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Hi, not sure what the issue was with parsing the CBN. I've got another script that I ran a few days ago that converts each CBN graph for Hipathia. Maybe that can inspire you. See:
https://github.co…
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I believe this to be a bug with Open Babel Python API
## Environment Information
Open Babel version: 2.4.1
Operating system and version: WSL 17143.1/Ubuntu 14.04.5
Python version 3.4.3
## Exp…
yagzo updated
6 years ago
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Hi @cthoyt
When I try to run `bel-enrichment` from the command line with or without arguments, I get the following error. I presume this is because the latest version of pybel no longer has a `to_…
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### Solution to issue cannot be found in the documentation.
- [X] I checked the documentation.
### Issue
Hi all
In order to run doglycans i have created an environment with the following commands:…
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Hey, just wanted to point out that the documentation for pybel isn't up to date for newer python versions (tried with python 3.8.
https://github.com/openbabel/documentation/blob/master/UseTheLibra…
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I have installed pybel with
`pip3 install git+https://github.com/pybel/pybel.git` and with `pip3 install pybel`
With both installations this error appeared
```
>>> from pybel.resources import wr…
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The latest version of `pybel` breaks indra dependencies in the `BEL to Natural Language` notebook
```python
pybel.get_version()
```
`'0.14.11-dev'`
```python
indra.util.get_version.get_ve…
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This was requested by the Asif and the BI people. They want to be able to get a big group of nodes, especially when they don't know what the actual node names are. Example - all related things to AKT1…
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``` Start 157: pytest_pdbformat
157/160 Test #157: pytest_pdbformat .................***Failed 0.03 sec
Start 158: pybindtest_bindings
158/160 Test #158: pybindtest_bindings .....…
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```
from qcio.models.structure import Structure
structures = Structure.from_smiles("COCO.CC", force_field="MMFF94")
with open("/home/jdep/debug.xyz",'w+') as f:
f.write(structures.to_xyz(…