Re: [mesa-users] 3611 installation problem

SourceForge Headquarters 225 Broadway Suite 1600 San Diego, CA 92101 +1 (858) 422-6466

Hi Ehsan,

this is really bizarre!!! I am running on Lion with ifort 12.1.0 on MacMini
with 2 cores. I got 3611 installed after following steps:

1) added following line to my .bash_profile:  export
DYLD_LIBRARY_PATH="/opt/intel/composerxe/lib"

2) before proceeding to 'mesa/mtx/test/' setup my number of threads, in my
case with MacMini its: $ export OMP_NUM_THREADS=2

3) before proceeding to 'mesa/ionization/test/' I have edited
the 'mesa/ionization/private/mod_ionization.f'. I have changed the implicit
loop:

 f(1,1:num_log_ne,i) = p% log_ne(1:num_log_ne)

with and explicit one:
(declare j as an integer in the subroutine)
do j=1,num_log_ne
    p% f(1,j,i) = p% log_ne(j)
end do

Since I am using ifort I didn't touch the makefile_header.

As you can see, my issue with mesa/mtx/test was solved after I declared the
number of threads. (In the mesa/mtx/test/tmp.txt it will say to you to do
that if you didn't).

Today I have updated (actually did a fresh checkout) of 3633, which
installed with no problem at all (I didn't even had to change the loop in
mod_ionization.f).

