Re: [OMPI users] Issue with Running MPI Job on CentOS 7

[Jeff Squyres (jsquyres) via users]

I have seen the "pipe" error message when MPI applications do not call 
MPI_Finalize() before exiting.  I don't know what your application is doing, 
but it might be worth checking that if you call MPI_Init(), you must call 
MPI_Finalize().

You can also try the sample MPI applications in the "examples" directory.

From: 深空探测 
Sent: Tuesday, June 13, 2023 8:59 PM
To: Open MPI Users 
Cc: John Hearns ; Jeff Squyres (jsquyres) 
; gilles.gouaillar...@gmail.com 
; t...@pasteur.fr 
Subject: Re: [OMPI users] Issue with Running MPI Job on CentOS 7

Hello,

As you mentioned before, I was initially puzzled by the inability to generate 
the libmpicxx.so.12 and libmpi.so.12 files after installing OpenMPI. When I 
attempted to run the command "mpirun -H wude,wude mpispeed 1000 10s 1," I 
received the following error message:

mpispeed: error while loading shared libraries: libmpicxx.so.12: cannot open 
shared object file: No such file or directory

Initially, I had installed mpich-4.0.3, but I have since uninstalled it and 
reinstalled openmpi-1.6.5. However, even with the new installation, I 
encountered the same issue where it still required the libmpicxx.so.12 file to 
be loaded. I suspect that there might have been some remnants from the previous 
installation that were not completely removed.

I conducted a fresh installation of openmpi-1.6.5 on another system, using the 
--enable-mpi-cxx flag added to the ./configure command to enable the C++ 
bindings in Open MPI. After successfully installing openmpi-1.6.5, I ran the 
program again with the command "mpirun -H localhost,localhost mpispeed 1000 10s 
1 | head" and it executed successfully on both nodes. My username is "wude," 
and the displayed results were as follows:

Processor = wude
Rank = 0/2
[0] Starting
Processor = wude
Rank = 1/2
[1] Starting
[0] Sent 0 -> 0
[0] Sent 1 -> 0
[0] Sent 2 -> 0
[0] Sent 3 -> 0
[wude:109888] mpirun: SIGPIPE detected on fd 13 - aborting
mpirun: killing job...

However, I am unsure if the message "mpirun: killing job..." is considered a 
normal occurrence.

In conclusion, the root cause of the issue was the interference between the 
previously installed MPICH and the subsequent installation of OpenMPI, as you 
suggested. It is possible that mpirun and libmpi.so originated from different 
vendors and/or significantly different versions.

I would like to express my sincere appreciation for your patient assistance 
throughout this troubleshooting process. Your guidance has been invaluable in 
helping me understand and resolve the challenges I encountered.

Thank you once again for your support.

Best regards,
De Wu

John Hearns via users 
mailto:users@lists.open-mpi.org>> 于2023年6月13日周二 
14:13写道：
You talk about adjusting your PATH and LD_LIBRARY_PATH in your .bashrc   Jeff 
Squyres has given you some guidance on this.
Please investigate the following.
It is common to use Modules in an HPC environment  
https://www.admin-magazine.com/HPC/Articles/Lmod-Alternative-Environment-Modules

For compiling software packages and creating Modules files investigate these 
frameworks:
https://spack.io/
https://easybuild.io/



On Mon, 12 Jun 2023 at 22:44, Jeff Squyres (jsquyres) via users 
mailto:users@lists.open-mpi.org>> wrote:
Your steps are generally correct, but I cannot speak for whether your 
/home/wude/.bashrc file is executed for both non-interactive and interactive 
logins.  If /home/wude is your $HOME, it probably is, but I don't know about 
your specific system.

Also, you should be aware that MPI applications built with Open MPI v1.6.x will 
not be ABI compatible with Open MPI v4.1.x.  Specifically: you will need to 
re-compile / re-build your "mpispeed" application with Open MPI v4.1.x.

If you are using the MPI C++ bindings in your application:

  1.  I suggest you migrate away from them, because the MPI Forum (i.e., the 
standards body that governs the MPI API) removed the C++ bindings in version 
3.0 of the MPI specification in 2012 -- over a decade ago.
  2.  That being said, the C++ bindings are still available in Open MPI v4.1.x 
-- they're just not built and installed by default (frankly, to discourage 
their use).  You can enable the C++ bindings in Open MPI 4.1.x with by adding 
--enable-mpi-cxx to the ./configure command that you use to build Open MPI.  
You will need to have a C++ compiler present to build and install the C++ 
bindings.

