[Nek5000-users] RE : RE : prex & pretex not working

nek5000-users at lists.mcs.anl.gov nek5000-users at lists.mcs.anl.gov
Mon May 10 11:30:29 CDT 2010 

Hello Stefan,

this was indeed a problem with the maketools file (I can't figure out what happened...) . Your solution worked just fine. 
Thanks for the quick and efficient reply.

Best,

Michael B

________________________________________
De : nek5000-users-bounces at lists.mcs.anl.gov [nek5000-users-bounces at lists.mcs.anl.gov] de la part de nek5000-users at lists.mcs.anl.gov [nek5000-users at lists.mcs.anl.gov]
Date d'envoi : lundi 10 mai 2010 18:10
À : nek5000-users at lists.mcs.anl.gov
Objet : Re: [Nek5000-users] RE :  prex & pretex not working

You have to enable BIGMEM otherwise prenek will not compile unless you lower the memory footprint. I just tried to compile prenek with the GNU compilers and there was no problem?

It looks like your maketools is messed up.
Did you do a 'svn update'? If yes. please do the following:

cd ~/nek5_svn/trunk; rm -rf tools; svn update tools

hth,
Stefan


On May 10, 2010, at 6:01 PM, nek5000-users at lists.mcs.anl.gov wrote:

> Hello Neks,
>
> I ran an svn update this morning (rev 510). Since then I can't compile prex/prenek anymore. I tried with and without the big memory support enabled. Here is what I get in both cases :
>
> [17:46:58 michael at dsktp-lmfa:~/Codes/nek5_svn/trunk/tools ] $ ./maketools prenek
> ----------------------
> Make prenek...
> ----------------------
> [: 23: prenek: unexpected operator
> [: 23: prenek: unexpected operator
> make[1]: entrant dans le répertoire « /home/michael/Codes/nek5_svn/trunk/tools/prenek »
> gfortran -mcmodel=medium -o /home/michael/bin/prex prenek.o curve.o edit.o build.o build1.o build2.o bound.o plot.o xinterface.o glomod.o legend.o vprops.o iolib.o subs.o zipper2.o postnek6.o screen.o revert.o crs.o mxm.o xdriver.o  -L/usr/X11R6/lib -lX11 -lm
> prenek.o: In function `fprep_':
> prenek.f:(.text+0x111): relocation truncated to fit: R_X86_64_PC32 against symbol `devs_' defined in COMMON section in prenek.o
> prenek.f:(.text+0x32b): relocation truncated to fit: R_X86_64_PC32 against symbol `devs_' defined in COMMON section in prenek.o
> prenek.o: In function `read_params_':
> prenek.f:(.text+0x625): relocation truncated to fit: R_X86_64_PC32 against symbol `devs_' defined in COMMON section in prenek.o
> prenek.f:(.text+0x641): relocation truncated to fit: R_X86_64_PC32 against symbol `devs_' defined in COMMON section in prenek.o
> prenek.f:(.text+0x71b): relocation truncated to fit: R_X86_64_32S against symbol `param_' defined in COMMON section in prenek.o
> prenek.f:(.text+0x7d6): relocation truncated to fit: R_X86_64_32S against symbol `param_' defined in COMMON section in prenek.o
> prenek.f:(.text+0x859): relocation truncated to fit: R_X86_64_32S against symbol `param_' defined in COMMON section in prenek.o
> prenek.f:(.text+0x8dc): relocation truncated to fit: R_X86_64_32S against symbol `param_' defined in COMMON section in prenek.o
> prenek.f:(.text+0x966): relocation truncated to fit: R_X86_64_32S against symbol `param_' defined in COMMON section in prenek.o
> prenek.f:(.text+0x96e): relocation truncated to fit: R_X86_64_PC32 against symbol `param_' defined in COMMON section in prenek.o
> prenek.f:(.text+0x97b): additional relocation overflows omitted from the output
> collect2: ld returned 1 exit status
> make[1]: *** [prex] Erreur 1
> make[1]: quittant le répertoire « /home/michael/Codes/nek5_svn/trunk/tools/prenek »
