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[OpenFOAM plus] starting problem on mac: "xhost: command not found"

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Old   April 3, 2016, 12:02
Default [OpenFOAM plus] starting problem on mac: "xhost: command not found"
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I followed the installation instruction for OpenFOAM binaries on mac. I followed and completed all the steps and seems all run successfully. Then I got stuck on the following step.

I attempted to run the following command:
Merons-MacBook-Pro:~ ban$ ./startOpenFOAM+

And I get the following message that I do not understand?
./startOpenFOAM+: line 8: xhost: command not found
of_v3.0_plus
bash-4.1$

May be the terminal is expecting me to enter "some command". I don't know what it is expecting or what is wrong.

your help is highly appreciated.

Thanks,
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Old   April 4, 2016, 10:12
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pgh
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Hi..
You have done it right . Enter command blockMesh , to check whether you have openfoam environment set i.e in bash-4.1$ . You can remove line xhost + from startOpenFOAM+ scripts and launch scripts again
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Old   April 6, 2016, 22:07
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I did the following per your suggestion:

I removed the line xhost + from startOpenFOAM+ scripts and launch command again. And then run the command blockMesh at bash-4.1$ terminal and I got the following message:
Build : v3.0+-e941ee6c15e9
Exec : blockMesh
Date : Apr 07 2016
Time : 01:43:39
Host : "cbd5124db144"
PID : 190
Case : /Users/ban
nProcs : 1
sigFpe : Enabling floating point exception trapping (FOAM_SIGFPE).
fileModificationChecking : Monitoring run-time modified files using timeStampMaster
allowSystemOperations : Allowing user-supplied system call operations

// * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * * //
Create time



--> FOAM FATAL IO ERROR:
cannot find file

file: /Users/ban/system/controlDict at line 0.

From function regIOobject::readStream()
in file db/regIOobject/regIOobjectRead.C at line 73.

FOAM exiting

It appears the blockMesh did not run successfully, however, I went ahead and run the following command: "run" per the installation instruction as follows, and I got the following error message:

bash-4.1$ run
bash: cd: /home/docker/OpenFOAM/docker-v3.0+/run: No such file or directory

Still went ahead and run the following command per the install instruction, and again run to Permission denied problem:

bash-4.1$ mkdir -p $FOAM_RUN
mkdir: cannot create directory `/home/docker': Permission denied

Since the blockMesh command did not run clean. There must be some problem or steps I missed.

Please any help is appreciated.

Thanks,
Azaria
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Old   April 7, 2016, 03:41
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pgh
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Hi Azaria
Running BlockMesh was to make sure that you were getting openfoam executables in path . Since you run outside any actual case , it was suppose to throw error.
For permission related issue and other see this thread.(see 1April post by pgh)
http://www.cfd-online.com/Forums/ope...tml#post593444
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Old   April 7, 2016, 22:38
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Dear All,

I tried both options but I run to the old problem "Permission Denied". Below is the message I get.

Merons-MacBook-Pro:~ ban$ docker-machine ssh default $HOME/installOpenFOAM+ $HOME
sh: /Users/ban/installOpenFOAM+: Permission denied
exit status 126

My problem circles back to the original problem I started with.

Thanks,
Azaria
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Old   April 7, 2016, 23:09
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Dear All:

I have comeback to this problem again:

Merons-MacBook-Pro:~ ban$ ./startOpenFoam+
of_v3.0_plus
bash-4.1$ mkdir -p $FOAM_RUN
mkdir: cannot create directory `/home/docker': Permission denied
bash-4.1$

I must be missing some thing here. I cannot get past this point.

Thanks,
Bereket
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Old   April 8, 2016, 03:29
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Problem :

Issue : sh: /Users/ban/installOpenFOAM+: Permission denied
exit status 126

i) Make the install script executable chmod +x installOpenFOAM+

ii) mkdir -p $FOAM_RUN . Will not work directly . (Use attached script and follow instruction to install and use openfoam

Here is the solution :
i) Open the docker terminal via clicking on "Docker Quick Start" short cut .
ii) Delete old container: docker rm -f of_v3.0_plus
iii)Open installOpenFOAM_MAC scripts (attached here. unzip it before using )
in line 25, replace strings NAME with your user name as appears in mac i.e /Users/Name to /Users/alex assuming alex is user name
iv) run installOpenFOAM_MAC script as done earlier i.e
docker-machine ssh default $HOME/installOpenFOAM_MAC $HOME
v) Now run startOpenFOAM.sh script (http://openfoam.com/download/install-binary.php)
and you will be login as root.
vi) run following command to login as ofuser
su ofuser
Always work as ofuser to work on OpenFOAM

vii) Go inside the folder /home/ofuser/workingDir and follow following steps
a) mkdir OpenFOAM/ofuser-v3.0+/run
b) cd ..
c)ln -s workingDir/OpenFOAM (creating soft link to OpenFOAM/ofuser-v3.0+)

You can copy tutorial in /home/ofuser/workingDir
cd
/home/ofuser/workingDir
cp -ar $FOAM_TUTORIALS/incompressible/icoFoam/cavity .
run tutorial

Note: Please note that all changes inside container will be lost once you delete the container by command "docker rm -f contName" except content in /home/ofuser/workingDir . So if you are making changes in /opt/OpenFOAM better be careful .