Also note that in Open MPI, the C++ bindings library is named "libmpi_cxx.so", 
not "libmpicxx.so" (I checked both Open MPI v1.6.5 and 4.1.5).  If your MPI 
executable is dependant upon a file named "libmpicxx.so", then, as Gilles 
mentioned earlier in this thread, you might accidentally be mixing the 
libraries between two different implmenetations of MPI (e.g., Open MPI and 
MPICH are two entirely different impleme

Re: [OMPI users] Issue with Running MPI Job on CentOS 7

[John Hearns via users]

;> Also note that in Open MPI, the C++ bindings library is named
>>> "libmpi_cxx.so", not "libmpicxx.so" (I checked both Open MPI v1.6.5 and
>>> 4.1.5).  If your MPI executable is dependant upon a file named
>>> "libmpicxx.so", then, as Gilles mentioned earlier in this thread, you might
>>> accidentally be mixing the libraries between two different implmenetations
>>> of MPI (e.g., Open MPI and MPICH are two entirely different implementations
>>> of the same MPI API.  They are written and maintained by different sets of
>>> people, and are not binary compatible with each other).
>>>
>>> If you'e just starting out in MPI, I'd strongly suggest ensuring that
>>> your system has exactly 1 implementation of MPI installed (e.g., Open MPI
>>> v4.1.5).  Ensure that no other versions of Open MPI or MPICH -- or any
>>> other MPI implementation -- are installed.  That way, you can avoid
>>> confusing issues with libraries that are similar-but-different, ... etc.
>>>
>>>
>>> --
>>> *From:* users  on behalf of 深空探测 via
>>> users 
>>> *Sent:* Sunday, June 11, 2023 11:28 AM
>>> *To:* Open MPI Users 
>>> *Cc:* 深空探测 
>>> *Subject:* Re: [OMPI users] Issue with Running MPI Job on CentOS 7
>>>
>>> Subject: Open MPI Installation Issues
>>>
>>> Hello,
>>>
>>> Despite following your previous suggestions, I am still encountering
>>> some problems. Below, I have outlined the specific challenges I am facing:
>>>
>>> 1. Installation with Updated Open MPI Version:
>>> I attempted to install the latest version of Open MPI (v4.1.5) using the
>>> following steps:
>>> - Downloaded the package from
>>> https://download.open-mpi.org/release/open-mpi/v4.1/openmpi-4.1.5.tar.gz
>>> .
>>> - Executed the installation commands:
>>>   ./configure --prefix=/usr/local/openmpi
>>>   make
>>>   sudo make install
>>> - Added the environment variables to the "/home/wude/.bashrc" file:
>>>   export PATH=/usr/local/openmpi/bin:$PATH
>>>   export LD_LIBRARY_PATH=/usr/local/openmpi/lib:$LD_LIBRARY_PATH
>>> - Ran the command: source /home/wude/.bashrc
>>>
>>> Could you please verify if these installation steps are correct?
>>>
>>> 2. Missing "libmpicxx.so.12" file after Open MPI 1.6.5 installation:
>>> After reinstalling Open MPI 1.6.5, I noticed the existence of the
>>> "mpirun" executable file in the "/usr/local/openmpi/bin" directory, as well
>>> as the "libmpi.so" file in the "/usr/lib" directory. However, when I
>>> executed the command "mpirun -n 2 -H wude,wude mpispeed 1000 10s 1", an
>>> error occurred: "mpispeed: error while loading shared libraries:
>>> libmpicxx.so.12: cannot open shared object file: No such file or
>>> directory". It seems that the "libmpicxx.so.12" file was not generated
>>> during the installation process. Could you please help me identify the
>>> cause of this issue?
>>>
>>> 3. Missing "libmpixcc.so.12" file in CentOS 7 default Open MPI
>>> installation:
>>> In case I install the Open MPI version provided by CentOS 7 using the
>>> command "sudo yum install openmpi-devel.x86_64", I encountered a similar
>>> problem. Even after installation, I cannot find the "libmpixcc.so.12" file.
>>> It appears that the "/usr/lib64/openmpi/lib" directory does not contain any
>>> files related to "libmpixcc". Could you kindly advise on this matter?
>>>
>>> I greatly appreciate your time and assistance in resolving these issues.
>>> Thank you in advance for your support.
>>>
>>> Best regards,
>>> De Wu
>>>
>>> Zhéxué M. Krawutschke via users  于2023年6月1日周四
>>> 20:32写道：
>>>
>>> Hello together,
>>>
>>> regardless that CentOS 7.X already has EOL status,
>>> I would recommend, for example, that you always build/compile OpenMPI
>>> and the other tools yourself
>>> compile OpenMPI and the other tools to one's needs.
>>>
>>> It is true that it is more effort, but in the end it pays off, because
>>> the
>>> distributions are sometimes very behind.
>>>
>>> I have already thought about providing something like this, how to do it
>>> or how to make the whole process available

