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- [x] cutadapt (v.1.18) --> `/cwl/tools/cutadapt/cutadapt-v.0.7.17.cwl`
- [ ] bwa-mem (v.0.7.17) --> `/cwl/tools/bwa-mem/bwa-mem-v.0.7.17.cwl`
- [ ] Sambamba (v.0.6.8 ) --> `/cwl/tools/Sambamba/Samb…
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Hi,
I find threads doesn't work under the following case and I must set -j > 30 to run this command:
 in this package is to rename them by adding "arcad_" in front of their name, for instance rename "0_fastqc_in_chains.pl" into "arcad_fastqc_in_ch…
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This is the current code:
```
multiqc -n "initial_qc_report.html" -m fastqc ${params.initial_fastqc_dir}
```
This is producing this error when running with -profile test
```
Usage: multiq…
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I have CASAVA input files in the format:
```
SampleName_CGTGTA_L004_R1_001.fastq.gz
SampleName_CGTGTA_L004_R2_001.fastq.gz
```
I want to run FastQC in CASAVA mode before and after trimming to check …
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Heys!
I'm working with whole-genome sequencing of a non-model organism and I was checking the quality of the data with FastQC. As I found that my per tile sequence quality was bad, I started looking …
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**Galaxy Version and/or server at which you observed the bug**
Galaxy Version: 24.1
### Expected behaviour
Singularity mounts no home directory as that can affect reproducibility (settings from h…
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### Description of the bug
The sarek pipeline repeatedly errors out at the GATK MarkDuplicates step with the message:
"Error occurred during initialization of VM
Could not reserve enough space …
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I'm a member of The Carpentries Core Team and I'm submitting this issue on behalf of another member of the community.
---
Above is the scp command used to transfer the html files generated aft…
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Hi optimuscoprime,
fastqc 0.10.1 doesn't have the Illumina Nextera adaptor sequences in the contaminants file. But, it does have a `--contaminants` flag, which allows you to specify a custom contamina…
drmjc updated
10 years ago