> make: *** [all] Erreur 1
> [17:47:51 michael at dsktp-lmfa:~/Codes/nek5_svn/trunk/tools ] $
>
>
> Do you have any idea on what is happening there?
> Is it compulsory to switch to the Intel ifort compiler for the new version of prenek?
>
> Thanks in advance for any help.
> Best,
>
>
> Michael B
>
> ________________________________________
> De : nek5000-users-bounces at lists.mcs.anl.gov [nek5000-users-bounces at lists.mcs.anl.gov] de la part de nek5000-users at lists.mcs.anl.gov [nek5000-users at lists.mcs.anl.gov]
> Date d'envoi : lundi 3 mai 2010 20:14
> À : nek5000-users at lists.mcs.anl.gov
> Objet : Re: [Nek5000-users] prex & pretex not working
>
> Hi Stefan,
>
> The command does not do anything. Here is the output of the command. It
> does not display anything.
>
> [kanch1 at honest3 tools]$ ./maketools prenek
> [kanch1 at honest3 tools]$
>
> Thanks,
>
> Harish.
>
> On Mon, 3 May 2010 nek5000-users at lists.mcs.anl.gov wrote:
>
>> Please send the output of './maketools prenek'
>>
>> Stefan
>>
>>
>> On May 3, 2010, at 7:10 PM, nek5000-users at lists.mcs.anl.gov wrote:
>>
>>> Hi Stefan,
>>>
>>> Sorry for missing out on that problem report.
>>>
>>> But I tried changing the F77 compiler as below and it does not work.
>>> "maketools all" does nothing.
>>>
>>> F77="ifort -shared-intel"
>>>
>>> Also, this is on a different linux box not on my cluster which has GNU
>>> compiler.
>>>
>>> Thanks,
>>>
>>> Harish.
>>>
>>> On Mon, 3 May 2010 nek5000-users at lists.mcs.anl.gov wrote:
>>>
>>>> I know. There was a problem report on the mailing list already.
>>>>
>>>> This was my answer:
>>>>
>>>> Ok I think I know a way to fix the Intel compiler problem.
>>>>
>>>> To compile prenek (prex) you need to enable the BIGMEM support so you have to use at least the medium memory model. However the Intel compilers wants you to link all Intel-Libs dynamically if you use another memory model than small.
>>>>
>>>> Just set F77= "ifort -shared-intel" and it should work!
>>>>
>>>> hth,
>>>> Stefan
>>>>
>>>> On May 3, 2010, at 5:45 PM, nek5000-users at lists.mcs.anl.gov wrote:
>>>>
>>>>> Hi Stefan,
>>>>>
>>>>> I tried compiling prenek on NCSA-Abe machine with ifort & icc. I get the
>>>>> following error, its same error w/ and w/o "BIGMEM" flag.
>>>>>
>>>>> Thanks,
>>>>>
>>>>> Harish.
>>>>>
>>>>> *************************************************************************
>>>>> icc -c -DUNDERSCORE -Dr8 xdriver.c
>>>>> xdriver.c(875): warning #266: function "fprep_" declared implicitly
>>>>>    fprep_ ();      /* run Fortran Main code */
>>>>>    ^
>>>>>
>>>>> xdriver.c(123): (col. 5) remark: LOOP WAS VECTORIZED.
>>>>> xdriver.c(125): (col. 5) remark: LOOP WAS VECTORIZED.
>>>>> xdriver.c(869): (col. 5) remark: LOOP WAS VECTORIZED.
>>>>> xdriver.c(869): (col. 5) remark: LOOP WAS VECTORIZED.
>>>>> xdriver.c(747): (col. 4) remark: LOOP WAS VECTORIZED.
>>>>> xdriver.c(823): (col. 4) remark: LOOP WAS VECTORIZED.
>>>>> xdriver.c(700): (col. 5) remark: LOOP WAS VECTORIZED.
>>>>> xdriver.c(333): (col. 5) remark: LOOP WAS VECTORIZED.
>>>>> xdriver.c(340): (col. 5) remark: LOOP WAS VECTORIZED.
>>>>> ifort -o /u/ac/kanch1/nek5_svn/trunk/tools/prex prenek.o curve.o edit.o
>>>>> build.o build1.o build2.o bound.o plot.o xinterface.o glomod.o legend.o
>>>>> vprops.o iolib.o subs.o zipper2.o postnek6.o screen.o revert.o crs.o mxm.o
>>>>> xdriver.o  -L/usr/X11R6/lib64 -lX11 -lm
>>>>> prenek.o(.text+0x47d): In function `drivfc_':
>>>>> : relocation truncated to fit: R_X86_64_PC32 chaar_
