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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, I installed canu on a Linux cluster (SLURM) and got an error when running the E.coli (25X) dataset to test the installation.
The command I ran:
```canu -p ecoli -d /scratch/ez82/Ecoli_PacBio…
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I try to test canu under slurm grid and it seems to work but then it terminates really fast and the result is the creation of empty directories.
I ran Canu 1.8 on Ubuntu 18.04.1
```
$ canu-1.8/*/b…
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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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Hi,
I have only about 10x coverage for a 1.3Gb genome from MiniION R9.4. I tried some error-correction alone and here I tried to continue with assembly. Somehow, this step is crashing and it seems …
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My high coverage, about 500x, crashes when running on the grid.
Seems that batch job submission failed due to some parameter being too long.
Restarting or manually trying to run batch script does no…
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I keep encountering the same error. I've tweaked my code based on previous issues that have been solved for others but it continues to be a problem. I am running this through my university's SLURM gri…
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Hi,
I hope it's ok for me to ask for some guidance.
I'm assembling an apox 5gb bacterial genome.
Input Nanopore rapid barcoding kit, run on Minion. Deepbinner -> albacore -> porechop (trim only).
…
thsyd updated
5 years ago
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Hi,
I did some benchmarking on Sealer and it seems that most of time is wasted loading sequence files and building bloom filters from them. In particular, for every k value, the files are loaded ag…
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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. …