Re: [OMPI users] Issue with Running MPI Job on CentOS 7

[深空探测 via users]

t; v4.1.5).  Ensure that no other versions of Open MPI or MPICH -- or any
>> other MPI implementation -- are installed.  That way, you can avoid
>> confusing issues with libraries that are similar-but-different, ... etc.
>>
>>
>> --
>> *From:* users  on behalf of 深空探测 via
>> users 
>> *Sent:* Sunday, June 11, 2023 11:28 AM
>> *To:* Open MPI Users 
>> *Cc:* 深空探测 
>> *Subject:* Re: [OMPI users] Issue with Running MPI Job on CentOS 7
>>
>> Subject: Open MPI Installation Issues
>>
>> Hello,
>>
>> Despite following your previous suggestions, I am still encountering some
>> problems. Below, I have outlined the specific challenges I am facing:
>>
>> 1. Installation with Updated Open MPI Version:
>> I attempted to install the latest version of Open MPI (v4.1.5) using the
>> following steps:
>> - Downloaded the package from
>> https://download.open-mpi.org/release/open-mpi/v4.1/openmpi-4.1.5.tar.gz.
>> - Executed the installation commands:
>>   ./configure --prefix=/usr/local/openmpi
>>   make
>>   sudo make install
>> - Added the environment variables to the "/home/wude/.bashrc" file:
>>   export PATH=/usr/local/openmpi/bin:$PATH
>>   export LD_LIBRARY_PATH=/usr/local/openmpi/lib:$LD_LIBRARY_PATH
>> - Ran the command: source /home/wude/.bashrc
>>
>> Could you please verify if these installation steps are correct?
>>
>> 2. Missing "libmpicxx.so.12" file after Open MPI 1.6.5 installation:
>> After reinstalling Open MPI 1.6.5, I noticed the existence of the
>> "mpirun" executable file in the "/usr/local/openmpi/bin" directory, as well
>> as the "libmpi.so" file in the "/usr/lib" directory. However, when I
>> executed the command "mpirun -n 2 -H wude,wude mpispeed 1000 10s 1", an
>> error occurred: "mpispeed: error while loading shared libraries:
>> libmpicxx.so.12: cannot open shared object file: No such file or
>> directory". It seems that the "libmpicxx.so.12" file was not generated
>> during the installation process. Could you please help me identify the
>> cause of this issue?
>>
>> 3. Missing "libmpixcc.so.12" file in CentOS 7 default Open MPI
>> installation:
>> In case I install the Open MPI version provided by CentOS 7 using the
>> command "sudo yum install openmpi-devel.x86_64", I encountered a similar
>> problem. Even after installation, I cannot find the "libmpixcc.so.12" file.
>> It appears that the "/usr/lib64/openmpi/lib" directory does not contain any
>> files related to "libmpixcc". Could you kindly advise on this matter?
>>
>> I greatly appreciate your time and assistance in resolving these issues.
>> Thank you in advance for your support.
>>
>> Best regards,
>> De Wu
>>
>> Zhéxué M. Krawutschke via users  于2023年6月1日周四
>> 20:32写道：
>>
>> Hello together,
>>
>> regardless that CentOS 7.X already has EOL status,
>> I would recommend, for example, that you always build/compile OpenMPI and
>> the other tools yourself
>> compile OpenMPI and the other tools to one's needs.
>>
>> It is true that it is more effort, but in the end it pays off, because the
>> distributions are sometimes very behind.
>>
>> I have already thought about providing something like this, how to do it
>> or how to make the whole process available in an automated way, so to speak.
>>
>>
>> If someone would like to help me develop this, I would be very happy.
>> Kind regards from Berlin
>>
>> Z. Matthias
>>
>> --
>> Sent from Canary <https://canarymail.io>
>>
>> On Donnerstag, Juni 01, 2023 at 10:11 AM, Tru Huynh via users <
>> users@lists.open-mpi.org> wrote:
>> Hello,
>>
>> A few comments below:
>>
>> On Thu, Jun 01, 2023 at 09:09:32AM +0800, 深空探测 via users wrote:
>> <...>
>>
>>
>> To provide some context, I have successfully installed Open MPI version
>> 1.6.5 on my CentOS 7 system. However, when I attempted to run the command
>> "mpirun -n 2 -H wude,wude mpispeed 1000 10s 1", where "wude" is my
>> hostname, I encountered unexpected results. Instead of running with two
>> processes as intended, it appears that only one process was executed. The
>> output I received is as follows:
>>
>> ...
>> 1) Why not using one of the openmpi versions provided by CentOS-7?
>> $ yum list openmpi\*
>> <...>
>> Available Packages
>> openmpi.i686 1.10.7-5.el7 base
>> openmpi-devel.i686 1.10.7-5.el7 base
>> openmpi.x86_64 1.10.7-5.el7 base
>> openmpi-devel.x86_64 1.10.7-5.el7 base
>> openmpi3.i686 3.1.3-2.el7 base
>> openmpi3.x86_64 3.1.3-2.el7 base
>> openmpi3-devel.i686 3.1.3-2.el7 base
>> openmpi3-devel.x86_64 3.1.3-2.el7 base
>>
>> You have the choice of 1.x series or 3.1.y series..
>> + environment setup are pre-filled for environment-modules.
>>
>> 2) maybe you have one of them installed and conflicting
>> with your self built openmpi 1.6.5 version?
>>
>> 3) CentOS-7 is nearing end-of-life
>>
>> Good luck.
>>
>> Tru
>>
>> --
>> Tru Huynh (PhD) | mailto:t...@pasteur.fr | tel +33 1 45 68 87 37
>> https://research.pasteur.fr/en/team/structural-bioinformatics/
>> Institut Pasteur, 25-28 rue du Docteur Roux, 75724 Paris CEDEX 15 France
>>
>>

