Fix Singularity script

.github/workflows/buildall_and_publish.yml

@@ -5,31 +5,31 @@ on:
       types: [released]
 
 jobs:
-  Pypi:
-    name: Pypi CI
-    uses: ./.github/workflows/pypi_reusable.yml
-    with:
-        package_version: ${{vars.FASTQWIPER_VER}}${{github.run_number}}
-    secrets:
-        pypi_token: ${{ secrets.PYPI_TOKEN }}
-        
-  Conda:
-    name: Conda CI
-    uses: ./.github/workflows/conda_reusable.yml
-    with:
-        package_version: ${{vars.FASTQWIPER_VER}}${{github.run_number}}
-    secrets:
-        conda_token: ${{ secrets.CONDA_TOKEN }}
-
-  Docker:
-    name: Docker CI
-    uses: ./.github/workflows/docker_reusable.yml
-    with:
-        package_version: ${{vars.FASTQWIPER_VER}}${{github.run_number}}
-    secrets:
-        dockerhub_username: ${{ secrets.DOCKERHUB_USERNAME }}
-        dockerhub_token: ${{ secrets.DOCKERHUB_TOKEN }}
-    needs: Conda
+#  Pypi:
+#    name: Pypi CI
+#    uses: ./.github/workflows/pypi_reusable.yml
+#    with:
+#        package_version: ${{vars.FASTQWIPER_VER}}${{github.run_number}}
+#    secrets:
+#        pypi_token: ${{ secrets.PYPI_TOKEN }}
+#
+#  Conda:
+#    name: Conda CI
+#    uses: ./.github/workflows/conda_reusable.yml
+#    with:
+#        package_version: ${{vars.FASTQWIPER_VER}}${{github.run_number}}
+#    secrets:
+#        conda_token: ${{ secrets.CONDA_TOKEN }}
+#
+#  Docker:
+#    name: Docker CI
+#    uses: ./.github/workflows/docker_reusable.yml
+#    with:
+#        package_version: ${{vars.FASTQWIPER_VER}}${{github.run_number}}
+#    secrets:
+#        dockerhub_username: ${{ secrets.DOCKERHUB_USERNAME }}
+#        dockerhub_token: ${{ secrets.DOCKERHUB_TOKEN }}
+#    needs: Conda
 
   Singularity:
     name: Singularity CI

Singularity.def

@@ -38,7 +38,7 @@ From: condaforge/mambaforge
     chmod 777 /fastqwiper/run_wiping.sh
 
 %runscript
-    if [ $# -eq 5 ] || [ $# -eq 3 ] || [ $# -eq 1 ]; then
+    if [ $# -eq 5 ] || [ $# -eq 3 ] || [ $# -eq 0 ]; then
         exec /fastqwiper/run_wiping.sh $@
     else
         echo "You must provide three + 2 optional arguments [computing mode ('paired' or 'single'), # of cores (int), sample name (string), chunk size (optional, int), ASCII offset (optional, 33 or 64)]"