fbergmann/libSEDML issues and pull requests

#175 - py3.13: not building with pip

Issue - State: open - Opened by sanjayankur31 about 1 month ago - 1 comment

#174 - API Documentation

Issue - State: open - Opened by fbergmann over 1 year ago

#173 - Use latest KiSAO terms.

Pull Request - State: closed - Opened by luciansmith over 1 year ago - 2 comments

#172 - `modelReference` needs to be removed from `AdjustableParameter`

Issue - State: open - Opened by fbergmann about 2 years ago

#171 - Fixes for swig-4.1.0 macro definition correction

Pull Request - State: closed - Opened by jplesnik about 2 years ago

#170 - fix: corrected URN for SBML

Pull Request - State: closed - Opened by jonrkarr about 2 years ago

#169 - All changes to allow SEDML to be used as submodule.

Pull Request - State: closed - Opened by luciansmith over 2 years ago

#168 - All changes to allow SEDML to be used as submodule.

Pull Request - State: closed - Opened by luciansmith over 2 years ago - 1 comment

#167 - Changes to allow libsedml to be used as a submodule.

Pull Request - State: closed - Opened by luciansmith over 2 years ago - 4 comments

#166 - Remove the 'dist' target.

Pull Request - State: closed - Opened by luciansmith over 2 years ago - 5 comments

#165 - The libSEDML python validator doesn't accept empty lists of variables / parameters in SetValue.

Issue - State: closed - Opened by danv61 over 2 years ago - 2 comments

#164 - SedElementFilter: make sure that it gets exported on Windows

Pull Request - State: closed - Opened by agarny over 2 years ago - 1 comment

#163 - Please do not install irrelevant cmake modules

Issue - State: open - Opened by yurivict over 2 years ago - 18 comments

#162 - No CMake config files get generated?

Issue - State: closed - Opened by agarny over 2 years ago - 2 comments

#161 - Undefined symbol libsedml::g_kisaomap?

Issue - State: closed - Opened by agarny over 2 years ago - 3 comments

#160 - Fix for #159: finish commenting out 'secondColor'.

Pull Request - State: closed - Opened by luciansmith almost 3 years ago - 2 comments

#159 - Remove Fill.secondColor which isn't part of SED-ML

Issue - State: closed - Opened by jonrkarr almost 3 years ago - 1 comment

#158 - Can't figure out how to add namespace in python

Issue - State: closed - Opened by luciansmith almost 3 years ago - 2 comments

#157 - Two new features to facilitate l1v4 use.

Pull Request - State: closed - Opened by luciansmith about 3 years ago

#156 - Fix installation with python 3.10+

Pull Request - State: closed - Opened by AMDmi3 about 3 years ago - 1 comment

#155 - libsedml.so should depend on libnuml.so, libsedml-static.a should be built without -fPIC

Issue - State: open - Opened by yurivict about 3 years ago - 1 comment

#154 - SubPlots have positive integer children.

Pull Request - State: closed - Opened by luciansmith about 3 years ago - 1 comment

#153 - Fix for issue https://github.com/fbergmann/libSEDML/issues/152: clear…

Pull Request - State: closed - Opened by luciansmith about 3 years ago

#152 - Setting empty component names clears component ids

Issue - State: closed - Opened by jonrkarr about 3 years ago - 3 comments

#151 - Another catch: 'lin' should be 'linear' for ScaleType.

Pull Request - State: closed - Opened by luciansmith over 3 years ago - 3 comments

#150 - Further fix for https://github.com/SED-ML/sed-ml/issues/187

Pull Request - State: closed - Opened by luciansmith over 3 years ago

#149 - Change taskRef to taskReference

Pull Request - State: closed - Opened by luciansmith over 3 years ago

#148 - sourceRef->sourceReference

Pull Request - State: closed - Opened by luciansmith over 3 years ago

#147 - Drops the DependentVariable class back into just Variable.

Pull Request - State: closed - Opened by luciansmith over 3 years ago

#146 - Remove SimpleRepeatedTask

Pull Request - State: closed - Opened by luciansmith over 3 years ago

#145 - Change RemainingDimension to AppliedDimension.

Pull Request - State: closed - Opened by luciansmith over 3 years ago

#144 - When the KiSAO ID is set, automatically set the corresponding name.

