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Hi @cthoyt
When you get a chance, the current bel_repository expects `to_web()`, which hasn't been in pybel since `0.14.6`
Sincerely,
Jeremy
```python
~/.pyenv/versions/anaconda3-2019.10…
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- [x] I believe this to be a bug with Open Babel
- [ ] This is a feature request
## Environment Information
Open Babel version: 3.0.0
Operating system and version: CentOS 7
## Expected Be…
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Hi @cthoyt I tried to follow the link in the README:
https://travis-ci.com/cthoyt/pybel-git-test/builds/87612373
but I got the following message:
```
We couldn't display the repository
cthoy…
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When trying to explicitly build a `CoordinateSet` object in Python as follows
```python
import molgrid
from openbabel import pybel
obmol = next(pybel.readfile("sdf", "benzene.sdf"))
obmol.addh(…
RMeli updated
3 years ago
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- [X] I believe this to be a bug with Open Babel
- [ ] This is a feature request
## Environment Information
Open Babel version:
3.1.0
Operating system and version:
Windows 2004
MACOS 11.…
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Dear colleagues,
Recently I'm faced with a disastrous bug when protonating the protein-ligand complex, where the protonated ligand area will become a mess in the protonated complex.
graph =…
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_From @wshayes on July 11, 2017 12:12_
For next version of BEL:
To support methylation http://varnomen.hgvs.org/bg-material/consultation/svd-wg005/
See also pyBEL: http://pybel.readthedocs.io/en/la…
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- [x] I believe this to be a bug with Open Babel
- [ ] This is a feature request
## Environment Information
Open Babel version: ```3.1.0```
Operating system and version: ```Windows 10```
##…
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Since `secretion(X)` auto-expands to `translocation(X, fromLoc(GO:intracellular), toLoc(GO:"extracellular space"))`, there should be another automatic `translocation()` called `absorption(X)` that is …