[Helyx OS] OpenFOAM 4.1 and 6 are not being picked up by Helyx-OS

AIf1 · August 13, 2019, 05:31

Quote:

Originally Posted by wyldckat

Quick answer: I've finally tested building OpenFOAM 4.x on Ubuntu 18.04 and the instructions are now available here: https://openfoamwiki.net/index.php/I...u#Ubuntu_18.04

The fix needed for building ParaView can be applied with this command:

Code:

sed -ibck -e 's/\[3456\]/[34567]/' ParaView-5.0.1/VTK/CMake/{GenerateExportHeader,vtkCompilerExtras}.cmake

Thanks to this post indicating that we can still build the old ParaView 5.0.1 with GCC 7:

This way it's not necessary to use an older GCC version

Hi. Thanks for the valuable guide. I have installed ubuntu 18.04 and OF6. Then after linking to HelyxOs i tried to mesh a box. But i get blockmesh not found error. Been redoing installation for past 2 days but keep getting same error

wyldckat · August 15, 2019, 18:52

Quote:

Originally Posted by AIf1

Then after linking to HelyxOs i tried to mesh a box. But i get blockmesh not found error. Been redoing installation for past 2 days but keep getting same error

Quick questions:

Go to the command line, activate the OpenFOAM environment you built/installed and then run:
Code:
```
blockMesh
```
the "M" must be upper case. Does it still give you the same error message?
If it's a matter of configuring Helyx-OS, then go to the menu Edit -> Preferences and configure the paths to the installation folders where OpenFOAM and ParaView are installed at. Take a look at the installation instructions given here: https://openfoamwiki.net/index.php/I...tu_16.04_64bit - look at steps #11 and #12. You can find the installation path to ParaView by running this command:
Code:
```
which paraview
```

AIf1 · August 15, 2019, 22:41

Hi. Thanks for replying. I can execute blockMesh command in terminal without error. I have tried the path locations more than 7 times, but same error. PV can be launched easily by clicking PV button in helyx os. Tried ubuntu 18 earlier with Of6 and now ubuntu 16 with Of41. Same error. My ubuntu is on Oracle virtual box.
Last year i did not have problem at all using helyx os, but i was not using Virtual box. (Old laptop corrupted disk and i hate to dual boot nowadays.)

wyldckat · August 25, 2019, 07:34

Quick questions:

Which installation instructions did you follow to install OpenFOAM 6?
Which installation instructions did you follow to install Helyx-OS?

AIf1 · August 26, 2019, 06:57

Quote:

Originally Posted by wyldckat

Quick questions:

Which installation instructions did you follow to install OpenFOAM 6?
Which installation instructions did you follow to install Helyx-OS?

For helyx-os http://engys.github.io/HELYX-OS/installation/

For of6 https://openfoamwiki.net/index.php/I...u#Ubuntu_18.04

For of41 https://openfoamwiki.net/index.php/I...u#Ubuntu_16.04

wyldckat · August 26, 2019, 16:17

Quick question: With your OpenFOAM 4.1 installation active, namely after you run:

Code:

of41

what does the following command give you?

Code:

which blockMesh

For example, for me it gives something like this:

Code:

/home/ofuser/OpenFOAM/OpenFOAM-4.1/platforms/linux64GccDPInt32Opt/bin/blockMesh

Then I use the following path:

Code:

/home/ofuser/OpenFOAM/OpenFOAM-4.1

in Helyx-OS, namely in the "Paths -> Core Folder" text entry.

AIf1 · August 27, 2019, 06:22

as attached. Same core folder has been chosen all this while. Yet same error blockMesh command not found when i click create mesh in Helyx-os.
Thanks for looking into this.

wyldckat · August 27, 2019, 17:13

Quick answer: OK, now I have all of the necessary pieces... the detail is that you built with 64-bit labels, by using an activation command such as this:

Code:

source $HOME/OpenFOAM/OpenFOAM-4.x/etc/bashrc WM_LABEL_SIZE=64 FOAMY_HEX_MESH=yes

This is because this makes it easier to have multiple builds of OpenFOAM for the same version, without having to edit files.

The problem is that this command activates these options without modifying any configuration files, but Helyx-OS relies on the configuration being written to the respective files.

There are a few ways to fix this in a way that is consistent with Helyx-OS, but the simplest is to do the following commands:

Code:

of41
foam
echo "export WM_LABEL_SIZE=64" > etc/prefs.sh
echo "export FOAMY_HEX_MESH=yes" >> etc/prefs.sh

Explanation: These commands will create a file named "prefs.sh" inside of the folder "OpenFOAM-4.1/etc", with the following lines:

Code:

export WM_LABEL_SIZE=64
export FOAMY_HEX_MESH=yes

This file "prefs.sh" is called by OpenFOAM's "etc/bashrc".

