On Wednesday, February 1, 2017 at 7:24:56 PM UTC+1, Dima Pasechnik wrote: > > > > On Wednesday, February 1, 2017 at 6:00:25 PM UTC, João Alberto Ferreira > wrote: >> >> Well, not yet. >> >> openblas has compiled successfully. The problem now is with R. The R log >> follows. >> >> Apparently it needs libgomp-4 and if I understood correctrly, it found an >> older version. But the libgomp-4 is installed >> >> [defrancaferr_joa@javel sage-7.5.1]$ rpm -q libgomp >> libgomp-4.4.7-17.el6.x86_64 >> > > your log says: > /home/mmsim/tools/lib/64bit/libgomp.so.1 : version `GOMP_4.0' not found > > you have some rogue stuff in your PATH or something (LD_LIBRARY_PATH ?) >
The environment variables are at the beginning of the whole log file
LD_LIBRARY_PATH=/opt/rh/devtoolset-3/root/usr/lib64:/opt/rh/devtoolset-3/root/usr/lib:/usr/local/lib:/home/mmsim/tools/lib/64bit
PATH=/home/defrancaferr_joa/sage-7.5.1/build/bin:/home/defrancaferr_joa/sage-7.5.1/src/bin:/home/defrancaferr_joa/sage-7.5.1/local/bin:/opt/rh/devtoolset-3/root/usr/bin:/home/xfab/xkit/x_all/cadence/xenv:/usr/local/ADS2014_01/bin:/usr/local/texlive/2016/bin/x86_64-linux:/usr/lib64/qt-3.3/bin:/usr/local/bin:/usr/bin:/bin:/usr/local/sbin:/usr/sbin:/sbin:/home/defrancaferr_joa/bin:/home/eclipse:/home/matlab/bin:/home/altera/15.0/quartus/bin:/home/altera/15.0/quartus/sopc_builder/bin:/home/altera/15.0/quartus/bin:/home/ic6.1/tools/bin:/home/ic6.1/tools/dfII/bin:/home/ic6.1/tools/plot/bin:/home/ic6.1/tools/dracula/bin:/home/assura/tools/bin:/home/assura/tools/assura/bin:/home/AMS_4.10/cds/bin:/home/AMS_4.10/programs/bin:/home/mmsim/tools/bin:/home/incisiv/tools/bin:/home/incisiv/tools/dfII/bin:/home/rc/tools/bin:/home/edi/tools/bin:/home/et/tools/bin:/home/ets/tools/bin:/home/ext/tools/bin:/home/confrml/tools/bin:/home/ctos/tools/bin:/home/pve:/home/pve/tools/bin
[defrancaferr_joa@javel sage-7.5.1]$ find
/opt/rh/devtoolset-3/root/usr/lib64/ -name "libgomp*" -exec ls -ls {} \;
[defrancaferr_joa@javel sage-7.5.1]$ find
/opt/rh/devtoolset-3/root/usr/lib/ -name "libgomp*" -exec ls -ls {} \;
4 -rw-r--r--. 1 root root 82 3 oct. 2015
/opt/rh/devtoolset-3/root/usr/lib/gcc/x86_64-redhat-linux/4.9.2/libgomp.so
4 -rw-r--r--. 1 root root 169 3 oct. 2015
/opt/rh/devtoolset-3/root/usr/lib/gcc/x86_64-redhat-linux/4.9.2/libgomp.spec
176 -rw-r--r--. 1 root root 178766 3 oct. 2015
/opt/rh/devtoolset-3/root/usr/lib/gcc/x86_64-redhat-linux/4.9.2/libgomp.a
4 -rw-r--r--. 1 root root 78 3 oct. 2015
/opt/rh/devtoolset-3/root/usr/lib/gcc/x86_64-redhat-linux/4.9.2/32/libgomp.so
140 -rw-r--r--. 1 root root 143328 3 oct. 2015
/opt/rh/devtoolset-3/root/usr/lib/gcc/x86_64-redhat-linux/4.9.2/32/libgomp.a
[defrancaferr_joa@javel sage-7.5.1]$ find /usr/local/lib -name "libgomp*"
-exec ls -ls {} \;
[defrancaferr_joa@javel sage-7.5.1]$ find /home/mmsim/tools/lib/64bit -name
"libgomp*" -exec ls -ls {} \;
0 lrwxrwxrwx. 1 cadence softs 16 15 janv. 2016
/home/mmsim/tools/lib/64bit/libgomp.so.1 -> libgomp.so.1.0.0
276 -rwxr-xr-x. 1 cadence softs 281302 26 sept. 2011
/home/mmsim/tools/lib/64bit/libgomp.so.1.0.0
0 lrwxrwxrwx. 1 cadence softs 16 15 janv. 2016
/home/mmsim/tools/lib/64bit/libgomp.so -> libgomp.so.1.0.0
>
> What is this /home/mmsim and what does it have to do with your account
> (defrancaferr_joa, I suppose)?
