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Running ```./canu/Linux-amd64/bin/canu -p metagenome -d /scratch/metagenome_folder genomeSize=1g -nanopore-raw metagenome_folder/metagenome.fastq```, I'm getting a Error 7 as follows:
```-- Startin…
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I run canu on my agrobacterium nanopose data, and failed. Could anyone have any good advice on how to solve the problem?
Here is my command line:
```
dklabuser$ canu -p 91156 -d outdir_canu genomeS…
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Hi:
I used PacBio reads (100X) to assemble 420 mb some plant genome. However, canu 1.8 takes over 1,900 hours to run "ovS". Could someone solve the problem? Many thanks.
My command line:
```
no…
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Hi All,
Just curious if you have a tool to easily generate a fasta file of phased haplotype blocks using a reference and the output of HapCUT2? I haven't been able to find one in your docs and want…
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Haplotype Caller still has some problems with GENOTYPE_GIVEN_ALLELES mode.(using the latest build 4.0.11, donwnloaded today)
Summary:
In this case I have a SNP position that I want the genotype re…
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Hello,
I managed to install Canu by following the instructions in release. I downloaded the binary 'canu-1.8.Linux-amd64.tar.xz', then installed with command 'tar -xJf canu-1.8.*.tar.xz'. In terminal…
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I run canu in the campus server using batch submission script below:
```
#!/bin/bash
#PBS -l nodes=1:ppn=1
#PBS -l walltime=10:00:00
#PBS -l pmem=120gb
#PBS -A open
# Get started
echo " "
e…
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The CANU 1.8 command that I use is
```
#!/bin/bash
#PBS -V
#PBS -N Assembly_SE3
#PBS -q batch
#PBS -l nodes=1:ppn=16
#PBS -l walltime=1000:00:00
#PBS -l mem=100g
#PBS -M saila.vishwanathan@e…
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I'm running Canu v1.6 on linux through the ont-assembly-polish pipeline (https://github.com/nanoporetech/ont-assembly-polish), on a remote server. The only Canu parameter I changed was useGrid=false. …
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I am running RNA-seq pipeline on 12 rat samples. It seems GATK failed in the variant calling. The error information is as below:
>
> 03:22:50.041 INFO GenomicsDBImport - Initializing engine
> 0…