-
```
Describe the requested feature?
At present, math expressions are evaluated to a number before a NET file is
generated. With this new "feature" the math expression would be written to the
NET fil…
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Gene names are parsed in from BELscript/RDF using whatever case they have, which leads to different rules having, e.g., "Braf" and others "BRAF". When converted into PySB, these lead to different mono…
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Hi,
I'm trying to export the model given on the first page of the tutorial (http://pysb.readthedocs.org/en/latest/tutorial.html), which goes like that:
```
def catalyze(enz, sub, site, state1, state…
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Hi,
I'm playing with rewriting a model from Kappa/BNGL to PySB. It is a version of MAPK cascade, used in one of the Kappa language tutorials by Russ Hammer. My problem is that I cannot find a syntax e…
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README.rst says it should be there.
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The is_equivalent_to doesn't include defined compartment as part of the comparison.
This patch will not work properly until the as_complex_pattern patch is put in place (Issue #76). I needed this mod…
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This is a serious bug with an easy fix. Patch is here: https://github.com/spgarbet/pysb/commit/da793ab416f422d2d0f8eca1ee3503e7e6b3f01f
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Comment from Howard Salis:
1. For creating Observables, there was a very subtle difference between the correct:
Observable('P1_', P1())
and the incorrect
Observable('mRNA_free1'…
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As reported by a qbio tutorial session attendee, via @clopezx:
![errorpython](https://f.cloud.github.com/assets/277154/948899/368ed01a-0372-11e3-8c87-b2590bb90e87.png)
The user was running Ubuntu an…
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From the RTD build log:
```
Traceback (most recent call last):
File "/home/docs/checkouts/readthedocs.org/user_builds/pysb/envs/latest/local/lib/python2.7/site-packages/sphinx/ext/autodoc.py", line…