sys-bio/roadrunner

Issues

• Onestep simulations result in CVODE Error: CV_CONV_FAILURE

  #1232 opened 6 months ago by matthiaskoenig
  2

• Memory can't be released when using the auto.execute()

  #1231 opened 6 months ago by ZiyiiiLiu
  11

• M1 issue with steadystate

  #1226 opened 7 months ago by luciansmith
  4

• Running into memory issues when simulating many models with with different initial conditions

  #1225 opened 7 months ago by dalbabur
  9

• Not possible to create many roadrunner instances

  #1222 opened 8 months ago by matthiaskoenig
  1

• libroadrunner 2.7.0 python package not available for Mac OS with 22.5.0 Darwin Kernel

  #1220 opened 8 months ago by matthiaskoenig
  4

• Latest version 2.4.0 not available for Mac M1, python 3.10 on pypi

  #1147 opened 8 months ago by matthiaskoenig
  10

• Saving and loading state does not work across python interpreter sessions

  #1210 opened 8 months ago by matthiaskoenig
  4

• Update sundials to version 7.0

  #1216 opened 9 months ago by matthiaskoenig
  0

• Simulations with negative start times handle math with csymbol `time` incorrectly

  #1211 opened 9 months ago by matthiaskoenig
  3

• Not possible to set seed for deterministic distrib model

  #1173 opened a year ago by matthiaskoenig
  14

• addX functions not wrapped well in Python

  #1205 opened 10 months ago by luciansmith
  0

• Fix doc building so python-only functions make it to the docs

  #1197 opened 10 months ago by luciansmith
  0

• removeInitialAssignment results in many variables changing

  #1195 opened 10 months ago by dalbabur
  3

• Changing initial values should change SBML export

  #1193 opened 10 months ago by luciansmith
  0

• Missing initial assignments after loading model

  #1189 opened 10 months ago by dalbabur
  8

• Support python 3.12

  #1171 opened a year ago by matthiaskoenig
  8

• Segmentation Fault error when running in cluster

  #1183 opened a year ago by dalbabur
  2

• No doc string for setValues method

  #1172 opened a year ago by hsauro
  1

• Turning on and off conservedMoietyAnalysis doesn't reset total mass.

  #1146 opened a year ago by luciansmith
  5

• Julia bindings for libroadrunner 2.5.0

  #1179 opened a year ago by matthiaskoenig
  15

• How to access species values as defined via the hasOnlySubstanceUnit flag (amount/concentration)?

  #1090 opened a year ago by matthiaskoenig
  2

• Broken Intel Mac wheels

  #1177 opened a year ago by FFroehlich
  6

• libroadrunner 2.5.0 not available for python 3.9

  #1174 opened a year ago by matthiaskoenig
  1

• Update for Compatibility with MacOS 12.6.8 (Intel) and Python 3.11.5

  #1167 opened a year ago by AlexanderSimWS
  1

• Calculating steady state changes the selection vector

  #1148 opened a year ago by luciansmith
  0

• Numpy exception PyDataMem_UserFREE when using pd.melt with simulation results.

  #1073 opened a year ago by kaisengit
  6

• Flux control coefficients that are zero calculated as near-zero

  #1150 opened a year ago by luciansmith
  2

• Setting a init value overwrites parameter changes

  #1078 opened a year ago by matthiaskoenig
  5

• Clearer error message when trying to read non-SBML file

  #1048 opened a year ago by luciansmith
  0

• getValue('time') returns 0

  #1142 opened a year ago by luciansmith
  1

• Different trajectories for equivalent models using gillespie integrator

  #1135 opened a year ago by leon9812
  2

• removeInitialAssignment; removeRule shouldn't remove variable as well

  #1136 opened a year ago by luciansmith
  0

• Allow setting "init(k1)" when k1 has an initial assignment.

  #1137 opened a year ago by luciansmith
  0

• r.getCurrentSBML() should set all values to current values, including those with initial assignments.

  #1138 opened a year ago by luciansmith
  0

• order of metabolites in stoichiometric matrix not consistent depending on where it is run

  #1143 opened a year ago by janisshin
  5

• Add macos arm-64 to azure build

  #1141 opened a year ago by luciansmith
  0

• Expat Error while trying to install roadrunner from Source

  #1140 opened a year ago by Jan-Piotraschke
  4

• Problem compiling roadrunner C++ version

  #1133 opened 2 years ago by matthiaskoenig
  4

• Allow calculation of fluxes even when there are initial assignments

  #1132 opened 2 years ago by luciansmith
  0

• Support LLVM large code model

  #1091 opened 2 years ago by matthiaskoenig
  11

• Building newer version in C++

  #1099 opened 2 years ago by steffenger
  2

• building and linking in C++

  #1054 opened 2 years ago by steffenger
  1

• Inconsistent results with varying number of points in `Roadrunner.simulate`.

  #1092 opened 2 years ago by ahalev
  26

• Investigate potential memory leaks

  #1095 opened 2 years ago by luciansmith
  0

• Loading models failing in python>=3.8 on Mac M1

  #1052 opened 2 years ago by ahalev
  3

• Roadrunner allows L2 events to fire at t0.

  #1074 opened 2 years ago by eltix
  6

• Support python 3.11

  #1064 opened 2 years ago by matthiaskoenig
  7

• Importing rrplugins results in an error

  #1056 opened 2 years ago by kirichoi
  0

• Anaconda x86 distro on Mac M1: numpy.core.multiarray failed to import

  #1053 opened 2 years ago by rheiland
  3