User:DukeEgr93/SNIPR

• Installed VirtualBox 6.1.18 from [1] using all defaults
• Created a machine in VirtualBox Manager using New; 4 GB Ram; 100 GB VDI drive fixed size for speed
• Downloaded Ubuntu from Ubuntu and installed it
  • After installation, stop the machine and remove the optical ISO if need be
• Used Firefox to connect to MATLAB and installed R2017a with "sudo ./install" to have access to folders; MATLAB, Simulink, Bioinformatics, Robust Control. To be able to add toolboxes later, in UNIX:

sudo apt-get install libgconf-2-4
cd /usr/local.MATLAB/R2017a/bin/glnxa64
sudo mkdir exclude
sudo mv libfreetype.so.6 exclude

From MATLAB's help site

• NUPACK
  • Registered
  • Downloaded and opened with archive manager
  • Extracted to /home/ID
  • Installed cmake with

sudo apt install cmake

• Installed g++ with

sudo apt install g++

• Change to nupack folder, make build, change to build,

sudo cmake -DCMAKE_C_COMPILER=gcc -DCMAKE_CXX_COMPILER=g++ ../
sudo make
sudo make install

Sooooo many warnings...

• Install most recent version of libstdc++

sudo apt install compat-libstdc++-33.x86_64

• Find most recent version of libstdc++

locate libstdc++

If locate does not work, use

sudo apt install mlocate 

first. Find the one that is in /usr/lib/x86_64-linux-gnu

• Add lines to bash profile and run it:

 pico ~/.bash_profile

and add

export NUPACKHOME=/home/mrg/nupack3.2.2
export PATH=$PATH":${NUPACKHOME}/bin"
export LD_PRELOAD="/usr/lib/x86_64-linux-gnu/libstdc++.so.6.0.28"

then

source ~/.bash_profile

Not sure if required since these live on /usr/local

• Start MATLAB from terminal

cd /usr/local/MATLAB/R2017a/bin
./matlab &

• Check to see if things are working

system('musltitubedesign')

• SNIPR
  • Change into home

cd 

• Get github repository

sudo apt install git
git clone https://github.com/Albert09111/SPIPR/

• Change into SNIPR Folder

cd SNIPR

• Run MATLAB

/usr/local/MATLAB/R2017a/bin/matlab &

• In MATLAB, run SNIPR

SNIPR

Round Two

Fedora

Made a Virtualbox with Fedora, downloaded ISO, connected to optical first time around, disconnected from optical second time around, etc

cmake

• Opened terminal
• sudo dnf install cmake
• sudo yum install gcc-c++

NUPACK

• NUPACK
  • Registered
  • Downloaded and moved to home directory
  • gunzip nupack3.2.2.tar.gz
  • tar -xvf nupack3.2.2.tar
  • cd nupack3.2.2
  • mkdir build
  • cd build
  • sudo cmake ../
  • sudo make
  • Fail...

Round Three

Debian 64

IBID; all the defaults

Process

• opened the terminal
• su -
• apt-get install cmake
• apt get-install gcc
• apt-get install g++
• Download zip from Firefox
• gunzip nupack3.2.2.tar.gz
• tar -xvf nupack3.2.2.tar
• cd nupack3.2.2
• mkdir build
• cd build
• cmake ../
• make
• make install
• Download R2017b installer
• gunzip
• https://linuxize.com/post/how-to-add-user-to-sudoers-in-debian/ to add sudo rights
• sudo ./install
• MATLAB, Simulink, Bioinformatics, Statistics, Control System, Robust Control
• Edit .bash_profile and add

export LD_LIBRARY_PATH=/usr/lib:/usr/local/lib:/usr/lib/x86_64-linux-gnu

• source ~/.bash_profile
• Cd /usr/local/MATLAB/R2017b/sys/os/glnx64
• sudo mv libstdc++.so.6 libstdc++.so.6.old
• sudo apt-get install git
• git clone https://github.com/Albert09111/SNIPR