Re: [OMPI users] Issue with Running MPI Job on CentOS 7

[John Hearns via users]

You talk about adjusting your PATH and LD_LIBRARY_PATH in your .bashrc
 Jeff Squyres has given you some guidance on this.
Please investigate the following.
It is common to use Modules in an HPC environment
https://www.admin-magazine.com/HPC/Articles/Lmod-Alternative-Environment-Modules

For compiling software packages and creating Modules files investigate
these frameworks:
https://spack.io/
https://easybuild.io/



On Mon, 12 Jun 2023 at 22:44, Jeff Squyres (jsquyres) via users <
users@lists.open-mpi.org> wrote:

> Your steps are generally correct, but I cannot speak for whether your
> /home/wude/.bashrc file is executed for both non-interactive and
> interactive logins.  If /home/wude is your $HOME, it *probably* is, but I
> don't know about your specific system.
>
> Also, you should be aware that MPI applications built with Open MPI v1.6.x
> will not be ABI compatible with Open MPI v4.1.x.  Specifically: you will
> need to re-compile / re-build your "mpispeed" application with Open MPI
> v4.1.x.
>
> If you are using the MPI C++ bindings in your application:
>
>1. I suggest you migrate away from them, because the MPI Forum (i.e.,
>the standards body that governs the MPI API) removed the C++ bindings in
>version 3.0 of the MPI specification in 2012 -- over a decade ago.
>2. That being said, the C++ bindings are still available in Open MPI
>v4.1.x -- they're just not built and installed by default (frankly, to
>discourage their use).  You can enable the C++ bindings in Open MPI 4.1.x
>with by adding --enable-mpi-cxx to the ./configure command that you use to
>build Open MPI.  You will need to have a C++ compiler present to build and
>install the C++ bindings.
>
> Also note that in Open MPI, the C++ bindings library is named
> "libmpi_cxx.so", not "libmpicxx.so" (I checked both Open MPI v1.6.5 and
> 4.1.5).  If your MPI executable is dependant upon a file named
> "libmpicxx.so", then, as Gilles mentioned earlier in this thread, you might
> accidentally be mixing the libraries between two different implmenetations
> of MPI (e.g., Open MPI and MPICH are two entirely different implementations
> of the same MPI API.  They are written and maintained by different sets of
> people, and are not binary compatible with each other).
>
> If you'e just starting out in MPI, I'd strongly suggest ensuring that your
> system has exactly 1 implementation of MPI installed (e.g., Open MPI
> v4.1.5).  Ensure that no other versions of Open MPI or MPICH -- or any
> other MPI implementation -- are installed.  That way, you can avoid
> confusing issues with libraries that are similar-but-different, ... etc.
>
>
> ------------------
> *From:* users  on behalf of 深空探测 via
> users 
> *Sent:* Sunday, June 11, 2023 11:28 AM
> *To:* Open MPI Users 
> *Cc:* 深空探测 
> *Subject:* Re: [OMPI users] Issue with Running MPI Job on CentOS 7
>
> Subject: Open MPI Installation Issues
>
> Hello,
>
> Despite following your previous suggestions, I am still encountering some
> problems. Below, I have outlined the specific challenges I am facing:
>
> 1. Installation with Updated Open MPI Version:
> I attempted to install the latest version of Open MPI (v4.1.5) using the
> following steps:
> - Downloaded the package from
> https://download.open-mpi.org/release/open-mpi/v4.1/openmpi-4.1.5.tar.gz.
> - Executed the installation commands:
>   ./configure --prefix=/usr/local/openmpi
>   make
>   sudo make install
> - Added the environment variables to the "/home/wude/.bashrc" file:
>   export PATH=/usr/local/openmpi/bin:$PATH
>   export LD_LIBRARY_PATH=/usr/local/openmpi/lib:$LD_LIBRARY_PATH
> - Ran the command: source /home/wude/.bashrc
>
> Could you please verify if these installation steps are correct?
>
> 2. Missing "libmpicxx.so.12" file after Open MPI 1.6.5 installation:
> After reinstalling Open MPI 1.6.5, I noticed the existence of the "mpirun"
> executable file in the "/usr/local/openmpi/bin" directory, as well as the
> "libmpi.so" file in the "/usr/lib" directory. However, when I executed the
> command "mpirun -n 2 -H wude,wude mpispeed 1000 10s 1", an error occurred:
> "mpispeed: error while loading shared libraries: libmpicxx.so.12: cannot
> open shared object file: No such file or directory". It seems that the
> "libmpicxx.so.12" file was not generated during the installation process.
> Could you please help me identify the cause of this issue?
>
> 3. Missing "libmpixcc.so.12" file in CentOS 7 default Open MPI
> installation:
> In case I install the Open MPI version provided by CentOS 7 using the

