Comments (3)
I'm encountering similar when training a model with HybridModel.py using Apptainer v1.1.8 (rebranded Singularity) with the latest Docker container (helixer-docker:helixer_v0.3.3_cuda_11.8.0-cudnn8). Now worrying that my model training is running sub-optimally (i.e. slow), so would appreciate a response.
from helixer.
I met the same error,.
I'm encountering similar when training a model with HybridModel.py using Apptainer v1.1.8 (rebranded Singularity) with the latest Docker container (helixer-docker:helixer_v0.3.3_cuda_11.8.0-cudnn8). Now worrying that my model training is running sub-optimally (i.e. slow), so would appreciate a response.
i met the same error , but i didnot have the root ,just to use the singularity,
from helixer.
Hi, thanks for raising, will check out these errors more closely for the next release. I strongly suspect you can ignore them.
Helixer should run on the order of magnitude of 100mbp of genome/30min (or faster, hardware, batch size and gene density dependent). If it's much slower than that, then please let us know, that would be unexpectedly slow and might be running on the CPU instead of GPU.
from helixer.
Related Issues (20)
- Name the genes in order HOT 1
- Issues with Gymnosperms HOT 2
- Online Version HOT 8
- Fail early and clearly on fasta files with duplicate IDs
- results from web tool not sent HOT 2
- boolean index did not match indexed array along dimension 0 HOT 2
- Low busco scores for transcripts called on large Cupressus genome (10Gb) with helixer HOT 2
- gff3 specification HOT 1
- nohup not helping in Helixer.py, run is stopped when connection is lost HOT 5
- Helixer and the protein related domain HOT 1
- ModuleNotFoundError: No module named 'tensorflow.keras' HOT 2
- How does helixer evaluate performance when predicting genomes? HOT 1
- sqlite3.DataError: string or blob too big HOT 2
- OSError: [Errno 9] Bad file descriptor HOT 1
- When I run python Helixer.py, met: "ImportError: cannot import name 'where' from 'certifi' (unknown location" HOT 1
- Question: How to find more smaller genes HOT 2
- hypothetical all-eukaryote model HOT 3
- Micro exons with single bases or two
- error message = 'No space left on device"
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 helixer.