Comments (2)
adityabandla
commented on August 22, 2024
1
Hi Gavin
I think it was just the name of the file that was causing the issue. I was following the tutorial and perhaps didn't have the latest version of PICRUST2
run_minpath.py worked
from picrust2.
gavinmdouglas
commented on August 22, 2024
There are tests that check whether pathway_pipeline.py can be run in the pytest so the pytests shouldn't have completed successfully. Did you run pytest after downloading the source code? Running pytest wont do anything unless you run it on the test scripts that are in the github repo.
Is it possible that you already had an earlier version of PICRUSt2 installed in the conda environment you're using? I re-named run_minpath.py to be pathway_pipeline.py in a recent version which is why it might only fail at that step.
Gavin
from picrust2.
Related Issues (20)
- UserWarning: A worker stopped while some jobs were given to the executor. HOT 14
- Error in predicting functions using fungal ITS data HOT 4
- Generating a KEGG module table from the KO table HOT 1
- place_seqs.py --ref_dir questions HOT 2
- FutureWarning / deprecation warnings HOT 1
- Error in runing picrust 2 HOT 2
- COG3512 was eliminated in the latest COG database (2020) HOT 1
- Retrieving more Fungi genomes for ITS and 18S predictions HOT 3
- Error picrust2 picrust2_pipeline.py HOT 3
- i get "1 failed, 60 passed" when i run the tests to verify the installation after installed picrust2-2.5.0 from source HOT 12
- Invalid model name error HOT 3
- PICRUSt2 with other database(e.g. cowpi) HOT 2
- warning line 341 "metagenome_pipeline.py" HOT 1
- Unable to install v2.5.1 on MackBook M1 with Monterey HOT 11
- Running PICRUSt on ITS sequences HOT 1
- Calling in ITS reference HOT 5
- Getting Reverse Complementary Seqs HOT 1
- q2-picrust2 Tutorial error_ "pro_ref.raxml_info" could not be found. HOT 1
- "Stopping - no ASV ids overlap between input FASTA and sequence abundance table" despite having exact ASV id matching. HOT 3
- PICRUSt2 Data and STAMP HOT 1
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 picrust2.