>>>>> prenek.o(.text+0x4f9): In function `drivfc_':
>>>>> : relocation truncated to fit: R_X86_64_PC32 chaar_
>>>>> prenek.o(.text+0x50d): In function `drivfc_':
>>>>> : relocation truncated to fit: R_X86_64_PC32 basics_
>>>>> prenek.o(.text+0x584): In function `drivfc_':
>>>>> : relocation truncated to fit: R_X86_64_PC32 devs_
>>>>> prenek.o(.text+0x5b1): In function `drivfc_':
>>>>> : relocation truncated to fit: R_X86_64_PC32 chaar_
>>>>> prenek.o(.text+0x62d): In function `drivfc_':
>>>>> : relocation truncated to fit: R_X86_64_PC32 chaar_
>>>>> prenek.o(.text+0x667): In function `drivfc_':
>>>>> : relocation truncated to fit: R_X86_64_32S chaar_
>>>>> prenek.o(.text+0x740): In function `drivfc_':
>>>>> : relocation truncated to fit: R_X86_64_PC32 modes_
>>>>> prenek.o(.text+0x789): In function `drivfc_':
>>>>> : relocation truncated to fit: R_X86_64_PC32 chaar_
>>>>> prenek.o(.text+0x7fc): In function `drivfc_':
>>>>> : relocation truncated to fit: R_X86_64_PC32 chaar_
>>>>> prenek.o(.text+0x80c): In function `drivfc_':
>>>>> : additional relocation overflows omitted from the output
>>>>> make[1]: *** [prex] Error 1
>>>>> make[1]: Leaving directory `/u/ac/kanch1/nek5_svn/trunk/tools/prenek'
>>>>> make: *** [all] Error 1
>>>>> **************************************************************************
>>>>>
>>>>> On Mon, May 3, 2010 9:38 am, nek5000-users at lists.mcs.anl.gov wrote:
>>>>>> Can you try on another Linux box? You can get the Intel compilers (non
>>>>>> commercial usage) for free.
>>>>>> Sorry I don't want to login into other machines unless it's really needed.
>>>>>>
>>>>>> Stefan
>>>>>>
>>>>>> On May 3, 2010, at 4:34 PM, nek5000-users at lists.mcs.anl.gov wrote:
>>>>>>
>>>>>>> Hi Stefan,
>>>>>>>
>>>>>>> I do not have any other compiler on the cluster. I can give you my login
>>>>>>> to check the problem.
>>>>>>>
>>>>>>> Thanks,
>>>>>>>
>>>>>>> Harish.
>>>>>>>
>>>>>>> On Mon, 3 May 2010 nek5000-users at lists.mcs.anl.gov wrote:
>>>>>>>
>>>>>>>> Hi Harish,
>>>>>>>>
>>>>>>>> unfortunately I cannot reproduce the problem over there (gcc 4.2.1/
>>>>>>>> gfortran 4.5).
>>>>>>>> Can you try again using another compiler?
>>>>>>>>
>>>>>>>> Stefan
>>>>>>>>
>>>>>>>>
>>>>>>>> On May 3, 2010, at 3:26 PM, nek5000-users at lists.mcs.anl.gov wrote:
>>>>>>>>
>>>>>>>>> Hello,
>>>>>>>>>
>>>>>>>>> I am compiling prenek with GNU compilers, gfortran-4.3.2 and
>>>>>>>>> gcc-4.3.2.
>>>>>>>>> When I compile it without "BIGMEM" flag it gives an error, the output
>>>>>>>>> of
>>>>>>>>> it is attached (error.out). With "BIGMEM" flag turned on, there are no
>>>>>>>>> compiler errors (compile.out). But when I try to open pretex or prex,
>>>>>>>>> I
>>>>>>>>> get the following error.
>>>>>>>>>
>>>>>>>>> [harish at cmtl hole-in-center]$ prex
>>>>>>>>> Killed
>>>>>>>>> [harish at cmtl hole-in-center]$ pretex
>>>>>>>>> Killed
>>>>>>>>>
>>>>>>>>> All the other tools are working fine. Any help in solving this issue
>>>>>>>>> is
>>>>>>>>> appreciated.
>>>>>>>>>
>>>>>>>>> Thanks,
>>>>>>>>>
>>>>>>>>> Harish.
>>>>>>>>> <error.out><compile.out>_______________________________________________
>>>>>>>>> Nek5000-users mailing list
>>>>>>>>> Nek5000-users at lists.mcs.anl.gov
>>>>>>>>> https://lists.mcs.anl.gov/mailman/listinfo/nek5000-users
>>>>>>>>
>>>>>>>> _______________________________________________
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>>>>>>
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>>>>>>
>>>>>
>>>>>
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