Re: [OMPI users] Issue with Running MPI Job on CentOS 7

[Jeff Squyres (jsquyres) via users]

Your steps are generally correct, but I cannot speak for whether your 
/home/wude/.bashrc file is executed for both non-interactive and interactive 
logins.  If /home/wude is your $HOME, it probably is, but I don't know about 
your specific system.

Also, you should be aware that MPI applications built with Open MPI v1.6.x will 
not be ABI compatible with Open MPI v4.1.x.  Specifically: you will need to 
re-compile / re-build your "mpispeed" application with Open MPI v4.1.x.

If you are using the MPI C++ bindings in your application:

  1.  I suggest you migrate away from them, because the MPI Forum (i.e., the 
standards body that governs the MPI API) removed the C++ bindings in version 
3.0 of the MPI specification in 2012 -- over a decade ago.
  2.  That being said, the C++ bindings are still available in Open MPI v4.1.x 
-- they're just not built and installed by default (frankly, to discourage 
their use).  You can enable the C++ bindings in Open MPI 4.1.x with by adding 
--enable-mpi-cxx to the ./configure command that you use to build Open MPI.  
You will need to have a C++ compiler present to build and install the C++ 
bindings.

Also note that in Open MPI, the C++ bindings library is named "libmpi_cxx.so", 
not "libmpicxx.so" (I checked both Open MPI v1.6.5 and 4.1.5).  If your MPI 
executable is dependant upon a file named "libmpicxx.so", then, as Gilles 
mentioned earlier in this thread, you might accidentally be mixing the 
libraries between two different implmenetations of MPI (e.g., Open MPI and 
MPICH are two entirely different implementations of the same MPI API.  They are 
written and maintained by different sets of people, and are not binary 
compatible with each other).

If you'e just starting out in MPI, I'd strongly suggest ensuring that your 
system has exactly 1 implementation of MPI installed (e.g., Open MPI v4.1.5).  
Ensure that no other versions of Open MPI or MPICH -- or any other MPI 
implementation -- are installed.  That way, you can avoid confusing issues with 
libraries that are similar-but-different, ... etc.



From: users  on behalf of 深空探测 via users 

Sent: Sunday, June 11, 2023 11:28 AM
To: Open MPI Users 
Cc: 深空探测 
Subject: Re: [OMPI users] Issue with Running MPI Job on CentOS 7

Subject: Open MPI Installation Issues

Hello,

Despite following your previous suggestions, I am still encountering some 
problems. Below, I have outlined the specific challenges I am facing:

1. Installation with Updated Open MPI Version:
I attempted to install the latest version of Open MPI (v4.1.5) using the 
following steps:
- Downloaded the package from 
https://download.open-mpi.org/release/open-mpi/v4.1/openmpi-4.1.5.tar.gz.
- Executed the installation commands:
  ./configure --prefix=/usr/local/openmpi
  make
  sudo make install
- Added the environment variables to the "/home/wude/.bashrc" file:
  export PATH=/usr/local/openmpi/bin:$PATH
  export LD_LIBRARY_PATH=/usr/local/openmpi/lib:$LD_LIBRARY_PATH
- Ran the command: source /home/wude/.bashrc

Could you please verify if these installation steps are correct?

