adding extra options argument

Signed-off-by: Vanessa Sochat <vsochat@stanford.edu>

Author: vsoch

README.md

@@ -20,11 +20,13 @@ USAGE: docker2singularity [-m "/mount_point1 /mount_point2"] [options] docker_im
 OPTIONS:
 
           Image Format
-              -f: build development sandbox (folder)
-              -w: non-production writable image (ext3)         
-
-              Default is squashfs (recommended)
-
+              --folder   -f   build development sandbox (folder)
+              --option   -o   add a custom option to build (-o --fakeroot or -option 'section post' )
+              --writable -w   non-production writable image (ext3)         
+                              Default is squashfs (recommended) (deprecated)
+              --name     -n   provide basename for the container (default based on URI)
+              --mount    -m   provide list of custom mount points (in quotes!)
+              --help     -h   show this help and exit
 ```
 
 ### Options
@@ -41,6 +43,17 @@ Note that you are able to convert easily from a folder or ext3 image using Singu
 
  - `-m` specify one or more mount points to create in the image.
 
+**Options**
+
+If you look at `singularity build --help` there are a variety of options available.
+You can specify some custom option to the command using the `--option` flag. Make sure
+that each option that you specify is captured as a single string. E.g.,:
+
+```bash
+--option --fakeroot 
+--option '--section post'
+```
+
 **Image Name**
 
 The last argument (without a letter) is the name of the docker image, as you would specify to run with Docker (e.g., `docker run ubuntu:latest`)

docker2singularity.sh

@@ -44,8 +44,9 @@ function usage() {
 
           Image Format
               --folder   -f   build development sandbox (folder)
+              --option   -o   add a custom option to build (-o --fakeroot or -option 'section post' )
               --writable -w   non-production writable image (ext3)         
-                              Default is squashfs (recommended)
+                              Default is squashfs (recommended) (deprecated)
               --name     -n   provide basename for the container (default based on URI)
               --mount    -m   provide list of custom mount points (in quotes!)
               --help     -h   show this help and exit
@@ -61,6 +62,7 @@ fi
 mount_points="/oasis /projects /scratch /local-scratch /work /home1 /corral-repl /corral-tacc /beegfs /share/PI /extra /data /oak"
 image_format="squashfs"
 new_container_name=""
+options=""
 
 while true; do
     case ${1:-} in
@@ -78,6 +80,11 @@ while true; do
             mount_points="${1:-}"
             shift
         ;;
+        -o|--option)
+            shift
+            options="${1:-} ${options}"
+            shift
+        ;;
         -f|--folder)
             shift
             image_format="sandbox"
@@ -107,6 +114,7 @@ done
 
 image=${1}
 
+exit 0
 echo ""
 echo "Image Format: ${image_format}"
 echo "Docker Image: ${image}"
@@ -311,11 +319,11 @@ docker rm $container_id >> /dev/null
 # Build a final image from the sandbox
 echo "(9/10) Building ${image_format} container..."
 if [ "$image_format" == "squashfs" ]; then
-    new_container_name=${new_container_name}.simg
-    singularity build ${new_container_name} $build_sandbox
+    new_container_name=${new_container_name}.sif
+    singularity build ${options} ${new_container_name} $build_sandbox
 elif [ "$image_format" == "writable" ]; then
-    new_container_name=${new_container_name}.img    
-    singularity build --writable ${new_container_name} $build_sandbox
+    new_container_name=${new_container_name}.simg    
+    singularity build ${options} --writable ${new_container_name} $build_sandbox
 else
     mv $build_sandbox $new_container_name
 fi