Build branch main with version main (a80fa3e)

Build pipeline: viash-hub.craftbox.main-q4xsw

Source commit: a80fa3ef02

Source message: `move_files_to_directory`: add support for preserving symbolic links (#13)

target/executable/move_files_to_directory/.config.vsh.yaml

@@ -36,6 +36,13 @@ argument_groups:
     direction: "output"
     multiple: false
     multiple_sep: ";"
+  - type: "boolean_true"
+    name: "--keep_symbolic_links"
+    alternatives:
+    - "-d"
+    description: "Preserve symbolic links."
+    info: null
+    direction: "input"
 resources:
 - type: "bash_script"
   path: "script.sh"
@@ -146,9 +153,9 @@ build_info:
   output: "target/executable/move_files_to_directory"
   executable: "target/executable/move_files_to_directory/move_files_to_directory"
   viash_version: "0.9.4"
-  git_commit: "1c2d4e90541ed3c2e04a2633db86413b2548ab10"
+  git_commit: "a80fa3ef020f8124bc50d5fb85f2bdbc65235005"
   git_remote: "https://github.com/viash-hub/craftbox"
-  git_tag: "v0.1.0-6-g1c2d4e9"
+  git_tag: "v0.1.0-7-ga80fa3e"
 package_config:
   name: "craftbox"
   version: "main"

target/executable/move_files_to_directory/move_files_to_directory

@@ -454,9 +454,9 @@ RUN apt-get update && \
 
 LABEL org.opencontainers.image.authors="Dorien Roosen"
 LABEL org.opencontainers.image.description="Companion container for running component move_files_to_directory"
-LABEL org.opencontainers.image.created="2025-05-07T13:45:23Z"
+LABEL org.opencontainers.image.created="2025-06-25T13:20:53Z"
 LABEL org.opencontainers.image.source="https://github.com/viash-hub/craftbox"
-LABEL org.opencontainers.image.revision="1c2d4e90541ed3c2e04a2633db86413b2548ab10"
+LABEL org.opencontainers.image.revision="a80fa3ef020f8124bc50d5fb85f2bdbc65235005"
 LABEL org.opencontainers.image.version="main"
 
 VIASHDOCKER
@@ -588,6 +588,10 @@ function ViashHelp {
   echo "        type: file, required parameter, output, file must exist"
   echo "        Path to output directory"
   echo ""
+  echo "    -d, --keep_symbolic_links"
+  echo "        type: boolean_true"
+  echo "        Preserve symbolic links."
+  echo ""
   echo "Viash built in Computational Requirements:"
   echo "    ---cpus=INT"
   echo "        Number of CPUs to use"
@@ -666,6 +670,16 @@ while [[ $# -gt 0 ]]; do
             VIASH_PAR_OUTPUT=$(ViashRemoveFlags "$1")
             shift 1
             ;;
+        --keep_symbolic_links)
+            [ -n "$VIASH_PAR_KEEP_SYMBOLIC_LINKS" ] && ViashError Bad arguments for option \'--keep_symbolic_links\': \'$VIASH_PAR_KEEP_SYMBOLIC_LINKS\' \& \'$2\' - you should provide exactly one argument for this option. && exit 1
+            VIASH_PAR_KEEP_SYMBOLIC_LINKS=true
+            shift 1
+            ;;
+        -d)
+            [ -n "$VIASH_PAR_KEEP_SYMBOLIC_LINKS" ] && ViashError Bad arguments for option \'-d\': \'$VIASH_PAR_KEEP_SYMBOLIC_LINKS\' \& \'$2\' - you should provide exactly one argument for this option. && exit 1
+            VIASH_PAR_KEEP_SYMBOLIC_LINKS=true
+            shift 1
+            ;;
         ---engine)
             VIASH_ENGINE_ID="$2"
             shift 2
@@ -871,6 +885,11 @@ if [ -z ${VIASH_META_TEMP_DIR+x} ]; then
   exit 1
 fi
 
