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Updating my default configs to see how things have changed,
My runscript:
```sh
MBM.py --files input/*mnc \
--output-dir testoutputdir \
--resolution 0.1 \
--subject-matter mousebrain \
…
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### Operating System
Windows 10
### Other Linux
_No response_
### Workflow Version
v24.04.2
### Workflow Execution
Command line (Cluster)
### Other workflow execution
_No response_
### EPI2M…
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#52 and #56 may be related to this issue.
I'm building the simplest pipeline on AWS (Linux): spades + docker.
The FastQ files are real bacterial datasets, 5Mb, 100X coverage. When I run the pipel…
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I want to only run files in session **ses-LOC** with **task-retinotopy**.
I wrote my Filter.json as:
> {
> "t1w": {
> "datatype": "anat",
> "session": "ImageNet02",
> "acquisition": null,
> "…
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Hi,
when I tried to run caper with encode-atac-pipeline, I could see the job was submitted to the lsf system, but the job disappear immediately without any reports.
when I looked into the detai…
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It would be nice to be able to write tasks in any scripting language, not just bash.
Unfortunately, doing this naively would require writing a parser for each scripting language (because we need to …
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Hi, Dr. Hu, thanks for developing such a powerful genome assembly software. Over the past half month, I've found that NextDenovo is the best in assembling the plant species I studied. The result made …
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## **Describe the bug**
The pipeline stalls or ends prematurely before the IDR steps.
I have successfully run the pipeline on datasets using the mm10 genome, but it stalls when I use custom genomes…
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H roryk,
I try to use scheduler to schedule our own pipeline. I try to make a view and create a simple test function to run subprocess shell cmd like following:
def run(cmd): …
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Hi
I am using Snakemake for some months now, previously on a Slurm cluster where I used the slurm executer plugin.
Now I am workin on a LSF cluster and I wanted to adapt my workflow to the new clust…