CONSENT

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I am getting the following error message. The input is attached (.txt suffix instead of .fna so that Github lets me attach the file). ```niklas@niklas-Zenbook:~/code/CONSENT$ export PATH=$PWD/minimap2:$PATH niklas@niklas-Zenbook:~/code/CONSENT$ ./CONSENT-correct --in...

jnalanko

member questions in bmean.cpp

1

Hi: I have followed your installation process. Environment includes python3.8, zlib1.2.12, cmake3.19.1, and g++10.2.0. Then I encountered the following problems during execution of ./install. Have you ever encountered them during...

Beauty9527

Illegal Instruction in CONSENT-polish

1

Hello Pierre, I am running CONSENT-polish on a contig of ~10Mbp. I installed CONSENT v2.2.2 with conda. The commend was: `CONSENT-polish --contigs $contig.fa --reads $read.fastq --out polished.fa ` The alignment...

Maggi-Chen

v2.2.2 install error

8

I download latest zip file and unzipped. When I run `install.sh`, error as below show: ``` ./install.sh: line 5: ./install.sh: No such file or directory make: *** No targets specified...

yipukangda

*** Error in `/..... / CONSENT/bin/CONSENT-correction': free(): invalid pointer: 0x00002aaab0019df0 ***

2

Hi, Thanks for what appears to be awesome software. I am trying to run Consent-correct on a Pacbio CCS.fastq file. I have installed Consent and its dependencies, and I have...

NiklasDreyer

Error in conda version

2

I tried using the conda installation of CONSENT but it was failing to polish the example reads: ``` CONSENT-polish --contigs example/rawAssembly.fasta --reads example/reads.fasta --out example/polishedAssembly.fasta [Tue 18 Jan 14:15:53 GMT...

SwiftSeal

CONSENT-correction core dumped

3

Hi，when I use this fastq(https://github.com/lirr-lichen/1_testdata.git samle97.570.fastq )， with commond：CONSENT-correct --in samle97.570.fastq --out CONSENT.fasta --tmpdir ./ --nproc 12 --type ONT I meet this： CONSENT-correct: line 199: 297133 Segmentation fault (core dumped)...

lirr-lichen

Inflated size of corrected reads compared to input fasta

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Hello Pierre, I am running CONSENT-correct on a 20x PacBio dataset for a 1Gb genome. The version was cloned from your git repository on the 18th Feb 2021 (i.e. the...

AnnabelWhibley

HiFi performance?

1

Hi, Has CONSENT been tested on HiFi long read data? Thanks, Giulia

giuliaguidi

Error in bin/explode

13

Hi, I am running CONSENT to correct some Nanopore reads and I encountered some errors. First, I tried running directly in the command line in Linux with 4 cores and...

desmodus1984