AMBER Archive (2007)

Subject: RE: AMBER: Problems with 'make'

From: Hopkins, Robert (hopkins_at_uhcl.edu)
Date: Fri Oct 05 2007 - 13:32:24 CDT

Thanks Ross!

 

Your prompt and perceptive analysis was right on. After wiping the egg
off my face, it hit me that I had been trying to proceed from the
$AMBERHOME/exe directory after I'd misinterpreted the step in the
Install Readme that says, "d. compile and install the binaries into
$AMBERHOME/exe:".

 

With your suggestions, the 'make serial' command hummed along
beautifully, creating & assembling '.o' files, up to a point. However,
the following output then came up:

            (In $AMBERHOME/src/addles):

                                    '

                                    ' All apparently OK

                                    '

                                    '

            cd ../lib; ./Makelist: ../lib/random.o ../lib/mexit.o
../lib/nxtsec.o

            /bin/sh: ./Makelist: /bin/csh: bad interpreter: no such
file or directory

            make[1]: *** [libobj] Error 126

            make[1]: Leaving directory '/usr/local/amber9/src/addles'

            make: *** [serial] Error 2

 

At this point the output stopped and the prompt returned to
$AMBERHOME/src.

 

I looked at the Makelist file and noticed the first line reads:

            #!/bin/csh -f

It appears this should be, but might not be, interpreted as a remark.
Indeed, there is no csh program in /bin. With my limited UNIX/Linux
experience, I'm not sure if this is even relevant. Again, I'd greatly
appreciate any suggestions.

Thanks,

Bob Hopkins

 

________________________________

From: owner-amber_at_scripps.edu [mailto:owner-amber_at_scripps.edu] On Behalf
Of Ross Walker
Sent: Thursday, October 04, 2007 3:55 PM
To: amber_at_scripps.edu
Subject: RE: AMBER: Problems with 'make'

 

Dear Robert,

 

Just to check are you in $AMBERHOME/src when you are typing make or just
in $AMBERHOME?

 

In the later case you will see "make: *** No rule to make target
`serial'. Stop." because there is no makefile in the amber9 root
directory. The makefile is under the src directory so you need to do:

 

cd $AMBERHOME/src/

make clean

make serial

 

See if that works, if not and you are definately in the src directory
please check that you have a file called "Makefile" present in that
directory.

 

Good luck...

 

Ross

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|\oss Walker

| HPC Consultant and Staff Scientist |
| San Diego Supercomputer Center |
| Tel: +1 858 822 0854 | EMail:- ross_at_rosswalker.co.uk |
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________________________________

        From: owner-amber_at_scripps.edu [mailto:owner-amber_at_scripps.edu]
On Behalf Of Hopkins, Robert
        Sent: Thursday, October 04, 2007 12:08
        To: amber_at_scripps.edu
        Subject: AMBER: Problems with 'make'

        Amber Users:

         

        I'm new to Amber and relatively new to UNIX/Linux. Nonetheless,
I'm trying to install Amber9 on a laptop running Windows XP. I've
successfully installed the Cygwin environment as well as g95. After
unpacking the Amber files, setting the environment variables & path,
applying all of the Bug fixes and running the configuration script, all
successfully, I hit a brick wall trying to 'make serial'. Although a
'make' utility was supplied with the old g77, there was none with g95,
so I installed the 'make' utility for Cygwin. However, this version
neither recognizes 'make serial' nor 'make clean' - a similar error is
reported in each case:

         

        make: *** No rule to make target 'serial'. Stop.

         

        Although I've searched the mail archives at both the Scripps and
UK Amber sites, I haven't found an answer to this problem. It may be
that I'm overlooking something, but it appears that many others have had
some type of problem with the 'make' command. I would greatly
appreciate any help or suggestions in regard to this impasse.

         

        Thanks,

        Bob Hopkins

         

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