Configure Avogadro on Cent OS

General Discussion
1

Hi, if anybody was able to configure and install (and run) avogadro on Cent OS 6 successfully, can you please list the steps taken. In particular, how did you get cmake to see where openbabel directories (lib and include) are? I couldn’t get cmake to see these directories even with -DOPENBABEL2_LIBRARIES and -DOPENBABEL2_INCLUDE_DIR set to appropriate directories.

Thanks!

Mohd Farid Ismail
Graduate Student
Dept. of Chemistry/Biochemistry
University of Oklahoma
Norman 73019

2

As a solution, I managed to compile Avogadro using avogadro-squared, as mentioned on Avogadro this (http://avogadro.openmolecules.net/wiki/Compiling_on_Linux_and_Mac_OS_X) Avogadro wiki page.

Hopefully it’ll help saves some one’s time and hair.

Mohd Farid Ismail
Graduate Student
Dept. of Chemistry/Biochemistry
University of Oklahoma
Norman 73019

From: Ismail, Mohd F. [farid@ou.edu]
Sent: Friday, September 14, 2012 5:31 PM
To: avogadro-discuss@lists.sourceforge.net
Subject: [Avogadro-Discuss] Configure Avogadro on Cent OS

Hi, if anybody was able to configure and install (and run) avogadro on Cent OS 6 successfully, can you please list the steps taken. In particular, how did you get cmake to see where openbabel directories (lib and include) are? I couldn’t get cmake to see these directories even with -DOPENBABEL2_LIBRARIES and -DOPENBABEL2_INCLUDE_DIR set to appropriate directories.

Thanks!

Mohd Farid Ismail
Graduate Student
Dept. of Chemistry/Biochemistry
University of Oklahoma
Norman 73019

3

Indeed, this is the point of Avogadro-squared – make it easier to set up the cmake build.

Glad you got it working!
Geoff

On Sep 15, 2012, at 5:21 PM, “Ismail, Mohd F.” farid@ou.edu wrote:

As a solution, I managed to compile Avogadro using avogadro-squared, as mentioned on Avogadro this (http://avogadro.openmolecules.net/wiki/Compiling_on_Linux_and_Mac_OS_X) Avogadro wiki page.

Hopefully it’ll help saves some one’s time and hair.

Mohd Farid Ismail
Graduate Student
Dept. of Chemistry/Biochemistry
University of Oklahoma
Norman 73019
From: Ismail, Mohd F. [farid@ou.edu]
Sent: Friday, September 14, 2012 5:31 PM
To: avogadro-discuss@lists.sourceforge.net
Subject: [Avogadro-Discuss] Configure Avogadro on Cent OS

Hi, if anybody was able to configure and install (and run) avogadro on Cent OS 6 successfully, can you please list the steps taken. In particular, how did you get cmake to see where openbabel directories (lib and include) are? I couldn’t get cmake to see these directories even with -DOPENBABEL2_LIBRARIES and -DOPENBABEL2_INCLUDE_DIR set to appropriate directories.

Thanks!

Mohd Farid Ismail
Graduate Student
Dept. of Chemistry/Biochemistry
University of Oklahoma
Norman 73019

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4

Thank you for a great piece of software Dr. Hutchison. Avogadro is as good as Spartan GUI IMO.

Mohd Farid Ismail
Graduate Student
Dept. of Chemistry/Biochemistry
University of Oklahoma
Norman 73019

From: Geoff Hutchison [geoff.hutchison@gmail.com]
Sent: Saturday, September 15, 2012 4:41 PM
To: avogadro-discuss@lists.sourceforge.net
Cc: avogadro-discuss@lists.sourceforge.net
Subject: Re: [Avogadro-Discuss] Configure Avogadro on Cent OS

Indeed, this is the point of Avogadro-squared – make it easier to set up the cmake build.

Glad you got it working!
Geoff

On Sep 15, 2012, at 5:21 PM, “Ismail, Mohd F.” <farid@ou.edumailto:farid@ou.edu> wrote:

As a solution, I managed to compile Avogadro using avogadro-squared, as mentioned on Avogadro this (http://avogadro.openmolecules.net/wiki/Compiling_on_Linux_and_Mac_OS_X) Avogadro wiki page.

Hopefully it’ll help saves some one’s time and hair.

Mohd Farid Ismail
Graduate Student
Dept. of Chemistry/Biochemistry
University of Oklahoma
Norman 73019

From: Ismail, Mohd F. [farid@ou.edumailto:farid@ou.edu]
Sent: Friday, September 14, 2012 5:31 PM
To: avogadro-discuss@lists.sourceforge.netmailto:avogadro-discuss@lists.sourceforge.net
Subject: [Avogadro-Discuss] Configure Avogadro on Cent OS

Hi, if anybody was able to configure and install (and run) avogadro on Cent OS 6 successfully, can you please list the steps taken. In particular, how did you get cmake to see where openbabel directories (lib and include) are? I couldn’t get cmake to see these directories even with -DOPENBABEL2_LIBRARIES and -DOPENBABEL2_INCLUDE_DIR set to appropriate directories.

Thanks!

Mohd Farid Ismail
Graduate Student
Dept. of Chemistry/Biochemistry
University of Oklahoma
Norman 73019

How fast is your code?
3 out of 4 devs don\'t know how their code performs in production.
Find out how slow your code is with AppDynamics Lite.
http://ad.doubleclick.net/clk;262219672;13503038;z?
http://info.appdynamics.com/FreeJavaPerformanceDownload.html

Avogadro-Discuss mailing list
Avogadro-Discuss@lists.sourceforge.netmailto:Avogadro-Discuss@lists.sourceforge.net
https://lists.sourceforge.net/lists/listinfo/avogadro-discuss

5

On Sat, Sep 15, 2012 at 5:21 PM, Ismail, Mohd F. farid@ou.edu wrote:

As a solution, I managed to compile Avogadro using avogadro-squared, as
mentioned on Avogadro this
(http://avogadro.openmolecules.net/wiki/Compiling_on_Linux_and_Mac_OS_X)
Avogadro wiki page.

Hopefully it’ll help saves some one’s time and hair.

If more people find this useful (I use it quite a bit myself), then we
could even start tagging releases in the git repository with the Open
Babel, Avogadro etc versions used in that particular release. Great to
hear it was of help, it can be a little tricky getting all of our
dependencies set up.

Marcus