Add compile script, remove matlab file - hdsort

Author: chyumin

hdsort-compiled/Dockerfile

@@ -1,6 +1,6 @@
 FROM hdsort-matlab-base
 
-RUN chmod 755 /usr/bin/mlrtapp/hdsort_compiled
+RUN chmod 755 /usr/bin/mlrtapp/hdsort_master
 ENV PATH="/usr/bin/mlrtapp:${PATH}"
 
 RUN apt-get update -y

hdsort-compiled/README.md

@@ -14,6 +14,7 @@ There are three main steps for generating a functional HDsort docker image:
 
 ### Matlab Requirements
 - MATLAB Compiler
+- Fuzzy_Logic Toolbox
 - More requirements to be checked and listed...
 
 ## Compiling HDsort as Matlab's Standalone Application

hdsort-compiled/compile.sh

@@ -0,0 +1,38 @@
+#!/bin/bash
+set -e
+
+if [ $# == 0 ]; then
+    echo "Usage: $0 param1 param2"
+    echo "* param1: hdsort path"
+    echo "* param2: spikeinterface path"
+    exit
+fi
+
+if [ $# -ne 2 ]; then
+    echo "spikeinterface and hdsort path must be given"
+    exit 1
+fi
+
+WC_PATH=$1
+SI_PATH=$2
+WORK_DIR=$(pwd)
+SOURCE_DIR=$( dirname -- "$0"; )
+TMP_DIR=$SOURCE_DIR/tmp
+
+echo "hdsort path: ${WC_PATH}"
+echo "spike-interface path: ${SI_PATH}"
+
+echo "Creating tmp folder: $TMP_DIR"
+cd $WORK_DIR
+mkdir -p $TMP_DIR
+
+echo "Compiling hdsort_master..."
+cd $TMP_DIR
+matlab -batch "mcc -m ${SI_PATH}/spikeinterface/sorters/hdsort/hdsort_master.m -a ${SI_PATH}/spikeinterface/sorters/utils -a ${WC_PATH}"
+
+echo "Creating base docker image..."
+matlab -batch "compiler.package.docker('hdsort_master', 'requiredMCRProducts.txt', 'ImageName', 'hdsort-matlab-base')"
+
+cd $WORK_DIR
+rm -r $TMP_DIR
+