Ironsmith_fsleyes

#!/bin/bash

set -e #Exit on error

#Authored by Valentinos Zachariou on 06/22/2021
#
#	Copyright (C) 2022 Valentinos Zachariou, University of Kentucky (see LICENSE file for more details)
#
#	Script launches fsleyes from within the singularity container. 
#	Useful for people who do not have a viewer program
# 	and want to visualise the Ironsmith outputs.
#
#
#
#
#       _---~~(~~-_.
#     _{        )   )
#   ,   ) -~~- ( ,-' )_
#  (  `-,_..`., )-- '_,)
# ( ` _)  (  -~( -_ `,  }
# (_-  _  ~_-~~~~`,  ,' )
#   `~ -^(    __;-,((()))
#         ~~~~ {_ -_(())
#                `\  }
#                  { }
#
#


Path="$(cd "$(dirname "${BASH_SOURCE[0]}")" && pwd)" # Path where Ironsmith_AFNI is situated
PathCurr=`pwd` #Folder where Ironsmith_AFNI was executed from

echo ""
echo "---------------------------------------------------------------"
echo "*** Checking if Singularity and/or Docker are installed: ***"
echo "---------------------------------------------------------------"
echo ""

#Check for Singularity or docker

if command -v singularity &> /dev/null; then

	
	SingVer2=$(singularity --version | awk -F 'version' '{print $2}')
	echo ""
	echo "Singularity Ver$SingVer2 installed. All good! "
	echo ""

 	#Test QSM_Container.simg
 	echo ""
 	echo "---------------------------------------------------------------"
  	echo "*** Testing QSM_Container.simg... ***"
  	echo "---------------------------------------------------------------"
  	echo ""

	if [ -f "$Path/Functions/QSM_Container.simg" ] && [[ $(find $Path/Functions/QSM_Container.simg -type f -size +10750000000c 2>/dev/null) ]]; then

		echo ""
		echo "QSM_Container.simg FOUND in $Path/Functions"
		echo ""

	else

		echo ""
		echo -e "\e[31m----------------------------------------------"
		echo "ERROR: QSM_Container.simg NOT FOUND in $Path/Functions or is the wrong size (should be 10.8G)! (⊙_◎) "
		echo ""
		echo "Please download QSM_Container.simg from:"
		echo ""
		echo "https://drive.google.com/file/d/1NFV2z0yIEPKGblQVrcMe8bza8ZS21AO7/view?usp=sharing"
		echo ""
		echo "Then place in $Path/Functions"
		echo -e "----------------------------------------------\e[0m"
		echo ""
		exit

	fi

 	#Warmup run
  	singularity run -e $Path/Functions/QSM_Container.simg flirt -version &> /dev/null

  	unset ConTest
  	ConTest=$(singularity run -e $Path/Functions/QSM_Container.simg flirt -version)

	if [[ $ConTest == "FLIRT version 6.0" ]]; then

      		echo ""
      		echo "QSM_Container.simg test SUCCESSFUL! "
     		echo ""

  	else

   		echo ""
   		echo -e "\e[93m----------------------------------------------"
    		echo "ERROR: QSM_Container.simg test FAILED! "
    		echo ""
    		echo "QSM_Container.simg could be corrupted, please re-download from:"
    		echo "https://drive.google.com/file/d/1NFV2z0yIEPKGblQVrcMe8bza8ZS21AO7/view?usp=sharing"
    		echo -e "----------------------------------------------\e[0m"
    		echo ""
   		exit

  	fi

elif ! command -v singularity &> /dev/null; then
	echo ""
	echo -e "\e[93m----------------------------------------------"
	echo "WARNING: Singularity NOT FOUND! "
	echo "Checking for DOCKER"
	echo -e "----------------------------------------------\e[0m"
	echo ""

	if command -v docker &> /dev/null; then


		DockVer2=$(docker --version | awk -F 'version' '{print $2}')
		echo ""
		echo -e "\e[93m----------------------------------------------"
		echo "ERROR: Docker Ver $DockVer2 installed. However, only Singularity supported at the moment (╯°□°）╯︵ ┻━┻ "
		echo -e "----------------------------------------------\e[0m"
		echo ""
    		exit


	elif ! command -v docker &> /dev/null; then

		echo ""
		echo -e "\e[93m----------------------------------------------"
		echo "ERROR: Singularity not FOUND! "
		echo "Singularity needs to be installed for this toolkit to work ¯\_(ツ)_/¯"
		echo -e "----------------------------------------------\e[0m"
		echo ""
		exit
	fi
fi


singularity exec --bind $PathCurr $Path/Functions/QSM_Container.simg fsleyes