AMBER Archive (2004)

Subject: Re: RE: AMBER: Amber 8 installation

From: fangyu liang (fliang_at_usc.edu)
Date: Fri Jun 25 2004 - 02:34:45 CDT

Hi,

I downloaded and installed all the necessary development tools. The crt1.o problem went away. But I got another problem. When I run 'make test', I got this:

cd dmp; ./Run.dmp

../../exe/sander: error while loading shared libraries: libcxa.so.5: cannot open shared object file: No such file or diectory

./Run.dmp: Program error

make: ***[test.sander.no_lmod]Error 1

I searched the Amber email archives and didn't find a solution. Please tell me what is wrong. Thank you very much!

Sincerely,

Fangyu
P.S Ross/Spookie: Thank you very much!

----- Original Message -----
From: Ross Walker <ross_at_rosswalker.co.uk>
Date: Thursday, June 24, 2004 3:38 pm
Subject: RE: AMBER: Amber 8 installation

> Hi Fangyu,
>
> This is a problem with the linux installation on your machine. Once again
> the fountain of all knowledge (www.google.com) comes through:
> http://www.google.com/search?sourceid=navclient&ie=UTF-8&oe=UTF-8&q=%2Fusr%2
> Fbin%2Fld%3A+%2Fusr%2Flib%2Fcrt1%2Eo
>
> Note the second entry:
>
> http://softwareforums.intel.com/ids/board/message?board.id=11&message.id=119
> 6&jump=true
>
> It seems that you may have a corrupted or missing installation of
> glibc-devel.
>
> In fact I suspect you are missing all of the development libraries for your
> system. If you intend to compile any programs these are essential. It is
> probably best for you to contact the person in charge of your system and ask
> them to install the development RPM's for you. You should then have another
> go at compiling Amber 8.
>
> All the best
> Ross
>
> /\
> \/
> |\oss Walker
>
> | Department of Molecular Biology TPC15 |
> | The Scripps Research Institute |
> | Tel:- +1 858 784 8889 | EMail:- ross_at_rosswalker.co.uk |
> | http://www.rosswalker.co.uk/ | PGP Key available on request |
>
>
> > -----Original Message-----
> > From: owner-amber_at_scripps.edu
> > [owner-amber_at_scripps.edu] On Behalf Of fangyu liang
> > Sent: 24 June 2004 15:25
> > To: amber_at_scripps.edu
> > Subject: AMBER: Amber 8 installation
> >
> > Hi,
> >
> > I am installing Amber 8 on a PC with latest Linux (SuSe 9.1)
> > and Intel f90 compiler. Everything is fine until I run 'make
> > serial'. Here is the entire message:
> >
> > Starting installation of Amber8 (serial) at Thu Jun 24
> > 14:31:44 PDT 2004.
> >
> > mkdir ../exe
> >
> > mkdir: cannot create directory '../exe': File exists
> >
> > make: [serial] Error 1 (ignored)
> >
> > cd lib; make install
> >
> > make[1]: Entering directory '/home/owner/Desktop/amber8/src/lib'
> >
> > ifort -o new2oldparm new2oldparm.o nxtsec.o
> >
> > /usr/bin/ld: /usr/lib/crt1.o: No such file: No such file or directory
> >
> > make[1]: *** [new2oldparm] Error 1
> >
> > make[1]: Leaving directory '/home/owner/Desktop/amber8/src/lib'
> >
> > make: *** [serial] Error 2
> >
> > I used 'make serial -i' later on and tested it in the
> > $AMBERHOME/test directory. Here is the message:
> >
> > cd dmp; ./Run.dmp
> > .../../exe/sander: Command not found.
> > ./Run.dmp: Program error
> > make: *** [test.sander.no_lmod] Error 1
> >
> > Can someone please tell me what I did wrong? So I can have
> > Amber8 working properly. Thank you very much!
> >
> > Sincerely,
> >
> > Fangyu Liang
> >
> >
> > --------------------------------------------------------------
> > ---------
> > The AMBER Mail Reflector
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> >
>
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