how to start first case

[DSDS-CMHL]

[pkarnakov]

After setting up the environment with . ap.setenv, try running one of the examples examples/202_coalescence.

make m="64 64 64" np=1 run 

This will run the case on a mesh of 64^3 cells and 1 processor. See Makefile for a description of parameters. I plan to write a small tutorial, please let me know if the command above works for you.

[DSDS-CMHL]

After setting up the environment with . ap.setenv, try running one of the examples examples/202_coalescence.

make m="64 64 64" np=1 run 

This will run the case on a mesh of 64^3 cells and 1 processor. See Makefile for a description of parameters. I plan to write a small tutorial, please let me know if the command above works for you.

Thanks for your reply, Dr.pkarnakov, I will try that. By the way, I am a phd candidate majoring in fluid mechanics, this is my first year. Your work is amazing, I hope I could learn from you.

[DSDS-CMHL]

After setting up the environment with . ap.setenv, try running one of the examples examples/202_coalescence.

make m="64 64 64" np=1 run 

This will run the case on a mesh of 64^3 cells and 1 processor. See Makefile for a description of parameters. I plan to write a small tutorial, please let me know if the command above works for you.

Hello，Dr. Karnakov , I have tried as your suggested, I trust that I have moved forward, but there is still some problem, I am trying to solve it, the ap.mfer has error : while loading shared libraries: libmpi.12.so. I checked my pc, the file libmpi.12.so exist in /usr/lib/linux-gnu and anaconda3 files. There must be some problem when I build the source code,so aphros is not acess to openmpi libs.

[pkarnakov]

You can try building without MPI,

cd src/build
cmake -DUSE_MPI=0 -DUSE_HDF=0 -DUSE_BACKEND_CUBISM=0 -DUSE_HYPRE=0 .
make
make install

Then to run the case, you will need to change the backend and the linear solver

cd examples/202_coalescence
echo "set string backend native
set string linsolver_symm conjugate
" > add.conf
make m="64 64 64" np=1 run 

[DSDS-CMHL]

Hi, doctor. I tried to build without MPI, and run the case as you suggested, But there are some other problems.

Then I download the .zip source code aphros-master, And I build aphros in standard process which was written in /deploy/readme.md and the github page, this time I run the case and open the VTK files in paraview successfully.

Before that I uninstall the anaconda3 and remove it from my path environment. And I'm sure that I followed the recommend process every time I build aphros. So maybe when the file: libmpi.12.so exists in two different directories may cause some problem or the .zip source code is different from git clone. Personally, I think the latter is less likely.

Thanks for your time again,doctor Karnakov. That's really help a lot.

[liyuhan930]

Hi, Dr. Karnakov. When I input "make m="64 64 64" np=1 run ", it always display "make: *** No rule to make target 'run'. Stop" on the terminal. How to solve it? I hope I could learn from you.

[pkarnakov]

Hi, Dr. Karnakov. When I input "make m="64 64 64" np=1 run ", it always display "make: *** No rule to make target 'run'. Stop" on the terminal. How to solve it? I hope I could learn from you.

Before running any simulations, you need to setup the environment by

. ap.setenv

(make sure that ~/.local/bin/ap.setenv exists)

[liyuhan930]

Thanks, but I have got "ap.setenv" in ~/.local/bin/. This question still exists.

[pkarnakov]

Then if you run

. ap.setenv

it should print something like

APHROS_SETENV=1
APHROS_PREFIX=/home/...
APHROS_PROFILE=default

[WQ199806]

Hi, Dr. Karnakov. In [examples/202_coalescence]. When I run . ap.setenv it will print the environment APHROS_SETENV=1 APHROS_PREFIX=/home/... APHROS_PROFILE=default When I input "make m="64 64 64" np=1 run ", it always display make: ap.makesim: Command not found make: *** No rule to make target 'run'. Stop on the terminal.

I have built a Docker container and run the examples_202_coalescence successfully. So far, I have not been able to successfully build the "Aphros" in my system. I would be grateful/thankful if you could tell me how to solve it. I would appreciate your help.

[pkarnakov]

the two commands have to be run in the same session, apparently you do separate docker runs for each command,

how about something like:

. ap.setenv ; make m="64 64 64" np=1 run 

[WQ199806]

Hi, Dr. Karnakov. I tried your suggestion, but the results didn't change. It is still printed: APHROS_SETENV=1 APHROS_PREFIX=/home/... APHROS_PROFILE=default make: ap.makesim: Command not found make: *** No rule to make target 'run'. Stop I built the "Aphros" following the standard process of /deploy/readme.md.

