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Hi!, I am using Canu 1.8 in a Linux RedHat system with the following command:
```
canu -p ONTassembly -d $WDR -fast -minReadLength=1500 -stopOnLowCoverage=0.010 -batMemory=80 -merylMemory=80 -maxMem…
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Hi there,
my canu process is stopping after cormhap. I restart the job, but the same error appeared.
Can't figure out what the problem is. Any help, please?
canu -p ONTassembly -d $WDR -fast -…
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I cannot tell well what caused a failure during the unitigging stage. I've pasted the output of the last canu-script log, as well as the log of what I think is one of 5 offending jobs. The restart did…
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Dear Bcbio Team,
I upgraded bcbio recently to v1.1.5 and I am getting below error when running gatk-variant pipeline.
[April 28, 2019 10:11:25 AM AST] org.broadinstitute.hellbender.tools.spark.A…
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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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Very good question! And one we get a lot, :). There is a difference between taxonomic OTU assigment and distance based OTU assigment. The cluster commands group sequences into OTUs based on the dis…
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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 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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The user provided me with shared, constaxonomy and mothur created biom file. The file looked "weird" to him, more like a tree structure.
Response:
The make.biom command is designed to convert a sha…