Installing svFSI from source code

[Jijo Derick Abraham]

I was successful in installing the svFSI using source code.

For beginners who want to install the svFSI without Trillnos in ubuntu 18.04 or 20.04, I am hereby posting the things that worked for me.
1.First, build the prerequisites just with apt

• install git, if you don't have done it previously

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sudo apt install git

• Install gcc, gfortran, lapack, liblas and open mpi

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sudo apt install gcc
sudo apt install gfortran
sudo apt install liblapack-dev
sudo apt install libblas-dev
sudo apt install libopenmpi-dev
sudo apt install openmpi-bin

• Install cmake (for ubuntu 20.04)

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sudo apt install cmake
sudo apt install cmake-curses-gui

• cmake (for ubuntu 18.04)
  Note that, svFSI demands cmake version 3.12 or latest. However, in ubuntu 18.04 the default version of the cmake is 3.10, which is not sufficient to build svFSI. I suggest first check the default version of cmake if you have previously installed cmake for any other purpose.

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  cmake --version

• if you haven't installed cmake before, it will shows that
  
  Command 'cmake' not found, but can be installed with:
  sudo snap install cmake # version 3.23.1, or
  sudo apt install cmake
  
  then I recommend installing the desired very new version, with the snap

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  sudo snap install cmake --classic #version 3.23.1
  

• if it is below 3.10, we have to find a way to replace this default version with the latest versions. In my case, I followed the steps provided in the following link to do it https://askubuntu.com/questions/355565/ ... mmand-line. Just follow the section A. Using APT Repositories (which is recommended for normal users) . Same I am copying below.

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  sudo apt remove --purge --auto-remove cmake
  sudo apt purge --auto-remove cmake
  

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  sudo apt update && \
  sudo apt install -y software-properties-common lsb-release && \
  sudo apt clean all
  

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  wget -O - https://apt.kitware.com/keys/kitware-archive-latest.asc 2>/dev/null | gpg --dearmor - | sudo tee /etc/apt/trusted.gpg.d/kitware.gpg >/dev/null
  

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  sudo apt-add-repository "deb https://apt.kitware.com/ubuntu/ $(lsb_release -cs) main"
  

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  sudo apt update
  sudo apt install kitware-archive-keyring
  sudo rm /etc/apt/trusted.gpg.d/kitware.gpg
  

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  sudo apt update
  sudo apt install cmake
  

  Now you can check the version again

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  cmake --version

  Hopefully , it should be a latest version.

2. Once, the prerequisites are ready just follow the following steps to build the svFSI

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mkdir svFSI  && cd svFSI
git clone https://github.com/SimVascular/svFSI.git
mkdir build && cd build
ccmake ../svFSI
make

3. Finally to run/test any tutorial test case
first download the test case from svFSI-test repository to any directory where you want to run a case

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git clone https://github.com/SimVascular/svFSI-Tests.git

navigate to any particular case (for eg. svFSI-Tests/04-fluid/02-dye_AD/)

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cd svFSI-Tests/04-fluid/02-dye_AD/

create soft links to the installed svFSI (location might change according to where you have built the code)

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ln -s /home/username/svFSI/build/svFSI-build/bin/svFSI

Now you can run case the in series as

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./svFSI svFSI.inp

or in parallel (for eg. with 8 procs)

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mpirun -np 8 ./svFSI svFSI.inp

In case in the test case, if the preconditioner is Trillinos, you can replace it to FSILS in the .inp file and proceed the run.
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Most of the things are available in the different parts of simvascular and svFSI websites. I have attempted to consolidate things in an orderly manner here.
Also, some of the things are very basic Linux commands, However, I hope this will be useful for someone who is very new to svFSI.
Thanks to Dave, for the responses during my earlier attempts.
Cheers

[David Parker]

Hi Jijo,

Thanks for sharing your knowledge! I'm sure this will be useful for other users.

I will have a look at updating the svFSI build information on the SV website.

Cheers,
Dave

[Krashn Kumar Dwivedi]

Hi Jijo Derick Abraham
It is a really a nice step wise explanation to install the svFSI, I did follow the same step as mentioned by you in SIMTK. But, I am getting error as shown in attached images 1 and 2.
I try to other ways also but not able to resolve these issue. What should I do complete the installation
I am using latest version of cmake 3.25.2

Thank you

[pawan pal]

hello Jijo Derick Abraham sir

i follow all the instruction as share by you it is very help full for all new beginner like me.

sir as i reached at step 2 Once, the prerequisites are ready just follow the following steps to build the svFSI
using this code (mkdir svFSI && cd svFSI
git clone https://github.com/SimVascular/svFSI.git
mkdir build && cd build
ccmake ../svFSI
make) my terminal look like this in image 1

then after downloading tutorial test case form step 3
using series code and parallel code dint not work in image 2 and image 3 i have attached can you please help me out that so i can run svFSI

thanks again

[Jijo Derick Abraham]

Hi Pawan,
From your image_1.png, looks like you haven't proceeded with the configure and generate options in the cmake.
I mean press the "c" key so that it will configure the files and once the configuration is successful, cmake shows the option to generate.
press the "g" key at that time accordingly,

Cheers
Jijo

[pawan pal]

Thank you Jijo Derick Abraham sir