[pkarnakov]

can you show the output of

. ap.setenv
echo "${APHROS_PREFIX}"
ls "${APHROS_PREFIX}/bin"

[WQ199806]

run . ap.setenv output APHROS_SETENV=1 APHROS_PREFIX=/home/wq/.local/aphros APHROS_PROFILE=default run echo "${APHROS_PREFIX}" output /home/wq/.local/aphros run ls "${APHROS_PREFIX}/bin" output ap.setenv

[pkarnakov]

${APHROS_PREFIX}/bin is supposed to contain more files, can you go to deploy/build and show the output of make install ?

[WQ199806]

Hi, Dr. Karnakov. I re-installed Aprhos after yesterday's discussion. This time I managed to run the examples_202_coalescence. Unlike my previous installation, I copied the ap.setenv file to the [/usr/local/bin/] directory.This allowed me to successfully set up the environment. run . ap.setenv output APHROS_SETENV=1 APHROS_PREFIX=/home/wq/Documents/aphros/deploy/PREFIX APHROS_PROFILE=default

This time when I run the command. echo "${APHROS_PREFIX}" ; ls "${APHROS_PREFIX}/bin" output ap.aconf ap.findsource ap.job ap.scale ap.applycopyright ap.format ap.job0 ap.setenv ap.argmax ap.genxmf ap.kedr ap.sim_base.makefile ap.argmaxall ap.genxmfall ap.kill ap.spawn ap.base ap.getcol ap.line ap.statcopy ap.cawk ap.gettraj ap.makearg ap.submit ap.conf2py ap.gettrajcol ap.makesim ap.submit0 ap.copyright ap.gettrajm ap.mfer ap.sysinfo ap.create_a_conf ap.gettrajsh ap.mpirun ap.task ap.create_base_conf ap.getval ap.order ap.trajaxes ap.deriv ap.gitsnap ap.part ap.vtkcolorall ap.diff ap.hausdorff ap.part0 ap.writearg ap.diffnum ap.hist ap.plain2vtk paratools ap.downsample ap.histbin ap.pngmp4 plottools ap.downsampleall aphros ap.run t.advection ap.explorer ap.intcol ap.run0 t.embed_interpolate

I‘m truly greatful for your help!

[liyuhan930]

Hi, Dr. Karnakov. I re-installed Aprhos after yesterday's discussion. This time I managed to run the examples_202_coalescence. Unlike my previous installation, I copied the ap.setenv file to the [/usr/local/bin/] directory.This allowed me to successfully set up the environment. run . ap.setenv output APHROS_SETENV=1 APHROS_PREFIX=/home/wq/Documents/aphros/deploy/PREFIX APHROS_PROFILE=default

This time when I run the command. echo "${APHROS_PREFIX}" ; ls "${APHROS_PREFIX}/bin" output ap.aconf ap.findsource ap.job ap.scale ap.applycopyright ap.format ap.job0 ap.setenv ap.argmax ap.genxmf ap.kedr ap.sim_base.makefile ap.argmaxall ap.genxmfall ap.kill ap.spawn ap.base ap.getcol ap.line ap.statcopy ap.cawk ap.gettraj ap.makearg ap.submit ap.conf2py ap.gettrajcol ap.makesim ap.submit0 ap.copyright ap.gettrajm ap.mfer ap.sysinfo ap.create_a_conf ap.gettrajsh ap.mpirun ap.task ap.create_base_conf ap.getval ap.order ap.trajaxes ap.deriv ap.gitsnap ap.part ap.vtkcolorall ap.diff ap.hausdorff ap.part0 ap.writearg ap.diffnum ap.hist ap.plain2vtk paratools ap.downsample ap.histbin ap.pngmp4 plottools ap.downsampleall aphros ap.run t.advection ap.explorer ap.intcol ap.run0 t.embed_interpolate

I‘m truly greatful for your help!

Hi, bro! Shall we communicate in Chinese? 兄弟，你是中国人吗？我们可以用汉语交流吗？

[DSDS-CMHL]

@liyuhan930 @WQ199806 qq group 1020830956

[SaumiliJana]

Hi! I have been able to install aphros and run a few examples successfully. I wanted to do a scaling study of the example ‘clustering’ in the ‘205_multivof’ example directory. What all parameters should I change or take care of to change the number of processors keeping other parameters such as mesh size, resolution, etc same? Also how to change the size of the box in which the bubbles are risisng? Any help would be realy appreciated. Thanks