Dear Subhasish
If you paste the error message "cannot find -lXt" into the search box on the
amber mailing list archive
http://amber.ch.ic.ac.uk/archive/
You will find many useful explanations of the cause of this error. The main
one being that you most likely do not have the X11 development libraries
installed on your system. You should install this. On my RH EL4 system this
is called xorg-x11-devel-6.8.2-1.EL.13.37.5.
All the best
Ross
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|\oss Walker
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> -----Original Message-----
> From: owner-amber.scripps.edu
> [mailto:owner-amber.scripps.edu] On Behalf Of Subhasish Chatterjee
> Sent: Wednesday, February 07, 2007 09:51
> To: amber.scripps.edu
> Subject: AMBER: problem with AMBER8 installation
>
> Hi,
>
> I am facing problem to install AMBER 8.
>
> We have a Precision Workstation 390n Intel(™
> Core(tm)2 Duo E6700 2.66GHz/1066MHz/4MB
> L2/Dual-core/VT, Red Hat Enterprise Linux WS v4 for
> EM64T 64bit system w/ 3 YR RHN, w/ Media ) with
> Graphics Card(: 512MB PCIe x16 nVidia Quadro FX 4500,
> Dual Monitor DVI or VGA) and two hard drives (500GB
> SATA 3.0Gb/s with NCQ and 16MB DataBurst Cache™.
>
> I have Intel Fortran 90 compiler (ifort)
>
> I logged in as root and downloaded the amber8
> [/usr/local/] from CD.
>
> I exported the path in the .bash_profile file of root.
>
> [ export AMBERHOME =/usr/local/amber8
> PATH=/opt/local/amber8/exe:$PATH:$HOME/bin
> export PATH]
>
> Then,
>
> 1. cd $AMBERHOME
> 2. patch –p0 –N –r patch_rejects < bugfix.all ( going
> fine)
> 3. cd $AMBERHOME/src
> 4. ./configure ifort (giving config,h file )
> 5. make serial ( it fails, giving error message )
>
> I tried the above steps by the following way also
>
> 1. cd $AMBERHOME
> 2. patch –p0 –N –r patch_rejects < bugfix.all ( going
> fine)
> 3. cd $AMBERHOME/src
> 4. ./configure –p4 ifort (giving config,h file )
> 5. make serial ( giving error)
>
> I also tried without patching the bugfix.all, but no
> results .
> Only if I use make –i command , then it goes with out
> error but fails in the next step.
>
> The errors are as follows ...
>
> ake[2]: Entering directory
> `/usr/local/AMBER8/amber8/src/leap/src/leap'
> Makefile:4: warning: overriding commands for target `.c.o'
> ../../../config.h:87: warning: ignoring old commands for target `.c.o'
> gcc -o xaLeap basics.o sysdepend.o stringExtra.o varArray.o
> getline.o avl.o pdb_format.o pdb_read.o pdb_sprntf.o pdb_sscanf.o
> pdb_write.o vector.o zMatrix.o sort.o bag.o hash.o dictionary.o
> database.o nVector.o ring.o matrix.o fortran.o displayer.o assoc.o
> atom.o byteArray.o collection.o container.o internal.o list.o loop.o
> molecule.o oDouble.o oInteger.o oString.o objekt.o parmSet.o
> residue.o unit.o unitio.o tripos.o graphUtil.o select.o amber.o
> build.o elements.o library.o chirality.o minimizer.o model.o parmLib.o
> pdbFile.o tools.o variables.o parser.o help.o helptext.o octree.o
> commands.o mathop.o block.o restraint.o hybrid.o xTank.o xAction.o
> x3d.o xBasics.o xaLeapc.o xaUnitEditor.o xaTable.o xaAtomTable.o
> XrawRegistr.o xaCommand.o xaTools.o xaAtomParmTable.o
> xaBondParmTable.o xaAngleParmTable.o xaParmEditor.o
> xaTorsionParmTable.o xaImproperParmTable.o xaHBondParmTable.o
> ../Xraw/libXaw.a ../Wc/libWcLeap.a ../Xpm/libXpm.a ../Xmu/libXmu.a
> -L/usr/X11R6/lib -lXt -lXext -lSM -lICE -lX11 -lm -lpthread
> /usr/bin/ld: cannot find -lXt
> collect2: ld returned 1 exit status
> make[2]: *** [xaLeap] Error 1
> make[2]: Leaving directory
> `/usr/local/AMBER8/amber8/src/leap/src/leap'
> make[1]: *** [install] Error 2
> make[1]: Leaving directory `/usr/local/AMBER8/amber8/src/leap'
> make: *** [serial] Error 2
>
>
>
> Please advise how to install AMBER 8 properly in this system.
> I would greatly appreciate any help.
>
> Thank you,
> Subhasish Chatterjee
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Received on Sun Feb 11 2007 - 06:07:09 PST