Similarly, you can do the same for the OpenFOAM 6 installation.

If you had built the 32-bit labels version, you would not have had this issue...

Keep in mind that 64-bit labels are only needed when you have reaaaaally big meshes, namely with a number of cells/faces/points that goes beyond 2 to the power of 31.

AIf1 · August 28, 2019, 01:26

Thank you. That worked! You are superman!

The 64 bit was following step 7 uname -m which prompted me towards that 64bit.
(My last year's laptop was old one using 32bit hence never had any problem until the disk corrupted).

August 25, 2019, 07:34		#4
wyldckat Retired Super Moderator Bruno Santos Join Date: Mar 2009 Location: Lisbon, Portugal Posts: 10,975 Blog Entries: 45 Rep Power: 128	Quick questions: Which installation instructions did you follow to install OpenFOAM 6? Which installation instructions did you follow to install Helyx-OS? __________________ OpenFOAM: FAQ \| Getting started Forum: How to get help, to post code/output and forum guide Read this before sending me PM

August 26, 2019, 16:17		#6
wyldckat Retired Super Moderator Bruno Santos Join Date: Mar 2009 Location: Lisbon, Portugal Posts: 10,975 Blog Entries: 45 Rep Power: 128	Quick question: With your OpenFOAM 4.1 installation active, namely after you run: Code: of41 what does the following command give you? Code: which blockMesh For example, for me it gives something like this: Code: /home/ofuser/OpenFOAM/OpenFOAM-4.1/platforms/linux64GccDPInt32Opt/bin/blockMesh Then I use the following path: Code: /home/ofuser/OpenFOAM/OpenFOAM-4.1 in Helyx-OS, namely in the "Paths -> Core Folder" text entry.

August 27, 2019, 17:13		#8
wyldckat Retired Super Moderator Bruno Santos Join Date: Mar 2009 Location: Lisbon, Portugal Posts: 10,975 Blog Entries: 45 Rep Power: 128	Quick answer: OK, now I have all of the necessary pieces... the detail is that you built with 64-bit labels, by using an activation command such as this: Code: source $HOME/OpenFOAM/OpenFOAM-4.x/etc/bashrc WM_LABEL_SIZE=64 FOAMY_HEX_MESH=yes This is because this makes it easier to have multiple builds of OpenFOAM for the same version, without having to edit files. The problem is that this command activates these options without modifying any configuration files, but Helyx-OS relies on the configuration being written to the respective files. There are a few ways to fix this in a way that is consistent with Helyx-OS, but the simplest is to do the following commands: Code: of41 foam echo "export WM_LABEL_SIZE=64" > etc/prefs.sh echo "export FOAMY_HEX_MESH=yes" >> etc/prefs.sh Explanation: These commands will create a file named "prefs.sh" inside of the folder "OpenFOAM-4.1/etc", with the following lines: Code: export WM_LABEL_SIZE=64 export FOAMY_HEX_MESH=yes This file "prefs.sh" is called by OpenFOAM's "etc/bashrc". Similarly, you can do the same for the OpenFOAM 6 installation. If you had built the 32-bit labels version, you would not have had this issue... Keep in mind that 64-bit labels are only needed when you have reaaaaally big meshes, namely with a number of cells/faces/points that goes beyond 2 to the power of 31. __________________ OpenFOAM: FAQ \| Getting started Forum: How to get help, to post code/output and forum guide Read this before sending me PM

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August 15, 2019, 22:41		#3
AIf1 New Member AIf1 Join Date: Aug 2019 Posts: 5 Rep Power: 6	Hi. Thanks for replying. I can execute blockMesh command in terminal without error. I have tried the path locations more than 7 times, but same error. PV can be launched easily by clicking PV button in helyx os. Tried ubuntu 18 earlier with Of6 and now ubuntu 16 with Of41. Same error. My ubuntu is on Oracle virtual box. Last year i did not have problem at all using helyx os, but i was not using Virtual box. (Old laptop corrupted disk and i hate to dual boot nowadays.)

August 28, 2019, 01:26		#9
AIf1 New Member AIf1 Join Date: Aug 2019 Posts: 5 Rep Power: 6	Thank you. That worked! You are superman! The 64 bit was following step 7 uname -m which prompted me towards that 64bit. (My last year's laptop was old one using 32bit hence never had any problem until the disk corrupted).