm
#33 - Add a KiSAO term for "combined solvers"
Issue -
State: closed - Opened by jonrkarr over 4 years ago
- 3 comments
Labels: Migrated, sourceforge, Auto-migrated from SourceForge, Algorithm
#32 - KISAO terms for parameter estimation / optimization
Issue -
State: closed - Opened by jonrkarr over 5 years ago
- 2 comments
Labels: Migrated, sourceforge, Auto-migrated from SourceForge, Algorithm
#31 - KISAO terms for DFBA
Issue -
State: closed - Opened by jonrkarr about 7 years ago
- 4 comments
Labels: Migrated, sourceforge, Auto-migrated from SourceForge, Algorithm
#30 - Number of Runs
Issue -
State: closed - Opened by jonrkarr about 7 years ago
- 2 comments
Labels: Migrated, sourceforge, Auto-migrated from SourceForge, Algorithm parameter
#29 - KLU solver
Issue -
State: closed - Opened by jonrkarr over 7 years ago
- 2 comments
Labels: Migrated, sourceforge, Auto-migrated from SourceForge, Algorithm, linear solver
#28 - Typo (mine): 'dampening' -> 'damping'
Issue -
State: closed - Opened by jonrkarr over 8 years ago
- 3 comments
Labels: Migrated, sourceforge, Auto-migrated from SourceForge, Algorithm
#27 - Term request: random asynchronous updating policy
Issue -
State: closed - Opened by jonrkarr over 8 years ago
- 2 comments
Labels: Migrated, sourceforge, Auto-migrated from SourceForge, Algorithm characteristic
#26 - Term request: fully asynchronous updating policy
Issue -
State: closed - Opened by jonrkarr over 8 years ago
- 2 comments
Labels: Migrated, sourceforge, Auto-migrated from SourceForge, Algorithm characteristic
#25 - Term request: synchronous updating policy
Issue -
State: closed - Opened by jonrkarr over 8 years ago
- 3 comments
Labels: Migrated, sourceforge, Auto-migrated from SourceForge, Algorithm characteristic
#23 - Remove “asynchronous logical model simulation method” (kisao:KISAO_0000450) and “synchronous logical model simulation method” (kisao:KISAO_0000449)
Issue -
State: closed - Opened by jonrkarr over 8 years ago
- 7 comments
Labels: Migrated, sourceforge, Auto-migrated from SourceForge, Algorithm
#16 - New term request: maximum iterations
Issue -
State: closed - Opened by jonrkarr over 8 years ago
- 3 comments
Labels: Migrated, sourceforge, Auto-migrated from SourceForge, Algorithm parameter
#15 - New term request: minimum time step
Issue -
State: closed - Opened by jonrkarr over 8 years ago
- 2 comments
Labels: Migrated, sourceforge, Auto-migrated from SourceForge, Algorithm parameter
#14 - New term request: maximum order
Issue -
State: closed - Opened by jonrkarr over 8 years ago
- 3 comments
Labels: Migrated, sourceforge, Auto-migrated from SourceForge, Algorithm parameter
#13 - Tree viewer for KiSAO?
Issue -
State: closed - Opened by jonrkarr almost 9 years ago
- 3 comments
Labels: Migrated, sourceforge, Auto-migrated from SourceForge, Other
#11 - maximum step size
Issue -
State: closed - Opened by jonrkarr over 9 years ago
- 1 comment
Labels: Migrated, sourceforge, Auto-migrated from SourceForge, Algorithm
#10 - Maximal Timestep Method
Issue -
State: closed - Opened by jonrkarr over 9 years ago
- 1 comment
Labels: Migrated, sourceforge, Auto-migrated from SourceForge, Algorithm
#9 - add "bayesian inference algorithm"
Issue -
State: closed - Opened by jonrkarr over 9 years ago
- 2 comments
Labels: Migrated, sourceforge, Auto-migrated from SourceForge, Algorithm, bayesian inference algorithm
#8 - add "global optimization algorithm"
Issue -
State: closed - Opened by jonrkarr over 9 years ago
- 3 comments
Labels: Migrated, sourceforge, Auto-migrated from SourceForge, Algorithm, global optimization algorithm
#7 - add "local optimization algorithm"
Issue -
State: closed - Opened by jonrkarr over 9 years ago
- 2 comments
Labels: Migrated, sourceforge, Auto-migrated from SourceForge, Algorithm, local optimization algorithm