2. Missing "libmpicxx.so.12" file after Open MPI 1.6.5 installation:
After reinstalling Open MPI 1.6.5, I noticed the existence of the "mpirun" 
executable file in the "/usr/local/openmpi/bin" directory, as well as the 
"libmpi.so" file in the "/usr/lib" directory. However, when I executed the 
command "mpirun -n 2 -H wude,wude mpispeed 1000 10s 1", an error occurred: 
"mpispeed: error while loading shared libraries: libmpicxx.so.12: cannot open 
shared object file: No such file or directory". It seems that the 
"libmpicxx.so.12" file was not generated during the installation process. Could 
you please help me identify the cause of this issue?

3. Missing "libmpixcc.so.12" file in CentOS 7 default Open MPI installation:
In case I install the Open MPI version provided by CentOS 7 using the command 
"sudo yum install openmpi-devel.x86_64", I encountered a similar problem. Even 
after installation, I cannot find the "libmpixcc.so.12" file. It appears that 
the "/usr/lib64/openmpi/lib" directory does not contain any files related to 
"libmpixcc". Could you kindly advise on this matter?

I greatly appreciate your time and assistance in resolving these issues. Thank 
you in advance for your support.

Best regards,
De Wu

Zhéxué M. Krawutschke via users 
mailto:users@lists.open-mpi.org>> 于2023年6月1日周四 
20:32写道：

Hello together,

regardless that CentOS 7.X already has EOL status,
I would recommend, for example, that you always build/compile OpenMPI and the 
other tools yourself
compile OpenMPI and the other tools to one's needs.

It is true that it is more effort, but in the end it pays off, because the
distributions are sometimes very behind.

Re: [OMPI users] Issue with Running MPI Job on CentOS 7

[深空探测 via users]

Subject: Open MPI Installation Issues

Hello,

Despite following your previous suggestions, I am still encountering some
problems. Below, I have outlined the specific challenges I am facing:

1. Installation with Updated Open MPI Version:
I attempted to install the latest version of Open MPI (v4.1.5) using the
following steps:
- Downloaded the package from
https://download.open-mpi.org/release/open-mpi/v4.1/openmpi-4.1.5.tar.gz.
- Executed the installation commands:
  ./configure --prefix=/usr/local/openmpi
  make
  sudo make install
- Added the environment variables to the "/home/wude/.bashrc" file:
  export PATH=/usr/local/openmpi/bin:$PATH
  export LD_LIBRARY_PATH=/usr/local/openmpi/lib:$LD_LIBRARY_PATH
- Ran the command: source /home/wude/.bashrc

Could you please verify if these installation steps are correct?

2. Missing "libmpicxx.so.12" file after Open MPI 1.6.5 installation:
After reinstalling Open MPI 1.6.5, I noticed the existence of the "mpirun"
executable file in the "/usr/local/openmpi/bin" directory, as well as the
"libmpi.so" file in the "/usr/lib" directory. However, when I executed the
command "mpirun -n 2 -H wude,wude mpispeed 1000 10s 1", an error occurred:
"mpispeed: error while loading shared libraries: libmpicxx.so.12: cannot
open shared object file: No such file or directory". It seems that the
"libmpicxx.so.12" file was not generated during the installation process.
Could you please help me identify the cause of this issue?

3. Missing "libmpixcc.so.12" file in CentOS 7 default Open MPI installation:
In case I install the Open MPI version provided by CentOS 7 using the
command "sudo yum install openmpi-devel.x86_64", I encountered a similar
problem. Even after installation, I cannot find the "libmpixcc.so.12" file.
It appears that the "/usr/lib64/openmpi/lib" directory does not contain any
files related to "libmpixcc". Could you kindly advise on this matter?

I greatly appreciate your time and assistance in resolving these issues.
Thank you in advance for your support.

