Ecosyste.ms: Issues
An open API service for providing issue and pull request metadata for open source projects.
GitHub / sys-bio/libOmexMeta issues and pull requests
#148 - need python 3.12 release
Issue -
State: open - Opened by fbergmann about 1 month ago
- 1 comment
#147 - Exemplar demonstration web interface for COMBINE archive annotations
Issue -
State: open - Opened by nickerso over 1 year ago
#146 - Support notes from SBML models
Issue -
State: open - Opened by nickerso over 1 year ago
#145 - Extend supported model formats to include CellML 2.0
Issue -
State: open - Opened by nickerso over 1 year ago
#144 - Merge back to develop
Pull Request -
State: closed - Opened by luciansmith over 1 year ago
#143 - Merge old changes from develop
Pull Request -
State: closed - Opened by luciansmith over 1 year ago
#142 - Add support for python 3.11
Issue -
State: closed - Opened by matthiaskoenig over 1 year ago
- 1 comment
#141 - Update to build for Python 3.10
Pull Request -
State: closed - Opened by luciansmith almost 2 years ago
#140 - Add support for python 3.10
Issue -
State: closed - Opened by bilalshaikh42 about 2 years ago
- 4 comments
#139 - Segmentation fault/Exception error
Issue -
State: open - Opened by luciansmith over 2 years ago
- 2 comments
#138 - Automatically creating `http://omex-library.org/NewOmex.omex` URIs is likely to generate confusion
Issue -
State: open - Opened by jonrkarr almost 3 years ago
#137 - No support for MacOS 10.14
Issue -
State: closed - Opened by matthiaskoenig almost 3 years ago
- 2 comments
#136 - pxOmexMeta hangs on SBML-fbc models
Issue -
State: open - Opened by jonrkarr about 3 years ago
#135 - Align XML version between `RDF.to_file` and `RDF.from_file`
Issue -
State: open - Opened by jonrkarr about 3 years ago
- 2 comments
#134 - Iteration over new Logger data structure crashes with segmentation faults
Issue -
State: open - Opened by jonrkarr about 3 years ago
#133 - Align the error codes printed to log console/files with the attribute names in `eLogLevel`
Issue -
State: open - Opened by jonrkarr about 3 years ago
#132 - Provide ability to temporarily configure the logger
Issue -
State: open - Opened by jonrkarr about 3 years ago
#131 - Develop
Pull Request -
State: closed - Opened by CiaranWelsh about 3 years ago
#130 - Turn Logger into a container for storing issues that can be returned to user
Issue -
State: closed - Opened by CiaranWelsh about 3 years ago
- 2 comments
#129 - Think about exposing lower level interface (LibrdfUri, LibrdfNode, LibrdfStatement) to Python. Maybe best to use Swig?
Issue -
State: open - Opened by CiaranWelsh about 3 years ago
#128 - File Logger not working as expected
Issue -
State: open - Opened by CiaranWelsh about 3 years ago
- 9 comments
#127 - RDF `__eq__` method (`equals_rdf_vs_rdf`) should support non-RDF objects
Issue -
State: open - Opened by jonrkarr about 3 years ago
#126 - add option to unzip in windows ci doxygen install to enable overwrite
Pull Request -
State: closed - Opened by CiaranWelsh about 3 years ago
#125 - Develop
Pull Request -
State: closed - Opened by CiaranWelsh about 3 years ago
#124 - increment version
Pull Request -
State: closed - Opened by CiaranWelsh about 3 years ago
#123 - Develop
Pull Request -
State: closed - Opened by CiaranWelsh about 3 years ago
#122 - bug fix with logging. Returns 1 not 0 so default logger does not take…
Pull Request -
State: closed - Opened by CiaranWelsh about 3 years ago
#121 - Merge logging changes
Pull Request -
State: closed - Opened by CiaranWelsh about 3 years ago
#120 - Merge logging changes
Pull Request -
State: closed - Opened by CiaranWelsh about 3 years ago
#119 - Develop merge master
Pull Request -
State: closed - Opened by CiaranWelsh about 3 years ago
#118 - Fixed releases link
Pull Request -
State: closed - Opened by jonrkarr about 3 years ago
#117 - Merge logging branch into develop
Pull Request -
State: closed - Opened by CiaranWelsh about 3 years ago
#116 - Spec update
Pull Request -
State: closed - Opened by CiaranWelsh about 3 years ago