Pull Request - State: closed - Opened by luciansmith over 3 years ago - 5 comments

#143 - Add the new 'Analysis' class.

Pull Request - State: closed - Opened by luciansmith over 3 years ago

#142 - Updates to Deviser XML.

Pull Request - State: closed - Opened by luciansmith over 3 years ago

#141 - Issue 140 dependent variable

Pull Request - State: closed - Opened by fbergmann over 3 years ago

#140 - Can't call DependentVariable functions

Issue - State: closed - Opened by luciansmith over 3 years ago - 4 comments

#139 - New release with latest changes

Issue - State: closed - Opened by matthiaskoenig over 3 years ago - 3 comments

#138 - Question: how can a document be validated on writing?

Issue - State: closed - Opened by jonrkarr over 3 years ago - 5 comments

#137 - Fix for https://github.com/fbergmann/libSEDML/issues/127

Pull Request - State: closed - Opened by luciansmith over 3 years ago - 2 comments

#136 - Fix for https://github.com/fbergmann/libSEDML/issues/128 : add listOf…

Pull Request - State: closed - Opened by luciansmith over 3 years ago - 2 comments

#135 - Add 'concatenate' to RepeatedTask.

Pull Request - State: closed - Opened by luciansmith over 3 years ago - 1 comment

#134 - Fix for https://github.com/fbergmann/libSEDML/issues/126

Pull Request - State: closed - Opened by luciansmith over 3 years ago - 1 comment

#133 - Fix for https://github.com/fbergmann/libSEDML/issues/132

Pull Request - State: closed - Opened by luciansmith over 3 years ago - 1 comment

#132 - Make x-, y- and zDataReference attributes required

Issue - State: closed - Opened by luciansmith over 3 years ago

#131 - Comment out all refs to secondColor.

Pull Request - State: closed - Opened by luciansmith over 3 years ago - 3 comments

#130 - Remove secondColor from Fill

Issue - State: closed - Opened by luciansmith over 3 years ago - 2 comments

#129 - Add optional Boolean attribute `concatenate` on RepeatedTask for L1V4

Issue - State: closed - Opened by matthiaskoenig over 3 years ago - 2 comments

#128 - Add (additional) `ListOfChanges` on Subtask for L1V4

Issue - State: closed - Opened by matthiaskoenig over 3 years ago

#127 - Add Boolean attribute `reverse` on Axis for L1V4

Issue - State: closed - Opened by matthiaskoenig over 3 years ago - 1 comment

#126 - Make `model.language` required for L1V4

Issue - State: closed - Opened by matthiaskoenig over 3 years ago

#125 - Fix for https://github.com/fbergmann/libSEDML/issues/124

Pull Request - State: closed - Opened by luciansmith over 3 years ago - 2 comments

#124 - Add ListOfAlgorithmParameters to document

Issue - State: closed - Opened by luciansmith over 3 years ago

#123 - Fix for issue 122, adding 'symbol' to ComputeChange.

Pull Request - State: closed - Opened by luciansmith over 3 years ago - 2 comments

#122 - Add optional 'symbol' to ComputeChange.

Issue - State: open - Opened by luciansmith over 3 years ago - 1 comment

#121 - Lines and Markers with style attributes should result in parsing error

Issue - State: open - Opened by matthiaskoenig over 3 years ago

#120 - Add get all elements

Pull Request - State: closed - Opened by fbergmann over 3 years ago - 1 comment

#119 - [Info] libsedml 2.0.17+

Issue - State: closed - Opened by sagitter over 3 years ago - 2 comments

#118 - Rename SEDML to SED-ML

Pull Request - State: closed - Opened by luciansmith over 3 years ago - 3 comments

#117 - Fix Issue 96: rename style to type

Pull Request - State: closed - Opened by luciansmith over 3 years ago - 4 comments

#116 - Move all id/name functions to SedBase.cpp

Pull Request - State: closed - Opened by luciansmith over 3 years ago - 2 comments

#115 - `xErrorUpper` on curve should be `xError`

Issue - State: closed - Opened by matthiaskoenig over 3 years ago - 5 comments

#114 - Fix and test sorting.