Best regards,
De Wu

Zhéxué M. Krawutschke via users  于2023年6月1日周四
20:32写道：

> Hello together,
>
> regardless that CentOS 7.X already has EOL status,
> I would recommend, for example, that you always build/compile OpenMPI and
> the other tools yourself
> compile OpenMPI and the other tools to one's needs.
>
> It is true that it is more effort, but in the end it pays off, because the
> distributions are sometimes very behind.
>
> I have already thought about providing something like this, how to do it
> or how to make the whole process available in an automated way, so to speak.
>
>
> If someone would like to help me develop this, I would be very happy.
> Kind regards from Berlin
>
> Z. Matthias
>
> --
> Sent from Canary 
>
> On Donnerstag, Juni 01, 2023 at 10:11 AM, Tru Huynh via users <
> users@lists.open-mpi.org> wrote:
> Hello,
>
> A few comments below:
>
> On Thu, Jun 01, 2023 at 09:09:32AM +0800, 深空探测 via users wrote:
> <...>
>
>
> To provide some context, I have successfully installed Open MPI version
> 1.6.5 on my CentOS 7 system. However, when I attempted to run the command
> "mpirun -n 2 -H wude,wude mpispeed 1000 10s 1", where "wude" is my
> hostname, I encountered unexpected results. Instead of running with two
> processes as intended, it appears that only one process was executed. The
> output I received is as follows:
>
> ...
> 1) Why not using one of the openmpi versions provided by CentOS-7?
> $ yum list openmpi\*
> <...>
> Available Packages
> openmpi.i686 1.10.7-5.el7 base
> openmpi-devel.i686 1.10.7-5.el7 base
> openmpi.x86_64 1.10.7-5.el7 base
> openmpi-devel.x86_64 1.10.7-5.el7 base
> openmpi3.i686 3.1.3-2.el7 base
> openmpi3.x86_64 3.1.3-2.el7 base
> openmpi3-devel.i686 3.1.3-2.el7 base
> openmpi3-devel.x86_64 3.1.3-2.el7 base
>
> You have the choice of 1.x series or 3.1.y series..
> + environment setup are pre-filled for environment-modules.
>
> 2) maybe you have one of them installed and conflicting
> with your self built openmpi 1.6.5 version?
>
> 3) CentOS-7 is nearing end-of-life
>
> Good luck.
>
> Tru
>
> --
> Tru Huynh (PhD) | mailto:t...@pasteur.fr | tel +33 1 45 68 87 37
> https://research.pasteur.fr/en/team/structural-bioinformatics/
> Institut Pasteur, 25-28 rue du Docteur Roux, 75724 Paris CEDEX 15 France
>
>

Re: [OMPI users] Issue with Running MPI Job on CentOS 7

[Zhéxué M. Krawutschke via users]

Hello together,

regardless that CentOS 7.X already has EOL status,
I would recommend, for example, that you always build/compile OpenMPI and the 
other tools yourself
compile OpenMPI and the other tools to one's needs.

It is true that it is more effort, but in the end it pays off, because the
distributions are sometimes very behind.

I have already thought about providing something like this, how to do it or how 
to make the whole process available in an automated way, so to speak.

If someone would like to help me develop this, I would be very happy.
Kind regards from Berlin

Z. Matthias

--
Sent from Canary (https://canarymail.io)

> On Donnerstag, Juni 01, 2023 at 10:11 AM, Tru Huynh via users 
> mailto:users@lists.open-mpi.org)> wrote:
> Hello,
>
> A few comments below:
>
> On Thu, Jun 01, 2023 at 09:09:32AM +0800, 深空探测 via users wrote:
> <...>
> >
> > To provide some context, I have successfully installed Open MPI version
> > 1.6.5 on my CentOS 7 system. However, when I attempted to run the command
> > "mpirun -n 2 -H wude,wude mpispeed 1000 10s 1", where "wude" is my
> > hostname, I encountered unexpected results. Instead of running with two
> > processes as intended, it appears that only one process was executed. The
> > output I received is as follows:
> ...
> 1) Why not using one of the openmpi versions provided by CentOS-7?
> $ yum list openmpi\*
> <...>
> Available Packages
> openmpi.i686 1.10.7-5.el7 base
> openmpi-devel.i686 1.10.7-5.el7 base
> openmpi.x86_64 1.10.7-5.el7 base
> openmpi-devel.x86_64 1.10.7-5.el7 base
> openmpi3.i686 3.1.3-2.el7 base
> openmpi3.x86_64 3.1.3-2.el7 base
> openmpi3-devel.i686 3.1.3-2.el7 base
> openmpi3-devel.x86_64 3.1.3-2.el7 base
>
> You have the choice of 1.x series or 3.1.y series..
> + environment setup are pre-filled for environment-modules.
>
> 2) maybe you have one of them installed and conflicting
> with your self built openmpi 1.6.5 version?
>
> 3) CentOS-7 is nearing end-of-life
>
> Good luck.
>
> Tru
>
> --
> Tru Huynh (PhD) | mailto:t...@pasteur.fr | tel +33 1 45 68 87 37
> https://research.pasteur.fr/en/team/structural-bioinformatics/
> Institut Pasteur, 25-28 rue du Docteur Roux, 75724 Paris CEDEX 15 France
>

