Ecosyste.ms: Issues

An open API service for providing issue and pull request metadata for open source projects.

GitHub / biosimulators/Biosimulators_test_suite issues and pull requests

#80 - Bump numexpr from 2.8.4 to 2.8.5

Pull Request - State: open - Opened by dependabot[bot] about 2 months ago
Labels: dependencies

#79 - Add smoldyn model

Pull Request - State: open - Opened by CodeByDrescher about 2 months ago

#77 - Bump tornado from 6.3.1 to 6.4.1

Pull Request - State: open - Opened by dependabot[bot] about 2 months ago - 1 comment
Labels: dependencies

#76 - Bump pyyaml from 5.3.1 to 5.4

Pull Request - State: open - Opened by dependabot[bot] about 2 months ago - 1 comment
Labels: dependencies

#75 - Bump certifi from 2022.12.7 to 2024.7.4

Pull Request - State: open - Opened by dependabot[bot] about 2 months ago - 1 comment
Labels: dependencies

#74 - Bump zipp from 3.15.0 to 3.19.1

Pull Request - State: open - Opened by dependabot[bot] about 2 months ago - 1 comment
Labels: dependencies

#73 - Bump urllib3 from 1.26.15 to 1.26.19

Pull Request - State: open - Opened by dependabot[bot] about 2 months ago - 1 comment
Labels: dependencies

#72 - Poetry build

Pull Request - State: closed - Opened by CodeByDrescher about 2 months ago - 1 comment

#71 - For 0.1.88

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

#70 - Fix synthetic changes

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

#68 - Merge latest from dev

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

#67 - Can't update release number for wheel

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

#66 - pass tests

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

#65 - Fixed erroneous "KISAO_000019" references by adding another '0'

Pull Request - State: closed - Opened by CodeByDrescher about 2 years ago - 1 comment

#64 - build large singularity images fails with default settings

Issue - State: open - Opened by moraru about 2 years ago
Labels: bug

#62 - invalid test suite published model template

Issue - State: open - Opened by moraru over 2 years ago
Labels: bug

#61 - Attributes not implemented on windows

Issue - State: open - Opened by danv61 over 2 years ago
Labels: bug

#60 - Update dev deployment of biosimulators along with prod when processing simulator submissions

Issue - State: closed - Opened by bilalshaikh42 almost 3 years ago - 2 comments
Labels: enhancement

#59 - [Bug]: Log validation did not catch recent errors with vcell image

Issue - State: closed - Opened by bilalshaikh42 almost 3 years ago - 3 comments
Labels: bug

#58 - Enable test suite to be run with Singularity rather than Docker images

Issue - State: open - Opened by jonrkarr about 3 years ago
Labels: enhancement

#57 - Add test case for simulation re-start-ability

Issue - State: open - Opened by jonrkarr about 3 years ago
Labels: test cases

#56 - Add more direct tests for model changes

Issue - State: open - Opened by jonrkarr about 3 years ago
Labels: future, test cases

#55 - Wrong warning when running the test suite.

Issue - State: closed - Opened by danv61 about 3 years ago - 1 comment
Labels: bug

#54 - Wrong warning when running the test suite.

Issue - State: closed - Opened by danv61 about 3 years ago - 1 comment
Labels: bug

#52 - Metadata for example COMBINE/OMEX archives

Pull Request - State: closed - Opened by jonrkarr over 3 years ago
Labels: documentation, example archives

#51 - Added metadata information.

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

#50 - Added metadata information.

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

#49 - Added meta data

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

#48 - Added metadata for Szymanska

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

#47 - Update metadata.rdf

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

#46 - Added metadata information

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

#45 - Add option to execute test cases involving similar algorithms

Issue - State: open - Opened by jonrkarr over 3 years ago
Labels: enhancement, test cases

#44 - Move results and vega figures into folders?

Issue - State: closed - Opened by bilalshaikh42 over 3 years ago - 2 comments
Labels: enhancement

#43 - Unpack example COMBINE/OMEX arhives

Issue - State: closed - Opened by jonrkarr over 3 years ago - 1 comment
Labels: enhancement

#41 - Add metadata about examples following OMEX Metadata guidelines

Issue - State: closed - Opened by jonrkarr over 3 years ago - 3 comments
Labels: documentation, example archives

#40 - Add test for resolution of model sources at absolute paths

Issue - State: open - Opened by jonrkarr over 3 years ago
Labels: test cases

#39 - Add test case for random number generator functions (e.g., uniform, normal, poisson)

Issue - State: open - Opened by jonrkarr over 3 years ago
Labels: test cases

#38 - Add test case for aggregate mathematical functions (e.g., min, max, sum)

