Comments (2)
rvhonorato
commented on June 25, 2024
Yes, looks like the pagination changed a bit. I did a quick fix using regular expressions #5 and it should work fine now. Thanks for opening this issue.
from cazy-parser.
lonsbio
commented on June 25, 2024
Thanks! I tried my own patch overnight (not as elegant) and it seemed to work too.
Also, I'm not sure if this is a recent issue or incidental. My DB download file seems to have newlines surrounding the organism field:
domain protein_name family tag organism_code ec genbank uniprot subfamily organism pdb
Ahos_0285 GH1 invalid AEE93176.1
Acidianus hospitalis W1
Fixing it does't seem to effect the extract script, but does make the csv (tsv) file readable. Is the wrapping intentional?
from cazy-parser.
Related Issues (12)
- organizing as a setup.py compatible project for pypi etc HOT 1
- not all members extracted HOT 2
- port to Python 3.x? HOT 4
- AttributeError while parsing HOT 2
- fail on create_cazy_db HOT 3
- Audit url open for permitted schemes. Allowing use of file:/ or custom schemes is often unexpected.
- Errors occurred using pip installation HOT 2
- Tests dependent on hardcoded family size
- Retrieve structures
- Skip fasta fetching if entrez endpoint is not accessible
- Retrieve only the experimentally characterized cazy? HOT 2
Recommend Projects
-
React
A declarative, efficient, and flexible JavaScript library for building user interfaces.
-
Vue.js
🖖 Vue.js is a progressive, incrementally-adoptable JavaScript framework for building UI on the web.
-
Typescript
TypeScript is a superset of JavaScript that compiles to clean JavaScript output.
-
TensorFlow
An Open Source Machine Learning Framework for Everyone
-
Django
The Web framework for perfectionists with deadlines.
-
Laravel
A PHP framework for web artisans
-
D3
Bring data to life with SVG, Canvas and HTML. 📊📈🎉
-
Recommend Topics
-
javascript
JavaScript (JS) is a lightweight interpreted programming language with first-class functions.
-
web
Some thing interesting about web. New door for the world.
-
server
A server is a program made to process requests and deliver data to clients.
-
Machine learning
Machine learning is a way of modeling and interpreting data that allows a piece of software to respond intelligently.
-
Visualization
Some thing interesting about visualization, use data art
-
Game
Some thing interesting about game, make everyone happy.
Recommend Org
-
Facebook
We are working to build community through open source technology. NB: members must have two-factor auth.
-
Microsoft
Open source projects and samples from Microsoft.
-
Google
Google ❤️ Open Source for everyone.
-
Alibaba
Alibaba Open Source for everyone
-
D3
Data-Driven Documents codes.
-
Tencent
China tencent open source team.
from cazy-parser.