Tuguldur

2011/9/21 Ehsan Moravveji <mor...@ia...>

> Thanks Tuguldur
> I had already set this variable. The problem was with OMPI library that I
> resolved.
> Still I get an error like this:
>
> ifort  -vec-report0 -traceback -error-limit 6 -openmp -threads -I../../make
> -I../../public -I../../../include  -check uninit -check pointers -check
> bounds -check all -g -c -free ../src/test_mtx.f
> ifort -openmp -threads -o ../tester test_pardiso.o test_klu.o
> test_mtx_support.o test_banded.o test_block_tridiagonal.o test_square.o
> test_sparse.o test_mtx.o  \
>     -L../../make -lmtx    -lmkl_intel_lp64 -lmkl_intel_thread
> -lmkl_lapack95_lp64 -lmkl_core -liomp5 -lpthread -lmesablas -L../../../lib
> -lutils -lalert
> Undefined symbols for architecture x86_64:
>   "_c_fortran_klu_", referenced from:
>       _mod_klu_mp_do_klu_decsols_ in libmtx.a(mod_klu.o)
>       _mod_klu_mp_do_klu_decsols_nrhs_ in libmtx.a(mod_klu.o)
>       _mod_klu_mp_do_klu_decsols_nrhs_0_based_ in libmtx.a(mod_klu.o)
> ld: symbol(s) not found for architecture x86_64
> make: *** [tester] Error 1
>
> /Users/ehsan/programs/mesa/mtx/test
> FAILED
>
>
> /Users/ehsan/programs/mesa/mtx
> ./build_and_test FAILED
>
> My question is this:
> With your Lion 10.7 and ifort 12.0.1 (which you said is similar to mine),
> how did you set your makefile_header?
> I have problem with MKL.
>
> Best.
> Ehsan.
>
> > Ehsan, we're on an exactly same setup, I haven't encoutered this error
> > with
> > 3611.
> >
> >
> >
> >
> >
> > 2011/9/21 Ehsan Moravveji <mor...@ia...>
> >
> >> > did you guys set the number of threads correctly? My issue in
> >> > /mesa/star/mtx/test/ was solved by setting the correct number of
> >> threads
> >> > (2
> >> > in my case):
> >> >
> >> > $ export OMP_NUM_THREADS=2
> >>
> >> In my case, it is already set, but I get the error from another module:
> >>
> >> ifort -vec-report0 -traceback -error-limit 6 -openmp -threads
> >> -I../../make
> >> -I../../public -I../../../include -check uninit -check pointers -check
> >> bounds -check all -g -c -fixed -132 ../src/test_const.f
> >> ifort -openmp -threads -o ../tester test_const.o -L../../make -lconst
> >>
> >>
> >> FAILED
> >>
> >>
> >> /Users/ehsan/programs/mesa/const/test
> >>
> >> TEST FAILED -- compare test_output to tmp.txt
> >>
> >> Any help?
> >>
> >> I use ifort 12.0.1 on Lion 10.7
> >>
> >> Ehsan.
> >>
> >>
> >> >
> >> > Tuguldur
> >> >
> >> >
> >> >
> >> >
> >> >
> >> >
> >> >
> >> > 2011/9/21 Larry Pinsonneault <lpi...@ha...>
> >> >
> >> >> **
> >> >> Hi,
> >> >>
> >> >> I get the same result as Aaron and Phil. The installation fails in
> >> rates
> >> >> with
> >> >> exactly the same six mismatches.
> >> >>
> >> >> I am running Ubuntu 11.4 with gfortran 4.5.2 on a Toshiba
> >> >> Satellite.A665.
> >> >>
> >> >> Larry Pinsonneault
> >> >>
> >> >>
> >> >> On 09/19/2011 09:05 AM, Aaron Dotter wrote:
> >> >>
> >> >> Hi,
> >> >>
> >> >> I'll add my tale of woe to Phil's. Everything goes fine until rates.
> >> >> Looks like Phil and I are consistent, at least.
> >> >>
> >> >> /Users/dotter/mesa3611/rates
> >> >> building rates package.
> >> >>
> >> >> make: `librates.a' is up to date.
> >> >> make: `librates.a' is up to date.
> >> >> gfortran -fopenmp -o ../tester test_rates.o -L../../make -lrates
> >> >> -L../../../lib -lreaclib -lweak -lchem -linterp_2d -linterp_1d -lnum
> >> >> -lutils
> >> >> -lalert -lconst -lmtx -lmesaklu -lmesalapack -lmesablas
> >> >> gfortran -fopenmp -o ../show_rates reaction_rate_from_cache.o
> >> >> -L../../make
> >> >> -lrates -L../../../lib -lreaclib -lweak -lchem -linterp_2d
> >> -linterp_1d
> >> >> -lnum
> >> >> -lutils -lalert -lconst -lmtx -lmesaklu -lmesalapack -lmesablas
> >> >>
> >> >> 58c58
> >> >> < rne20ap_to_mg24 0.0000000000000000E+00
> >> >> --- field 2 relative error 1.00e+00
> >> >> > rne20ap_to_mg24 1.3318310086100496E-08
> >> >> 60c60
> >> >> < rmg24ap_to_si28 0.0000000000000000E+00
> >> >> --- field 2 relative error 1.00e+00
> >> >> > rmg24ap_to_si28 2.6558494648638122E-06
> >> >> 62c62
> >> >> < r_c12_to_he4_he4_he4 0.0000000000000000E+00
> >> >> --- field 2 relative error 1.00e+00
> >> >> > r_c12_to_he4_he4_he4 1.4771305847143582E-26
> >> >> 63c63
> >> >> < r_ne20_ga_o16 0.0000000000000000E+00
> >> >> --- field 2 relative error 1.00e+00
> >> >> > r_ne20_ga_o16 3.8122575515639085E-16
> >> >>
> >> >> /Users/dotter/mesa3611/rates/test