Attached Files
File Type: gz installOpenFOAM_MAC.gz (642 Bytes, 38 views)
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Old   April 8, 2016, 21:17
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I managed to follow the instruction up until step vi as shown below but again I could not create the "OpenFOAM/ofuser-v3.0+/run" directory. See below the error message

Merons-MacBook-Pro:~ ban$ ./startOpenFOAM+
of_v3.0_plus
bash-4.1# su ofuser
[ofuser@c00e0cd0d15c ~]$ ls
workingDir
[ofuser@c00e0cd0d15c ~]$ cd workingDir
[ofuser@c00e0cd0d15c workingDir]$ mkdir OpenFOAM/ofuser-v3.0+/run
mkdir: cannot create directory `OpenFOAM/ofuser-v3.0+/run': No such file or directory
[ofuser@c00e0cd0d15c workingDir]$ mkdir OpenFOAM
mkdir: cannot create directory `OpenFOAM': Permission denied
[ofuser@c00e0cd0d15c workingDir]$

Your help is appreciated.

Thanks,
Azaria
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Old   April 9, 2016, 06:05
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pgh
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go inside folder

cd /home/ofuser/workingDir

and then follow steps. workingDir is same as C:\Users\ban . Even if permission is denied . change permission of folder
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Old   April 10, 2016, 14:32
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I am in the workingDir but still I run into the same problem "Permission Denied". See below:

[ofuser@c00e0cd0d15c workingDir]$ mkdir OpenFOAM
mkdir: cannot create directory `OpenFOAM': Permission denied
[ofuser@c00e0cd0d15c workingDir]$

The directory has the permission to rwx. See below:

[ofuser@c00e0cd0d15c workingDir]$ cd ..
[ofuser@c00e0cd0d15c ~]$ ls
workingDir
[ofuser@c00e0cd0d15c ~]$ ls -l
total 0
drwxr-xr-x 1 1000 ftp 1054 Apr 9 00:40 workingDir

Can any one tell me why I am having "Permission Denied" error message. I as user have read, write and execute privilege.

Thanks,
Azaria





[ofuser@c00e0cd0d15c ~]$
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Old   April 11, 2016, 04:05
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I am assuming , you are inside this directory /home/ofuser/workingDir
and then you are being denied permission . Please do ls -lhtr inside directory.
You can login as root (password : 0fuser2015) and change permission of directory
chmod 750 workingDir . See if this works for you
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Old   May 5, 2016, 21:10
Default Exact Same Problem
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Hey, I am having the exact same problem and am pretty new to programming in general.

I followed your steps verbatim and this is what I got:

[root@eba8e7f5a175 workingDir]# whoami
root
[root@eba8e7f5a175 workingDir]# pwd
/home/ofuser/workingDir
[root@eba8e7f5a175 workingDir]# chmod 750 workingDir
chmod: cannot access `workingDir': No such file or directory
[root@eba8e7f5a175 workingDir]#

I'm running on el Capitan, my professor is too, and we're both having permissions issues. Any help would be greatly appreciated
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Old   May 6, 2016, 08:21
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Hi .. use this script and it should work fine .

i)delete old container
docker rm -f of_v3.0_plus

ii) run new script attached here (unzip the script first)
Please place script in home folder and then run command from docker terminal as

docker-machine ssh default $HOME/installOpenFOAM+ $HOME


It will login as docker user and you can run openfoam and there will be no permission issue
Also you can login as root now . password for root : 0fuser2015

Let me know if it works or you face any issue
Attached Files
File Type: gz installOpenFOAM_MAC_pgh.gz (677 Bytes, 13 views)

Last edited by pgh; May 6, 2016 at 08:23. Reason: file attached now
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Old   May 6, 2016, 08:27
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Thats great!

I managed to make a new directory as root,
mkdir -p $FOAM_RUN

But I am using socat to watch for my DISPLAY variable, and I am unsure of which IP it needs.

Is there a command I can type into docker that will show me this?

I want to make a variable, export DISPLAY=xxx.xxx.xx.x:x
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Old   May 6, 2016, 08:53
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i)You do not need root permission to run this command

mkdir -p $FOAM_RUN

can you please delete that folder and again run same command as normal user (no root)

ii) DISPLAY variable was removed from my script ..Please in line docker run etc as shown below
add this variable and rerun the script after deleting the container

docker run -ti -d .... -e DISPLAY=${displayVar} --workdir

(When you launch docker terminal box , the ip is shown that time .

Message read something like this ..

"docker is configured to use the default machine with IP 192.169.99.100" "
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Old   May 6, 2016, 09:27
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Great thanks I just ran the cavity simulation
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Old   May 6, 2016, 09:33
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Hi
Can you confirm this
do you need to login as root to run command , mkdir -p $FOAM_RUN or
you were able run as normal user i.e docker
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Old   May 6, 2016, 09:36
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Yes this is the last issue I have...

I have to be root. I have made: su ofuser ...but he cannot make that directory. Maybe its an el Capitan issue?
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Old   May 6, 2016, 09:37
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And likewise the user: docker can't do it either.
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Old   May 6, 2016, 09:43
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That's strange..
In my case, i can login as docker user directly . and then can type this command i.e mkdir -p $FOAM_RUN which make OpenFOAM/docker-v3.0+ folder in /C/Users i.e in home directory..

Can you do echo $FOAM_RUN and send the output
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