[gmx-users] SGI installation problem
Dastmalchi.s at tbzmed.ac.ir
Wed Mar 19 14:25:21 CET 2008
Thanks for the suggestion and I am sorry that didn't let the list know that the problem had been fixed. (I haven't used the mdrun yet, but the other stuff seems working) Thanks to the Makefile that I have received from David. I compared that file with the one created in the script directory and then did some changes to it, and it worked for me. I need to add that I tried couple of times starting from ./configuration step. I was also getting the same error while trying the "make distclean". It is funny, but true though that the Makefile that I used finally in the script directory is a hybrid created under Sgi and Mac, but did work.
Once again thanks for your concerns.
From: gmx-users-bounces at gromacs.org on behalf of Erik Lindahl
Sent: Wed 2008/03/19 12:39 ب.ظ
To: Discussion list for GROMACS users
Subject: Re: [gmx-users] SGI installation problem
I'm not quite sure what David was thinking, but Makefiles are created
on-the-fly with automake/autoconf and tailored to the commands on your
system, so there is absolutely no way a Mac makefile will work on an
An error like
make: file 'Makefile' line 417: syntax error
*** Error code 1 (bu21)
typically means you've edited the makefile manually, or moved the
source. Try a "make distclean" and start over from scratch with ./
On Mar 16, 2008, at 3:16 PM, Siavoush Dastmalchi wrote:
> Hi David,
> I did as following and still getting the same error:
> % make -f scripts/Makefile
> There are some minor differences (apart from those related to the
> specifications and paths in my system) between the file that you
> sent me and the one in the script directory. May be the way that I
> trying to use the Makefile in the script directory is not OK. Do I
> need to do configuration step again and then use the scripts/Makefile?
> I have attached the Makefile in the script directory just in case.
> Regards, Siavoush
> From: gmx-users-bounces at gromacs.org on behalf of David van der Spoel
> Sent: Sun 2008/03/16 05:07 ب.ظ
> To: Discussion list for GROMACS users
> Subject: Re: [gmx-users] SGI installation problem
> Siavoush Dastmalchi wrote:
>> As I mentioned before, the installation stopped with the error
>> shown below.
>> Looking for your kind attentions.
>> Cheers, Siavoush
>> Making all in contrib
>> Making all in admin
>> Making all in scripts
>> make: file 'Makefile' line 417: syntax error
>> *** Error code 1 (bu21)
> Try this Makefile in the scripts directory.
> David van der Spoel, Ph.D.
> Molec. Biophys. group, Dept. of Cell & Molec. Biol., Uppsala
> Box 596, 75124 Uppsala, Sweden. Phone: +46184714205. Fax:
> spoel at xray.bmc.uu.se spoel at gromacs.org http://folding.bmc.uu.se <http://folding.bmc.uu.se/>
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Erik Lindahl <lindahl at cbr.su.se> Backup: <erik.lindahl at gmail.com>
Assistant Professor, Computational Structural Biology
Center for Biomembrane Research, Dept. Biochemistry & Biophysics
Stockholm University, SE-106 91 Stockholm, Sweden
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