Update containerization docs

Author: ahmig

README.md

@@ -36,13 +36,15 @@ and performs the analysis in a single step:
 
 The workflow is compatible with both local execution and HPC environments utilizing SLURM.
 The latter requires installing the [Snakemake executor plugin for SLURM](https://snakemake.github.io/snakemake-plugin-catalog/plugins/executor/slurm.html).
-It supports dependency management through either conda or Singularity, as detailed in the
+It supports dependency management through either conda or Apptainer/Singularity, as detailed in the
 [run modes documentation](config/README.md#run-modes).
 
-We use continuous integration (CI) to verify that all dependencies install correctly
+We use continuous integration (CI) to automatically verify that all dependencies install correctly
 with Snakemake v7.32.4 (see GitHub Action `Install`), and to test that VIPERA runs
-successfully with Snakemake v7.32.4, v8.30.0, and v9.1.6 (see GitHub Actions
-`Test Sm v[7-9]`).
+successfully with Snakemake v7.32.4, v8.30.0, and v9.1.6 using conda (Actions `Test Sm v[7-9]`).
+We also test a containerized workflow with Snakemake v9.1.6 and Apptainer using a
+[remote image](https://hub.docker.com/r/ahmig/vipera) (Action `Test Sm v9 Apptainer`).
+This image is automatically updated in every version (Action `Deploy`).
 
 Please refer to the [**full workflow documentation**](config/README.md) for detailed instructions.
 

config/README.md

@@ -183,12 +183,12 @@ snakemake --use-conda --slurm --profile profile/default
 
 Additionally, we offer the option of running the workflow within a containerized
 environment using a [pre-built Docker image](https://hub.docker.com/r/ahmig/vipera),
-provided that [Singularity](https://en.wikipedia.org/wiki/Singularity_(software))
+provided that [Apptainer/Singularity](https://en.wikipedia.org/wiki/Singularity_(software))
 is available on the system. This eliminates the need for further conda package
 downloads and environment configuration.
-To do that, simply add the option `--use-singularity` to any of the previous commands.
+To do that, simply add the option `--use-apptainer` to any of the previous commands.
 
-Using Singularity for running VIPERA in the Windows Subsystem for Linux (WSL)
+Using Apptainer for running VIPERA in the Windows Subsystem for Linux (WSL)
 may encounter errors due to the default file permissions configuration, which
 conflicts with Snakemake's containerized conda environment activation mechanism.
 Thus, running the containerized VIPERA workflow on the WSL is not advised.