Troubleshooting¶

Creating a new Snakemake profile¶

Create a new Snakemake profile with cookiecutter

Load a snakemake module Or make sure snakemake in $PATH
If not already, create a configuration directory for Snakemake profiles:
```
profile_dir="${HOME}/.config/snakemake"
mkdir -p "$profile_dir"
```
Use cookiecutter to create the Slurm profile template:
- If cookiecutter isn't installed, load snakemake module and run pip install --user cookiecutter
```
template="gh:Snakemake-Profiles/slurm"
cookiecutter --output-dir "$profile_dir" "$template"
```

During the cookiecutter process, you'll be prompted to set values for your profile. For example:

profile_name [slurm]: myprofile
sbatch_defaults []: account=my_account no-requeue exclusive
cluster_sidecar_help: [Use cluster sidecar. NB! Requires snakemake >= 7.0! Enter to continue...]
Select cluster_sidecar:
1 - yes
2 - no
Choose from 1, 2 :
cluster_name []:

After completing the prompts, the profile scripts and configuration file will be installed in the $profile_dir ( ~/.config/snakemake).
You can then use this profile when running Snakemake by calling it via --profile flag:

`python snakemake --profile myprofile ...

A change for demo`¶

some text for demo

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