Comments (5)
Hi Elena,
it is probably due to RAM shortage. How much memory does your machine have?
Best regards,
Robert
from racon.
The RAM is 64. Could that be the problem?
Best regards,
Elena
from racon.
Unfortunately, 64GB of memory will not be sufficient to run Racon with your input. You can try and split your assembled genome by contigs, run graphmap and Racon on each file separately and hope that it will fit into memory.
Best regards,
Robert
from racon.
Ok, thanks , I will try it that way.
Best regards,
Elena
from racon.
@elenasantidrian, racon 1.2.0
has a wrapper script to enable easier correction for large files (you can split target sequences to decrease memory consumption). Also, all racon versions beyond 1.0.0
should use less memory than version 0.5.0
.
from racon.
Related Issues (20)
- The number contig decrease after polishing HOT 1
- Compiling RACON for CUDA 11.4 & <$ make package> FAILS on Ubuntu 18.04 - SOLVED
- Empty Output file when using Racon HOT 7
- error: empty overlap set! and multiple consusnses sequnces HOT 6
- Issue with some files resulting in "overlap is not transmuted" HOT 3
- unequal length error HOT 1
- Improper HOT 1
- terminate called after throwing an instance of 'std::invalid_argument' what(): [bioparser::SamParser] error: invalid file format HOT 1
- Segmentation Fault (core dumped) HOT 1
- Output record of fixes HOT 1
- VERY slow performance with fastq.gz files HOT 3
- Racon error: empty overlap set!
- polishing contig with Nanopore Q20 read? HOT 1
- Use cDNA to polish exons
- Racon cannot work with duplucates in paf file HOT 1
- How to generate OVERLAP file? HOT 1
- installation on CentOS 7: 'Could NOT find ZLIB: Found unsuitable version "1.2.7", but required is at least "1.2.8"' HOT 1
- Empty Output (non-memory-related issue) HOT 3
- error: overlap is not transmuted!
- racon: invalid option -- 'L' HOT 3
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 racon.