#115 - Spec update
Pull Request -
State: closed - Opened by CiaranWelsh about 3 years ago
#114 - Add a "Model Level Annotations" section to the documentation
Issue -
State: open - Opened by CiaranWelsh about 3 years ago
#113 - pyomexmeta fails on 1% of SBML files from BioModels
Issue -
State: open - Opened by jonrkarr about 3 years ago
- 5 comments
Labels: resolved-but-awaiting-confirmation
#112 - Changes in spec: 4 of four
Issue -
State: closed - Opened by jhgennari about 3 years ago
- 2 comments
#111 - Changes in spec: 3 of four
Issue -
State: closed - Opened by jhgennari about 3 years ago
- 1 comment
#110 - Changes in spec: 2 of four
Issue -
State: closed - Opened by jhgennari about 3 years ago
- 1 comment
#109 - Changes in spec: 1 of four
Issue -
State: closed - Opened by jhgennari about 3 years ago
- 1 comment
Labels: resolved-but-awaiting-confirmation
#108 - Automate testing of examples to avoid accumulating broken examples
Issue -
State: closed - Opened by jonrkarr about 3 years ago
- 1 comment
#107 - Semantic extraction from SBML fails with segmentation faults for example models
Issue -
State: open - Opened by jonrkarr about 3 years ago
- 4 comments
Labels: resolved-but-awaiting-confirmation
#106 - Some SBML examples have invalid metaids (according to libSBML)
Issue -
State: closed - Opened by jonrkarr about 3 years ago
- 1 comment
#105 - Update example of `to_editor` to current arguments
Issue -
State: closed - Opened by jonrkarr about 3 years ago
- 1 comment
#104 - Provide ability to get error messages for failures with `pyomexmeta.pyomexmeta.Editor.get_xml`
Issue -
State: open - Opened by jonrkarr about 3 years ago
Labels: started
#103 - Provide ability to copy examples in documentation without line numbers
Issue -
State: closed - Opened by jonrkarr about 3 years ago
- 1 comment
#102 - Provide ability to get error messages for failures with `RDF.to_file`
Issue -
State: open - Opened by jonrkarr about 3 years ago
- 7 comments
Labels: started
#101 - Validate that namespace URIs have trailing `#` or `/`
Issue -
State: open - Opened by jonrkarr over 3 years ago
- 2 comments
Labels: started
#100 - Use version suffix with `omexManifest/content@format`
Issue -
State: open - Opened by jonrkarr over 3 years ago
- 2 comments
Labels: need-assistance
#99 - What values are intended to be used for `omexManifest/content@format`?
Issue -
State: open - Opened by jonrkarr over 3 years ago
- 3 comments
Labels: need-assistance
#98 - Suggestion: recommend identifiers.org URIs where possible
Issue -
State: open - Opened by jonrkarr over 3 years ago
- 5 comments
Labels: started
#97 - Dependencies can be minimized by moving test dependencies from `install_requires` to `tests_require`
Issue -
State: closed - Opened by jonrkarr over 3 years ago
#96 - What is the convention for defining namespaces for OMEX library and identifiers?
Issue -
State: open - Opened by jonrkarr over 3 years ago
- 4 comments
Labels: started, need-assistance
#95 - Provide error messages for invalid XML content
Issue -
State: closed - Opened by jonrkarr over 3 years ago
- 3 comments
Labels: started
#94 - Editing invalid XML generates segmentation faults
Issue -
State: open - Opened by jonrkarr over 3 years ago
- 1 comment
#93 - Validate identifier and date objects
Issue -
State: open - Opened by jonrkarr over 3 years ago
- 1 comment
#92 - Queries on invalid imported files generate segmentation faults
Issue -
State: closed - Opened by jonrkarr over 3 years ago
- 1 comment
#91 - Provide option to get `pyomexmeta.RDF.query` as a Python object
Issue -
State: closed - Opened by jonrkarr over 3 years ago
- 2 comments
#90 - Format is missing from `pyomexmeta.RDF.query` example
Issue -
State: closed - Opened by jonrkarr over 3 years ago
- 1 comment
#89 - Provide more obvious way to get the underlying RDF graph than `RDF.query`
Issue -
State: open - Opened by jonrkarr over 3 years ago
- 4 comments
#88 - Why is the created date represented with a tag that indicates its semantic meaning?
