[AMBER] upgrading to AT15 (from AT14)

From: Massimiliano Porrini <m.porrini.iecb.u-bordeaux.fr>
Date: Tue, 18 Aug 2015 18:47:00 +0200

Hi all,

I am trying to upgrade AT from 14 to 15 on our servers with
CentOS 6.6 .

These are the commands I executed (as root) within $AMBERHOME
(that is /usr/local/amber14):

*./update_amber --upgrade./configure gnumake -j 16 instal​l​*

​but I got the following error(s):

*/usr/bin/ld: /usr/local/amber14/lib/libnetcdff.a(fort-attio.o): relocation
R_X86_64_PC32 against undefined symbol `strlen@@GLIBC_2.2.5' can not be
used when making a shared object; recompile with -fPIC/usr/bin/ld: final
link failed: Bad valuecollect2: ld returned 1 exit statusmake[2]: ***
[/usr/local/amber14/lib/libsander.so] Error 1make[2]: Leaving directory
`/usr/local/amber14/AmberTools/src/sander'make[1]: *** [serial] Error
2make[1]: Leaving directory `/usr/local/amber14/AmberTools/src'make: ***
[install] Error 2*

​Should I probably completely remove AT14 and install AT15 from ​scratch
(as I have never had installation/compilation problems over the last 2 years
on the same servers)?

​Thanks in advance for any suggestion!​

Dr Massimiliano Porrini
BiophyMS Team
U869 ARNA - Inserm / Bordeaux University
Institut Européen de Chimie et Biologie (IECB)
2, rue Robert Escarpit
33607 Pessac Cedex
Tel   : 33 (0)5 40 00 63 31
Emails: massimiliano.porrini.inserm.fr
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Received on Tue Aug 18 2015 - 10:00:03 PDT
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