>
mmsim (multi-mode simulator) is an electronic circuit simulator. I'm
intended to use this to design an integrated circuit, but this folder
houses an older version of the simulator (version 14). The newer version
resides in /home/mmsim15. In fact, this machine is a new one, which the
system administrator installed by cloning the disk of another machine. Now,
I'm configuring it to my needs through sudo, but things seems to be
organized in an odd manner (like this simulator in the \home directory)
It seems that the configuration of the integrated circuit design tools are
messed up and I need, at least, organize the environment variables before
compile sage. I think I need to edit the .bash_profile (appended). What do
you think?
> (It finds this stuff there first, and tries to use it...)
>
>
>
>> On Wednesday, February 1, 2017 at 5:56:44 PM UTC+1, João Alberto Ferreira
>> wrote:
>>>
>>> Thank you!
>>>
>>> I've done:
>>>
>>> [defrancaferr_joa@javel ~]$ sudo yum install centos-release-scl
>>> [defrancaferr_joa@javel ~]$ sudo yum install devtoolset-3-toolchain
>>> [defrancaferr_joa@javel ~]$ scl enable devtoolset-3 bash
>>> [defrancaferr_joa@javel ~]$ as --version
>>> Assembleur GNU version 2.24
>>> Copyright 2013 Free Software Foundation, Inc.
>>> Ce logiciel est libre; vous pouvez le redistribuer selon les termes de la
>>> version 3 de la licence GNU General Public License ou suivante.
>>> Ce programme n'est couvert par AUCUNE garantie.
>>> Cet assembleur a été configuré pour la cible « x86_64-redhat-linux ».
>>>
>>> Let's see if it will work.
>>>
>>>
>>>
>>> On Wednesday, February 1, 2017 at 5:27:36 PM UTC+1, Dima Pasechnik wrote:
>>>>
>>>>
>>>>
>>>> On Wednesday, February 1, 2017 at 3:52:05 PM UTC, João Alberto Ferreira
>>>> wrote:
>>>>>
>>>>> Hi!
>>>>>
>>>>> Here it is the command output.
>>>>>
>>>>> [defrancaferr_joa@javel ~]$ as --version
>>>>> GNU assembler version 2.20.51.0.2-5.44.el6 20100205
>>>>> Copyright 2009 Free Software Foundation, Inc.
>>>>>
>>>>
>>>> Thanks, this explains your problem. Your assembler is 7 years old, and
>>>> your CPU
>>>> is only 4 years old, if not newer. You are building with (sage-supplied)
>>>> gcc 4.9, which issues correct assembler commands for your CPU.
>>>> But your assembler does not understand some of them, as it is too old.
>>>>
>>>> Why Centos is so lame in this respect, we've seen many reports like
>>>> this...
>>>> You should upgrade your toolchain so that your assembler fully supports
>>>> you CPU.
>>>>
>>>> HTH,
>>>> Dima
>>>>
>>>>
>>>>
>>>>> This program is free software; you may redistribute it under the terms
>>>>> of
>>>>> the GNU General Public License version 3 or later.
>>>>> This program has absolutely no warranty.
>>>>> This assembler was configured for a target of `x86_64-redhat-linux'.
>>>>>
>>>>> On Wednesday, February 1, 2017 at 12:05:22 PM UTC+1, Dima Pasechnik
>>>>> wrote:
>>>>>>
>>>>>> please post the output of
>>>>>>
>>>>>> as --version
>>>>>>
>>>>>> on the system. I guess it is too old to understand the whole range of
>>>>>> assembler commands for your CPU.
