Added config.v8.yaml

README.md

@@ -3,13 +3,13 @@
 This profile configures Snakemake to submit jobs to a HTCondor cluster.
 
 ### Prerequisites
-The profile makes use of the HTCondor python bindings which can be installed with 
+The profile makes use of the HTCondor python bindings (and  `snakemake-executor-plugin-cluster-generic` for snakemake > 8) which can be installed with 
 
-    pip install --user htcondor
+    pip install --user htcondor snakemake-executor-plugin-cluster-generic 
 
 or using Anaconda with
 
-    conda install -c conda-forge python-htcondor
+    conda install -c conda-forge -c bioconda python-htcondor snakemake-executor-plugin-cluster-generic
 
 ### Deploy profile
 
@@ -39,3 +39,6 @@ Because the tests will try to submit jobs they need to be started from a HTCondo
 ```
 DOCKER_COMPOSE=tests/docker-compose.yaml ./tests/deploystack.sh
 ```
+
+## Migration to snakemake v8
+If using snakemake version 8 or higher, refer to [the migration guide](https://snakemake.readthedocs.io/en/stable/getting_started/migration.html). For this profile, use `config.v8+.yaml` instead of `config.yaml`

test-environment.yml

@@ -15,3 +15,4 @@ dependencies:
   - pyflakes
   - urllib3
   - cryptography
+  - snakemake-executor-plugin-cluster-generic

{{cookiecutter.profile_name}}/config.v8+.yaml

@@ -0,0 +1,10 @@
+jobscript: "grid-jobscript.sh"
+executor: "cluster-generic"
+cluster-generic-status-cmd: "grid-status.py"
+cluster-generic-submit-cmd: "grid-submit.py"
+max-jobs-per-second: 100
+max-status-checks-per-second: 100
+restart-times: 5
+local-cores: 10
+jobs: 5000
+verbose: false