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Why is
```
pickle.loads(pickle.dumps(iJO)) # (1 loops, best of 3: 1.88 s per loop)
```
is slower than
```
json_model = from_json(to_json(iJO)) # (1 loops, best of 3: 380 ms per loop)
```
Could …
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In conjunction with zakandrewking/Escher#62.
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I am trying to make a visualization of a metabolic network using COBRApy and escher (as they suggest in the COBRApy manual). I have an sbml file with all the reactions in my organism.
I already gener…
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When trying to set the reversibility of my reactions I get following error:
reaction.reversibility = True
AttributeError: can't set attribute
My code is listed below. I have a dictionary (Reactions…
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In the latest master, I get this error when loading the RECON1 SBML file from BIGG:
```
---------------------------------------------------------------------------
ValueError …
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The code below shows the error I get when I try to convert a model to irreversible and then revert it back.
``` python
In [76]: model_sbml = cobra.io.read_sbml_model("yeast_7.11_cobra.xml")
In [77]:…
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Hi there,
Lately I've been working with some macromolecules that were used as pools for several species, and that have formulas that look like:
```
C36.90H69.37N1.66O4.50PS
```
As the element count…
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You can recreate this bug easily:
``` python
import cobra
import cobra.io
import cobra.test
m = cobra.io.load_matlab_model(cobra.test.ecoli_mat)
m.genes.get_by_id('b0432').remove_from_model(m)
```
A…
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What is the best way to save a map produced with escher & cobrapy as svg?
When I use `escher.Builder(map_name=map).display_in_browser()` to get the builder with the map, I can save it as svg but ther…
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i'm using visbio to visualize cobrapy results from the e. coli model what works fine thanks!
i'm wondering and i'm just a little confused how to bring it to work with other organisms?
i have created a…