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Hello,
Thanks for the wonderful tool!
It seems to run fine on many datasets, but for me it fails for one specific dataset, with the following error report:
```
Activating conda environment: …
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**Copy and paste the exact command you tried to run**
### First I tried running minimap2, followed by flair correct:
```
module load minimap/2.28-IGB-gcc-8.2.0
module load SAMtools/1.17-IGB-gc…
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**Describe the bug**
Because of low multithreading utilization in splitting, I try to use --task 1 to split the file at the same time and then do the alignment separately to reduce the time consumpti…
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Hello,
Since I have interleaved reads ready to use, I was wondering if it is ok to use them instead of concatenating the reads or it would cause problems down the line?
Thanks!
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Hello
I am trying to run jekesa on S. pneumoniae samples. It works fine at fastqc, assembly and MLST steps (step01, step02, step03 and step05), but all other steps just create empty output file. Look…
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## Bug report
My team keeps receiving "Failed to publish" warnings when running our custom Nextflow pipeline. For example:
```
Jun-17 20:16:08.765 [PublishDir-1982] DEBUG nextflow.processor.Pu…
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Hello,
This is similar to [issue#69](https://github.com/chhylp123/hifiasm/issues/69) but for me it is unsolved yet. I am running hifiasm v 0.14.2-r315 to assemble ~3.5Gb genome. My hifi fastq files…
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Hi,
I was using debar on my fastq file with the input and output (default) as fastq.
Later, I wanted to process the file further with usearch (dereplication) but it says
`---Fatal error---
Bad FA…
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### Is your feature related to a problem?
When using a aligned BAM file as input, wf-human-variants does take the alignment as it is, without doing a re-alignment. Of cause this makes a lot of sens…
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Hi,
I have a samplesheet that contains the paths to test data relative to the project root directory (i.e. `./tests/fastq.fq`). This can be fed into `nextflow` just fine. I cannot use it for `nf-test…
rollf updated
1 month ago