Re: [OMPI users] Issue with Running MPI Job on CentOS 7

[Tru Huynh via users]

Hello,

A few comments below:

On Thu, Jun 01, 2023 at 09:09:32AM +0800, 深空探测 via users wrote:
<...>
> 
>To provide some context, I have successfully installed Open MPI version
>1.6.5 on my CentOS 7 system. However, when I attempted to run the command
>"mpirun -n 2 -H wude,wude mpispeed 1000 10s 1", where "wude" is my
>hostname, I encountered unexpected results. Instead of running with two
>processes as intended, it appears that only one process was executed. The
>output I received is as follows:
...
1) Why not using one of the openmpi versions provided by CentOS-7?
$ yum list openmpi\*
<...>
Available Packages
openmpi.i686  1.10.7-5.el7  base
openmpi-devel.i6861.10.7-5.el7  base
openmpi.x86_641.10.7-5.el7  base
openmpi-devel.x86_64  1.10.7-5.el7  base
openmpi3.i686 3.1.3-2.el7   base
openmpi3.x86_64   3.1.3-2.el7   base
openmpi3-devel.i686   3.1.3-2.el7   base
openmpi3-devel.x86_64 3.1.3-2.el7   base  

You have the choice of 1.x series or 3.1.y series..
+ environment setup are pre-filled for environment-modules.

2) maybe you have one of them installed and conflicting
with your self built openmpi 1.6.5 version?

3) CentOS-7 is nearing end-of-life

Good luck.

Tru

-- 
Tru Huynh (PhD) | mailto:t...@pasteur.fr | tel +33 1 45 68 87 37
https://research.pasteur.fr/en/team/structural-bioinformatics/
Institut Pasteur, 25-28 rue du Docteur Roux, 75724 Paris CEDEX 15 France  

Re: [OMPI users] Issue with Running MPI Job on CentOS 7

[Gilles Gouaillardet via users]

Open MPI 1.6.5 is an antique version and you should not expect any support
with it.
Instead, I suggest you try the latest one, rebuild your app and try again.

FWIW, that kind of error occurs when the MPI library does not match mpirun
That can happen when mpirun and libmpi.so come from different vendors
and/or very different versions.


Cheers,

Gilles

On Thu, Jun 1, 2023 at 10:27 AM 深空探测 via users 
wrote:

> Hi all,
>
> I am writing to seek assistance regarding an issue I encountered while
> running an MPI job on CentOS 7  virtual machine  .
>
> To provide some context, I have successfully installed Open MPI version
> 1.6.5 on my CentOS 7 system. However, when I attempted to run the command
> "mpirun -n 2 -H wude,wude mpispeed 1000 10s 1", where "wude" is my
> hostname, I encountered unexpected results. Instead of running with two
> processes as intended, it appears that only one process was executed. The
> output I received is as follows:
>
> Processor = wude
> Rank = 0/1
> Sorry, must run with an even number of processes
> This program should be invoked in a manner similar to:
> mpirun -H host1,host2,...,hostN mpispeed [|s]
> []
> where
> numSends: number of blocks to send (e.g., 256), or
> timeSend: duration in seconds to send (e.g., 100s)
> Processor = wude
> Rank = 0/1
> Sorry, must run with an even number of processes
> This program should be invoked in a manner similar to:
> mpirun -H host1,host2,...,hostN mpispeed [|s]
> []
> where
> numSends: number of blocks to send (e.g., 256), or
> timeSend: duration in seconds to send (e.g., 100s)
> --
> mpirun noticed that the job aborted, but has no info as to the process
> that caused that situation.
> --
>
> I am unsure about the source of this problem and would appreciate any
> guidance or insights you can provide to help me resolve it. It seems that
> there may be an issue with the process distribution or the command syntax.
>
> I would be grateful if you could review the information provided and
> suggest any possible solutions or troubleshooting steps that I can
> undertake to rectify the problem.
>
> Thank you for your attention to this matter. I look forward to hearing
> from you soon.
>
> Best regards,
>
> De Wu
>