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Implement parsing of different formats #44

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famosab opened this issue Nov 3, 2022 · 1 comment
Open
1 of 2 tasks

Implement parsing of different formats #44

famosab opened this issue Nov 3, 2022 · 1 comment
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enhancement New feature or request
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New functions tow...

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@famosab
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famosab commented Nov 3, 2022 •
edited by GwennyGit

So far only .xml can be used with refineGEMs. Other fileformats are also being used like .yml. It might be of interest to enable other formats or even an automated choice of parser so that a user can simply plug-and-play.

  • Add functionality with cobraPy
  • Add functionality with libSBML
@famosab famosab added the enhancement New feature or request label Nov 3, 2022
@famosab famosab mentioned this issue Feb 9, 2023
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@GwennyGit GwennyGit mentioned this issue Oct 27, 2023
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@cb-Hades
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cb-Hades commented Feb 6, 2024 •
edited

load_model_cobra in io.py can now read in any format that is readable by COBRApy #99
-> model is read in based on the file extension

cb-Hades added a commit that referenced this issue Feb 8, 2024
@cb-Hades
developement update
18e6229 
- added ideas and possible new code for io #85, #44 and investigate to CB_under_construction
- bit of restructering in io and investigate
- bit of Specimen integration in new code block CB_under_construction #99
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