> >> >> TEST FAILED -- compare test_output to tmp.txt
> >> >>
> >> >>
> >> >> /Users/dotter/mesa3611/rates
> >> >> ./build_and_test FAILED
> >> >>
> >> >> This is MESA 3611 on Mac OS X 10.6.8 with gfortran 4.5.2.
> >> >>
> >> >> Aaron
> >> >>
> >> >>
> >> >>
> >> >>
> >> >> On Mon, Sep 19, 2011 at 8:30 AM, Phil Arras <pl...@vi...>
> >> wrote:
> >> >>
> >> >>>
> >> >>> Greetings,
> >> >>>
> >> >>> I encountered a compilation error for version 3611, for Mac OS X
> >> >>> (10.6.8),
> >> >>> with gfortran 4.6.1:
> >> >>>
> >> >>>
> >> >>>
> >>
> --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
> >> >>> gfortran -fopenmp -o ../show_rates reaction_rate_from_cache.o
> >> >>> -L../../make
> >> >>> -lrates -L../../../lib -lreaclib -lweak -lchem -linterp_2d
> >> -linterp_1d
> >> >>> -lnum
> >> >>> -lutils -lalert -lconst -lmtx -lmesaklu -lmesalapack -lmesablas
> >> >>>
> >> >>> 58c58
> >> >>> < rne20ap_to_mg24 0.0000000000000000E+00
> >> >>> --- field 2 relative error 1.00e+00
> >> >>> > rne20ap_to_mg24 1.3318310086100496E-08
> >> >>> 60c60
> >> >>> < rmg24ap_to_si28 0.0000000000000000E+00
> >> >>> --- field 2 relative error 1.00e+00
> >> >>> > rmg24ap_to_si28 2.6558494648638122E-06
> >> >>> 62c62
> >> >>> < r_c12_to_he4_he4_he4 0.0000000000000000E+00
> >> >>> --- field 2 relative error 1.00e+00
> >> >>> > r_c12_to_he4_he4_he4 1.4771305847143582E-26
> >> >>> 63c63
> >> >>> < r_ne20_ga_o16 0.0000000000000000E+00
> >> >>> --- field 2 relative error 1.00e+00
> >> >>> > r_ne20_ga_o16 3.8122575515639085E-16
> >> >>>
> >> >>> /Users/arras/stars/mesa/rates/test
> >> >>> TEST FAILED -- compare test_output to tmp.txt
> >> >>>
> >> >>>
> >> >>> /Users/arras/stars/mesa/rates
> >> >>> ./build_and_test FAILED
> >> >>>
> >> >>>
> >>
> --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
> >> >>>
> >> >>>
> >> >>>
> >> >>> Comparing the two files gave:
> >> >>>
> >> >>>
> >> >>>
> >>
> --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
> >> >>> Phil-Arras-MacBook-Pro:mesa/rates/test] arras% diff test_output
> >> tmp.txt
> >> >>> 1c1
> >> >>> <
> >> >>> ---
> >> >>> >
> >> >>> 5c5
> >> >>> <
> >> >>> ---
> >> >>> >
> >> >>> 21c21
> >> >>> < rn15pg_aux 3.0733146900102957E+02
> >> >>> ---
> >> >>> > rn15pg_aux 3.0733146900102952E+02
> >> >>> 26c26
> >> >>> < r_mg24_ag_si28 7.3991076437333121E-04
> >> >>> ---
> >> >>> > r_mg24_ag_si28 7.3991076437333111E-04
> >> >>> 31c31
> >> >>> <
> >> >>> ---
> >> >>> >
> >> >>> 33,34c33,34
> >> >>> <
> >> >>> <
> >> >>> ---
> >> >>> >
> >> >>> >
> >> >>> 38c38
> >> >>> <
> >> >>> ---
> >> >>> >
> >> >>> 58c58
> >> >>> < rne20ap_to_mg24 1.3318310086100496E-08
> >> >>> ---
> >> >>> > rne20ap_to_mg24 0.0000000000000000E+00
> >> >>> 60c60
> >> >>> < rmg24ap_to_si28 2.6558494648638122E-06
> >> >>> ---
> >> >>> > rmg24ap_to_si28 0.0000000000000000E+00
> >> >>> 62,64c62,64
> >> >>> < r_c12_to_he4_he4_he4 1.4771305847143582E-26
> >> >>> < r_ne20_ga_o16 3.8122575515639085E-16
> >> >>> <
> >> >>> ---
> >> >>> > r_c12_to_he4_he4_he4 0.0000000000000000E+00
> >> >>> > r_ne20_ga_o16 0.0000000000000000E+00
> >> >>> >
> >> >>> 66,69c66,69
> >> >>> <
> >> >>> < FL_epsnuc_3alf 1.1675035548327446E+21
> >> >>> <
> >> >>> <
> >> >>> ---
> >> >>> >
> >> >>> > FL_epsnuc_3alf 1.1675035548327443E+21
> >> >>> >
> >> >>> >
> >> >>> 73c73
> >> >>> <
> >> >>> ---
> >> >>> >
> >> >>> 75c75
> >> >>> <
> >> >>> ---
> >> >>> >
> >> >>> 77c77
> >> >>> <
> >> >>> ---
> >> >>> >
> >> >>>
> >> >>>
> >>
> --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
> >> >>>
> >> >>> So they only differ by a tiny amount.
> >> >>>
> >> >>> Oddly, the first time I tried the installation it barfed on the mtx
> >> >>> routine. Then just for the fun of it I tried doing ./install again
> >> and
> >> >>> it
> >> >>> got through mtx,
> >> >>> but then stopped on rates, and is stuck there no matter how many
> >> times
> >> >>> I
> >> >>> try ./install.
> >> >>>
> >> >>> Help!
> >> >>>
> >> >>> cheers,
> >> >>>
> >> >>> Phil
> >> >>>
> >> >>>
> >> >>>
> >> >>>
> >>
> ------------------------------------------------------------------------------
> >> >>> BlackBerry&reg; DevCon Americas, Oct. 18-20, San Francisco, CA
> >> >>> Learn about the latest advances in developing for the
> >> >>> BlackBerry&reg; mobile platform with sessions, labs & more.
> >> >>> See new tools and technologies. Register for BlackBerry&reg; DevCon
> >> >>> today!
> >> >>> http://p.sf.net/sfu/rim-devcon-copy1