Issue -
State: closed - Opened by jonrkarr over 3 years ago
- 2 comments
#87 - IMPORTANT: Provide way to get errors and warnings from parsing RDF files
Issue -
State: closed - Opened by jonrkarr over 3 years ago
- 6 comments
#86 - Date examples need to be in opposite order
Issue -
State: open - Opened by jonrkarr over 3 years ago
#85 - Encode creator/curator into XML
Issue -
State: open - Opened by jonrkarr over 3 years ago
- 4 comments
#84 - Examples indicate extra namespaces
Issue -
State: closed - Opened by jonrkarr over 3 years ago
- 1 comment
#83 - Documentation link is broken
Issue -
State: closed - Opened by jonrkarr over 3 years ago
- 1 comment
#82 - merge v1.2.10
Pull Request -
State: closed - Opened by CiaranWelsh over 3 years ago
#81 - Fix for #78 (part 2, changes now exist in Python as well)
Pull Request -
State: closed - Opened by CiaranWelsh over 3 years ago
#80 - publish v1.2.9
Pull Request -
State: closed - Opened by CiaranWelsh over 3 years ago
#79 - Issue 78 model level annotations metaid
Pull Request -
State: closed - Opened by CiaranWelsh over 3 years ago
#78 - Model level annotations should annotate model element rather than model file
Issue -
State: closed - Opened by nickerso over 3 years ago
- 2 comments
Labels: bug, Priority
#77 - Develop
Pull Request -
State: closed - Opened by CiaranWelsh over 3 years ago
#76 - RDF:Bag problems
Pull Request -
State: closed - Opened by CiaranWelsh over 3 years ago
#75 - Python docs
Pull Request -
State: closed - Opened by CiaranWelsh over 3 years ago
#74 - An an option to the library to allow a user to strip out all annotations from an SBML file.
Issue -
State: closed - Opened by hsauro over 3 years ago
- 2 comments
Labels: enhancement
#73 - rebuld docs
Pull Request -
State: closed - Opened by CiaranWelsh over 3 years ago
#72 - removing supplemental content from source documentation
Pull Request -
State: closed - Opened by nickerso over 3 years ago
- 2 comments
#71 - RDF.from.file -- SBML annotation extraction doesn't always work
Issue -
State: closed - Opened by jhgennari over 3 years ago
- 1 comment
Labels: bug, Priority
#70 - Removing older copies of the application note supplementary notebook
Pull Request -
State: closed - Opened by nickerso over 3 years ago
#69 - Merge version 1.2.7 from develop into master
Pull Request -
State: closed - Opened by CiaranWelsh over 3 years ago
#68 - Add Python version information to install instructions
Issue -
State: closed - Opened by CiaranWelsh over 3 years ago
Labels: documentation
#67 - rdf-bag issue
Pull Request -
State: closed - Opened by CiaranWelsh over 3 years ago
#66 - VCARD for multiple creators not handled correctly
Issue -
State: closed - Opened by jhgennari over 3 years ago
- 3 comments
#65 - pip is unable to find pyomexmeta for Python 3.7
Issue -
State: closed - Opened by jonrkarr over 3 years ago
- 8 comments
#64 - Merge release 1.2.6 into master
Pull Request -
State: closed - Opened by CiaranWelsh over 3 years ago
#63 - add different method for draw. The old one used pygraphviz which was …
Pull Request -
State: closed - Opened by CiaranWelsh over 3 years ago
- 1 comment
#62 - Issue 49 rdf bag
Pull Request -
State: closed - Opened by CiaranWelsh over 3 years ago
#61 - Issue 43: taxon prefix not being used.
Pull Request -
State: closed - Opened by CiaranWelsh over 3 years ago
- 1 comment
#59 - Issue 49 rdf bag
Pull Request -
State: closed - Opened by CiaranWelsh over 3 years ago
#58 - Expose rdf query return results as map (not string) to the user
Issue -
State: closed - Opened by CiaranWelsh over 3 years ago
- 1 comment
Labels: enhancement
#56 - Most methods are missing docstrings
Issue -
State: closed - Opened by hsauro over 3 years ago
- 3 comments
Labels: documentation
#53 - Discussion on local and model uri user interface
Issue -
State: closed - Opened by jhgennari over 3 years ago
- 3 comments
Labels: enhancement, design decision
#52 - Drop support for functions that require openssl and curl
Issue -
State: open - Opened by CiaranWelsh over 3 years ago
- 2 comments
#50 - How to deal with VCard?
Issue -
State: closed - Opened by CiaranWelsh over 3 years ago
- 3 comments
#49 - Dealing with RDF Bag
Issue -
State: closed - Opened by CiaranWelsh over 3 years ago
- 4 comments
#43 - Use prefix for `hasTaxon` in turtle syntax
Issue -
State: open - Opened by aram148 over 3 years ago
- 7 comments
#42 - Create OMEX files from Biomodels rdf files and check them
Issue -
State: open - Opened by hsauro over 3 years ago
- 5 comments
Labels: enhancement
#41 - Add helper method to generate png or pdf of rdf graph
Issue -
State: open - Opened by hsauro over 3 years ago
- 2 comments
#40 - Add helper method to display rdf graph to screen
Issue -
State: closed - Opened by hsauro over 3 years ago
- 1 comment
Labels: enhancement
#37 - Update README.md
Pull Request -
State: closed - Opened by aram148 over 3 years ago