Pull Request - State: closed - Opened by luciansmith over 3 years ago - 2 comments

#113 - Fix for Issue 112 (sorting)

Pull Request - State: closed - Opened by luciansmith over 3 years ago

#112 - sortOrderedObjects crashes

Issue - State: closed - Opened by luciansmith over 3 years ago

#111 - getListOfAllElements not working

Issue - State: closed - Opened by fbergmann over 3 years ago

#110 - Axis misses name attribute

Issue - State: closed - Opened by matthiaskoenig over 3 years ago - 3 comments

#109 - Don't actually pull this

Pull Request - State: closed - Opened by luciansmith over 3 years ago - 1 comment

#108 - SubPlot misses id attribute (and probably also name)

Issue - State: closed - Opened by matthiaskoenig over 3 years ago - 3 comments

#107 - Test issue 105

Pull Request - State: closed - Opened by fbergmann over 3 years ago - 1 comment

#106 - Fix list of styles downcast and sort

Pull Request - State: closed - Opened by fbergmann over 3 years ago - 1 comment

#105 - dashDotDot not working as linestyle

Issue - State: closed - Opened by matthiaskoenig over 3 years ago - 2 comments

#104 - ListOfStyles is not iterable

Issue - State: closed - Opened by matthiaskoenig over 3 years ago - 2 comments

#103 - libSEDML not writing out XML declarations

Issue - State: closed - Opened by luciansmith over 3 years ago - 3 comments

#102 - - implementation for sorting on ordered elements (by lucian)

Pull Request - State: closed - Opened by fbergmann over 3 years ago - 1 comment

#101 - fix for #93: numberOfPoints is an expected attribute

Pull Request - State: closed - Opened by fbergmann over 3 years ago - 1 comment

#100 - - helper functions wont compile unless there is a setname on base

Pull Request - State: closed - Opened by fbergmann over 3 years ago - 1 comment

#99 - - add line to detail how to build the python bindings

Pull Request - State: closed - Opened by fbergmann over 3 years ago - 1 comment

#98 - - add ci to main branch

Pull Request - State: closed - Opened by fbergmann over 3 years ago

#97 - Document helper functions

Pull Request - State: closed - Opened by fbergmann over 3 years ago - 1 comment

#96 - L1v4: need to implement change: SedLine / SedMarker attribute names were renamed from 'style' to 'type'

Issue - State: closed - Opened by luciansmith over 3 years ago - 5 comments

#95 - SedSubTask should not have methods for getting/setting ids

Issue - State: closed - Opened by jonrkarr almost 4 years ago - 2 comments

#94 - RepeatedTask.getListOfTaskChanges is not named consistently with other getListOf... methods

Issue - State: open - Opened by jonrkarr almost 4 years ago - 4 comments

#93 - Unable to read UniformRange.numberOfPoints for L1V3 documents

Issue - State: closed - Opened by jonrkarr almost 4 years ago - 4 comments

#92 - Nodes of NewXML do not inherit namespaces from parent document

Issue - State: open - Opened by jonrkarr almost 4 years ago - 5 comments

#91 - readSedMLFromFile doesn't properly handle XML text nodes in newXML

Issue - State: open - Opened by jonrkarr almost 4 years ago

#90 - Allow 'numberOfSteps' to be an expected attribute of UniformRange.

Pull Request - State: closed - Opened by luciansmith almost 4 years ago

#89 - getNewXML does not return entire the value or raise an error that it isn't returning the entire value

Issue - State: closed - Opened by jonrkarr almost 4 years ago - 4 comments
Labels: bug

#88 - Allow algorithmParameter.value to be an empty string (meaning null)

Issue - State: open - Opened by jonrkarr almost 4 years ago - 13 comments
Labels: question

#87 - Failed to create native libs for Linux and Windows

Issue - State: closed - Opened by gmarupilla almost 4 years ago - 3 comments

#86 - 'SetValue' no longer has child Parameters

Issue - State: closed - Opened by luciansmith almost 4 years ago - 8 comments

#85 - Missing language between semi colons

Pull Request - State: closed - Opened by gmarupilla about 4 years ago - 1 comment

#84 - Add 'name' to SedBase.

Issue - State: closed - Opened by luciansmith about 4 years ago - 3 comments
Labels: enhancement, help-wanted

GitHub / fbergmann/libSEDML issues and pull requests