>>>>>>
>>>>>>
>>>>>> On Wednesday, February 1, 2017 at 10:09:27 AM UTC, João Alberto
>>>>>> Ferreira wrote:
>>>>>>>
>>>>>>> Hi!
>>>>>>>
>>>>>>> I have tried to compile sagemath under a CentOS 6.8 machine, as the
>>>>>>> binaries for Fedora do not work. The installation halted with an error
>>>>>>> while building OpenBlas. Made the error is due to the machine CPU, as
>>>>>>> discussed in https://github.com/JuliaLang/julia/issues/7653, but I
>>>>>>> have little experience in this. Part of the installation log is
>>>>>>> attached. I
>>>>>>> updated the operating system and want to try build Sage again. Does
>>>>>>> anyone
>>>>>>> have any sugestion?
>>>>>>>
>>>>>>> It seems that all developing tools are installed, as can be seen
>>>>>>> below
>>>>>>>
>>>>>>> [defrancaferr_joa@javel ~]$ rpm -q perl-ExtUtils-MakeMaker
>>>>>>> perl-ExtUtils-MakeMaker-6.55-141.el6_7.1.x86_64
>>>>>>> [defrancaferr_joa@javel ~]$ which perl
>>>>>>> /usr/bin/perl
>>>>>>> [defrancaferr_joa@javel ~]$ rpm -q binutils
>>>>>>> binutils-2.20.51.0.2-5.44.el6.x86_64
>>>>>>> [defrancaferr_joa@javel ~]$ rpm -q gcc
>>>>>>> gcc-4.4.7-17.el6.x86_64
>>>>>>> [defrancaferr_joa@javel ~]$ rpm -q make
>>>>>>> make-3.81-23.el6.x86_64
>>>>>>> [defrancaferr_joa@javel ~]$ rpm -q m4
>>>>>>> m4-1.4.13-5.el6.x86_64
>>>>>>> [defrancaferr_joa@javel ~]$ rpm -q perl
>>>>>>> perl-5.10.1-141.el6_7.1.x86_64
>>>>>>> [defrancaferr_joa@javel ~]$ rpm -q tar
>>>>>>> tar-1.23-15.el6_8.x86_64
>>>>>>> [defrancaferr_joa@javel ~]$ rpm -q git
>>>>>>> git-1.7.1-4.el6_7.1.x86_64
>>>>>>> [defrancaferr_joa@javel ~]$ rpm -q gcc-c++
>>>>>>> gcc-c++-4.4.7-17.el6.x86_64
>>>>>>> [defrancaferr_joa@javel ~]$ rpm -q gcc-gfortran
>>>>>>> gcc-gfortran-4.4.7-17.el6.x86_64
>>>>>>> [defrancaferr_joa@javel ~]$ rpm -q python
>>>>>>> python-2.6.6-66.el6_8.x86_64
>>>>>>> [defrancaferr_joa@javel ~]$ lscpu
>>>>>>> Architecture: x86_64
>>>>>>> CPU op-mode(s): 32-bit, 64-bit
>>>>>>> Byte Order: Little Endian
>>>>>>> CPU(s): 32
>>>>>>> On-line CPU(s) list: 0-31
>>>>>>> Thread(s) par coeur : 2
>>>>>>> Coeur(s) par support CPU :8
>>>>>>> Socket(s): 2
>>>>>>> Noeud(s) NUMA : 2
>>>>>>> ID du vendeur : GenuineIntel
>>>>>>> Famille CPU : 6
>>>>>>> Modèle : 79
>>>>>>> Model name: Intel(R) Xeon(R) CPU E5-2620 v4 @ 2.10GHz
>>>>>>> Version : 1
>>>>>>> CPU MHz : 1200.000
>>>>>>> BogoMIPS: 4190.00
>>>>>>> Virtualisation : VT-x
>>>>>>> L1d cache : 32K
>>>>>>> L1i cache : 32K
>>>>>>> L2 cache : 256K
>>>>>>> L3 cache : 20480K
>>>>>>> NUMA node0 CPU(s): 0-7,16-23
>>>>>>> NUMA node1 CPU(s): 8-15,24-31
>>>>>>>
>>>>>>
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.bash_profile
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