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I've noticed that when importing a omex archive in pymetadata, that it complains on windows about entries missing in the manifest, even though they are present.
Looking through the code, this is d…
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Hi,
I am using a genome-scale model and it's format is ".omex". Does anyone know how can I properly import the model in Matlab cobratoolbox?
I tried opening the file az a zip and importing the ".xml…
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After fixing issues with the [create_omex](https://github.com/robertvi/SBMLShowcase/blob/2c38d1abe0542196ed51e45f3e1f24b4c73e2e1e/utils/__init__.py#L44) function [#3](https://github.com/robertvi/SBMLS…
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The following links are not found:
http://co.mbine.org/standards/omex
http://co.mbine.org/standards/kisao
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Allow to read all SBML files from a given OMEX file.
Necessary to register an additional file filter for `*.omex` and read the SBML files from the manifest file.
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[Attached](https://github.com/sbmlteam/libCombine/files/6682839/Ciliberto-J-Cell-Biol-2003-morphogenesis-checkpoint.zip) is an OMEX archive with a malformed OMEX meta file (`metadata.rdf`).
How can…
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libOMEXMeta focuses on specific identifier namespaces. One benefit of this is the ability to check that identifiers are valid. It would be helpful for libOMEXMeta to take advantage of this to weed out…
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pyomexmeta declares several namespace prefixes which don't obviously appear to be used in documents.
For example, this
```python
from pyomexmeta import RDF
rdf = RDF()
with open('BIOMD000000007…
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Example (12119723):
- Native: https://github.com/virtualcell/vcdb/blob/main/published/biomodel/omex/native/biomodel_12119723.omex
- SBML: https://github.com/virtualcell/vcdb/blob/main/published/biom…
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Without error, I am able to call:
`docker pull {copasi image str}`
However, when calling:
`docker run {copasi image str} -i {path to omex}
-o {path to output}`
I am greeted with the follo…