Re: [mesa-users] 3611 installation problem

[Peter P. <per...@gm...>]

Hi,

I am having the exact same error as both Phil and Aaron. I am using version
3611 and running on Mac OS X 10.6.8 and gfortran 4.6.1. Changing the number
of threads fixed an error I previously had, but even with the correct number
of threads installation fails at rates.

-Peter

On Wed, Sep 21, 2011 at 11:04 PM, Tuguldur Sukhbold <
tug...@em...> wrote:

> 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
>> >> >>>
>> >> >>>
>> >> >>>
>> >> >>>
>> >>
>> ------------------------------------------------------------------------------
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>> >> >>> Learn about the latest advances in developing for the
>> >> >>> BlackBerry&reg; mobile platform with sessions, labs & more.
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>> >> >>> _______________________________________________
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>> >> >>> 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://
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>> >>
>> >> >>
>> >> >>
>> >> >>
>> >> >>
>> >>
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>> >> >>
>> >> >
>> >> >
>> >> > --
>> >> >
>> -------------------------------------------------------------------------
>> >> > "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
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>> >>
>> >> >
>> >> >
>> >>
>> ------------------------------------------------------------------------------
>> >> > 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
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>> >> is
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>> >
>> >
>> >
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>> > --
>> >
>> -------------------------------------------------------------------------
>> > "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
>
>
>
>
>
> ------------------------------------------------------------------------------
> 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
> _______________________________________________
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