+# filling in defaults
+if [ -z ${VIASH_PAR_KEEP_SYMBOLIC_LINKS+x} ]; then
+  VIASH_PAR_KEEP_SYMBOLIC_LINKS="false"
+fi
+
 # check whether required files exist
 if [ ! -z "$VIASH_PAR_INPUT" ]; then
   IFS=';'
@@ -886,6 +905,12 @@ if [ ! -z "$VIASH_PAR_INPUT" ]; then
 fi
 
 # check whether parameters values are of the right type
+if [[ -n "$VIASH_PAR_KEEP_SYMBOLIC_LINKS" ]]; then
+  if ! [[ "$VIASH_PAR_KEEP_SYMBOLIC_LINKS" =~ ^(true|True|TRUE|false|False|FALSE|yes|Yes|YES|no|No|NO)$ ]]; then
+    ViashError '--keep_symbolic_links' has to be a boolean_true. Use "--help" to get more information on the parameters.
+    exit 1
+  fi
+fi
 if [[ -n "$VIASH_META_CPUS" ]]; then
   if ! [[ "$VIASH_META_CPUS" =~ ^[-+]?[0-9]+$ ]]; then
     ViashError 'cpus' has to be an integer. Use "--help" to get more information on the parameters.
@@ -1067,6 +1092,7 @@ set -eo pipefail
 # The following code has been auto-generated by Viash.
 $( if [ ! -z ${VIASH_PAR_INPUT+x} ]; then echo "${VIASH_PAR_INPUT}" | sed "s#'#'\"'\"'#g;s#.*#par_input='&'#" ; else echo "# par_input="; fi )
 $( if [ ! -z ${VIASH_PAR_OUTPUT+x} ]; then echo "${VIASH_PAR_OUTPUT}" | sed "s#'#'\"'\"'#g;s#.*#par_output='&'#" ; else echo "# par_output="; fi )
+$( if [ ! -z ${VIASH_PAR_KEEP_SYMBOLIC_LINKS+x} ]; then echo "${VIASH_PAR_KEEP_SYMBOLIC_LINKS}" | sed "s#'#'\"'\"'#g;s#.*#par_keep_symbolic_links='&'#" ; else echo "# par_keep_symbolic_links="; fi )
 $( if [ ! -z ${VIASH_META_NAME+x} ]; then echo "${VIASH_META_NAME}" | sed "s#'#'\"'\"'#g;s#.*#meta_name='&'#" ; else echo "# meta_name="; fi )
 $( if [ ! -z ${VIASH_META_FUNCTIONALITY_NAME+x} ]; then echo "${VIASH_META_FUNCTIONALITY_NAME}" | sed "s#'#'\"'\"'#g;s#.*#meta_functionality_name='&'#" ; else echo "# meta_functionality_name="; fi )
 $( if [ ! -z ${VIASH_META_RESOURCES_DIR+x} ]; then echo "${VIASH_META_RESOURCES_DIR}" | sed "s#'#'\"'\"'#g;s#.*#meta_resources_dir='&'#" ; else echo "# meta_resources_dir="; fi )
@@ -1093,12 +1119,19 @@ if [[ ! -d "\$par_output" ]]; then
   mkdir -p "\$par_output"
 fi
 
+extra_params=( )
+
+if [ "\$par_keep_symbolic_links" == "true" ]; then
+  extra_params+=( "-d" )
+fi
+
 # Process multiple input files
 IFS=";" read -ra input_files <<< "\$par_input"
 for file in "\${input_files[@]}"; do
   # Check if the file exists before copying
   if [[ -f "\$file" ]]; then
-    cp "\$file" "\$par_output/"
+
+    cp \${extra_params[@]} "\$file" "\$par_output/"
     echo "Copied \$file to \$par_output/"
   else
     echo "Warning: Input file \$file does not exist, skipping"