> >> >>> _______________________________________________
> >> >>> mesa-users mailing list
> >> >>> mes...@li...
> >> >>> https://lists.sourceforge.net/lists/listinfo/mesa-users
> >> >>>
> >> >>
> >> >>
> >> >>
> >>
> ------------------------------------------------------------------------------
> >> >> BlackBerry&reg; DevCon Americas, Oct. 18-20, San Francisco, CA
> >> >> Learn about the latest advances in developing for the
> >> >> BlackBerry&reg; mobile platform with sessions, labs & more.
> >> >> See new tools and technologies. Register for BlackBerry&reg; DevCon
> >> >> today!http://p.sf.net/sfu/rim-devcon-copy1
> >> >>
> >> >>
> >> >> _______________________________________________
> >> >> mesa-users mailing
> >> >> lis...@li...https://
> >> lists.sourceforge.net/lists/listinfo/mesa-users
> >>
> >> >>
> >> >>
> >> >>
> >> >>
> >>
> ------------------------------------------------------------------------------
> >> >> All the data continuously generated in your IT infrastructure
> >> contains a
> >> >> definitive record of customers, application performance, security
> >> >> threats, fraudulent activity and more. Splunk takes this data and
> >> makes
> >> >> sense of it. Business sense. IT sense. Common sense.
> >> >> http://p.sf.net/sfu/splunk-d2dcopy1
> >> >> _______________________________________________
> >> >> mesa-users mailing list
> >> >> mes...@li...
> >> >> https://lists.sourceforge.net/lists/listinfo/mesa-users
> >> >>
> >> >>
> >> >
> >> >
> >> > --
> >> >
> -------------------------------------------------------------------------
> >> > "No word from Landau, No thought from Liefshitz" - Landau's wife
> >> >
> >> > "Science is interesting, and if you don't agree, you can fuck off" -
> >> > Editor
> >> > of New Scientist Magazine
> >> >
> >> > Three out of two people have difficulties with fractions.
> >> >
> >> > Kenyan proverb: "Take care of the Earth. It was not given to you by
> >> your
> >> > parents; it was loaned to you by your children."
> >> >
> >> > "The Bible tells us how to go to heaven, not how the heavens go"
> >> Galileo
> >> >
> >> > --
> >> > This message has been scanned for viruses and
> >> > dangerous content by MailScanner, and is
> >> > believed to be clean.
> >>
> >> >
> >> >
> >>
> ------------------------------------------------------------------------------
> >> > All the data continuously generated in your IT infrastructure contains
> >> a
> >> > definitive record of customers, application performance, security
> >> > threats, fraudulent activity and more. Splunk takes this data and
> >> makes
> >> > sense of it. Business sense. IT sense. Common sense.
> >> >
> >>
> http://p.sf.net/sfu/splunk-d2dcopy1_______________________________________________
> >> > mesa-users mailing list
> >> > mes...@li...
> >> > https://lists.sourceforge.net/lists/listinfo/mesa-users
> >> >
> >> --
> >> This message has been scanned for viruses and
> >> dangerous content by *MailScanner* <http://www.mailscanner.info/>, and
>
> >> is
> >> believed to be clean.
> >
> >
> >
> >
> > --
> > -------------------------------------------------------------------------
> > "No word from Landau, No thought from Liefshitz" - Landau's wife
> >
> > "Science is interesting, and if you don't agree, you can fuck off" -
> > Editor
> > of New Scientist Magazine
> >
> > Three out of two people have difficulties with fractions.
> >
> > Kenyan proverb: "Take care of the Earth. It was not given to you by your
> > parents; it was loaned to you by your children."
> >
> > "The Bible tells us how to go to heaven, not how the heavens go" Galileo
> >
> > --
> > This message has been scanned for viruses and
> > dangerous content by MailScanner, and is
> > believed to be clean.
> >
> >
> --
> This message has been scanned for viruses and
> dangerous content by *MailScanner* <http://www.mailscanner.info/>, and is
> believed to be clean.
>

-- 
-------------------------------------------------------------------------
"No word from Landau, No thought from Liefshitz" - Landau's wife

"Science is interesting, and if you don't agree, you can fuck off" - Editor
of New Scientist Magazine

Three out of two people have difficulties with fractions.

Kenyan proverb: "Take care of the Earth. It was not given to you by your
parents; it was loaned to you by your children."

"The Bible tells us how to go to heaven, not how the heavens go" Galileo