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Hi!
I'm having some trouble request s3 objects that are outside my current region (I get a Status Code: 301).
Backend: AWS Batch
Filesystem: S3
Region : `ap-southeast-2`
I'm attempting to …
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`scripts/light_class_input.py ` expects two bam files -- one each for R1 and R2
```
python3 scripts/light_class_input.py --outpath /oak/stanford/groups/horence/Roozbeh/single_cell_project/output/m…
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There isn't much context provided with the following error
```
$ nextflow run main.nf \
-profile docker \
--genome GRCh38 \
--digestion arima \
--input '/home/ec2-user/*{1,2}.fastq.gz'…
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how to add --privilleged for docker when run cromwell in aws
where to add this option ?
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Hi,
I am trying to run a workflow on AWS Batch using the genomics-ami.
The ami was built following the instructions in the relevant pages and i have confirmed that it contains a /cromwell-root mount…
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### Description of the bug
I was following the tutorial https://catalog.us-east-1.prod.workshops.aws/workshops/76d4a4ff-fe6f-436a-a1c2-f7ce44bc5d17/en-US/workshop/test-workflow and I managed to creat…
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### Operating System
CentOS 7
### Other Linux
_No response_
### Workflow Version
wf-pore-c.sif the latest
### Workflow Execution
Command line (Cluster)
### Other workflow execution
_No resp…
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## Bug report
The containerOptions directive String `opts` gets parsed into a Map of options with:
```groovy
CmdLineHelper.parseGnuArgs(opts.toString())
```
This `parseGnuArgs` method does…
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Hello,
I've been testing my setup to run drugsniffer on my AWS Batch configuration, and I've successfully run the 3vri example on Batch. I next tried to run the 5l2s example, but I'm getting an error…
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### Discussed in https://github.com/aws/amazon-genomics-cli/discussions/481
Originally posted by **MrOlm** June 13, 2022
Hello,
After a Nextflow run there is usually a "results" folder crea…