Issue - State: open - Opened by jonrkarr over 3 years ago
Labels: test cases

#37 - Setup system for managing access to revising specifications of simulators

Issue - State: closed - Opened by jonrkarr over 3 years ago - 1 comment
Labels: enhancement

#36 - Debug posting of results to GitHub issues

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

#35 - Remove Ciliberto discrete example

Issue - State: closed - Opened by jonrkarr over 3 years ago - 1 comment
Labels: bug

#34 - Create additional example Vega visualizations

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

#32 - Split Vilar example into separate files for deterministic and discrete simulation

Issue - State: closed - Opened by jonrkarr over 3 years ago - 1 comment
Labels: example archives

#31 - Check that example logs in documentation are valid

Issue - State: closed - Opened by jonrkarr over 3 years ago - 1 comment
Labels: documentation

#30 - Use JSON schema for logs to check that logs are formatted correctly

Issue - State: open - Opened by jonrkarr over 3 years ago - 1 comment
Labels: test cases

#29 - Fix the broken SED-ML element

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

#28 - Test suite documentation

Issue - State: closed - Opened by gmarupilla over 3 years ago - 2 comments
Labels: question

#25 - Enable test for UniformRange once this is fixed in libSED-ML

Issue - State: closed - Opened by jonrkarr almost 4 years ago - 1 comment
Labels: test cases

#24 - Add tests for changes to non-XML models

Issue - State: open - Opened by jonrkarr almost 4 years ago
Labels: future, test cases

#23 - Increase rigor of tests for model changes

Issue - State: closed - Opened by jonrkarr almost 4 years ago - 1 comment
Labels: test cases

#22 - Add test cases for new features in SED-ML L1V4

Issue - State: open - Opened by jonrkarr almost 4 years ago
Labels: future, test cases

#21 - Add test cases for data descriptions

Issue - State: open - Opened by jonrkarr almost 4 years ago
Labels: future, test cases

#20 - Improve the details of simulator specification errors

Issue - State: closed - Opened by jonrkarr almost 4 years ago - 1 comment
Labels: enhancement

#19 - Add configuration for whether or not to pull (update) Docker image for simulator

Issue - State: closed - Opened by jonrkarr almost 4 years ago - 1 comment
Labels: enhancement

#18 - Convert warnings for unsupported features to skips

Issue - State: closed - Opened by jonrkarr almost 4 years ago - 1 comment
Labels: enhancement

#17 - Incorporate API call to update version of image in UConn cluster

Issue - State: closed - Opened by jonrkarr almost 4 years ago - 8 comments
Labels: enhancement

#16 - Add test cases for external model sources

Issue - State: open - Opened by jonrkarr almost 4 years ago - 2 comments
Labels: future, test cases

#15 - correcting relative model references to begin with a #

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

#14 - Correct relative model references in Villar SBML-core example

Issue - State: closed - Opened by jonrkarr almost 4 years ago - 1 comment
Labels: bug

#12 - Add test case to check that simulators support their curated outputVariablePatterns

Issue - State: open - Opened by jonrkarr almost 4 years ago
Labels: future, test cases

#11 - Add test case to check that simulation predictions match the curated dependent dimensions

Issue - State: closed - Opened by jonrkarr almost 4 years ago - 1 comment
Labels: enhancement

#10 - Export test results to JSON

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

#9 - Add test cases for support of environment variables

Issue - State: open - Opened by jonrkarr almost 4 years ago
Labels: can't do, test cases

#8 - Incorporate tests of support for model languages, numerical accuracy, and reproducibility

Issue - State: open - Opened by jonrkarr almost 4 years ago
Labels: future, test cases

#7 - Use GitHub API to programmatically make new Docker images public

Issue - State: open - Opened by jonrkarr almost 4 years ago
Labels: enhancement, can't do

#6 - Add additional test cases for validating simulators

Issue - State: closed - Opened by jonrkarr almost 4 years ago - 1 comment
Labels: test cases

#5 - Delete `examples/run.py` once existing simulators are passing the test suite

Issue - State: closed - Opened by jonrkarr almost 4 years ago - 1 comment

#4 - Create deploy branch and change workflow in biosimulators repo to use it

Issue - State: closed - Opened by jonrkarr almost 4 years ago - 1 comment

#3 - Add example COMBINE/OMEX archives for FBA models

Issue - State: closed - Opened by jonrkarr almost 4 years ago - 1 comment
Labels: enhancement

#2 - Add example COMBINE/OMEX archives for logical models

Issue - State: closed - Opened by jonrkarr almost 4 years ago - 1 comment
Labels: enhancement

#1 - Make repository private

Issue - State: closed - Opened by bilalshaikh42 over 4 years ago - 6 comments
Labels: question