[Users] ETK in Carver

Wed Mar 7 19:33:51 CST 2012

Dear Colleagues,
I am trying to install ETK in hopper, at NERSC. I started from scratch
following the steps of the advanced tutorial. I am building a package,
which includes an N-body code and Cactus, so I my aim is to be able to run
Cactus in different machines. My last attempt showed me following issue:
After doing simfactory/bin/sim setup in hopper, I tried

simfactory/bin/sim build

with the result

Using configuration: sim
Reconfiguring sim
Writing configuration to:
/global/u1/f/fiestas/CACTUS-save/Cactus/configs/sim/OptionList
/bin/bash: module: command not found

I am using the last development version here
http://einsteintoolkit.org/download/ (also tried the last release with the
same results)

I found in simfactory/mdb/machines/hopper.ini a list of module commands
which apparently can not be executed. I run it in queenbee without
problems.
Would appreciate any help.

Regards,
Jose

On Sat, Feb 25, 2012 at 11:51 AM, Jose Fiestas Iquira <jafiestas at lbl.gov>wrote:

> Hi Erik,
>
> Yes, should be loaded automatically. Find strange they don't.
> I use ./simfactory/bin/sim build from the Cactus directory (I tried
> adding --thornlist=manifest/einsteintoolkit.th) but I keep getting
> Using configuration: sim
> Reconfiguring sim
> Writing configuration to:
> /global/u1/f/fiestas/CACTUS/Cactus/configs/sim/OptionList
> /bin/bash: module: command not found
>
> I tried deleting the module commands in simfactory/mdb/machines/hopper.ini
> and doing them by hand.
> I got more output (attached) but an error anyway.
>
> This tries are from scratch, I loaded ETK from
> http://einsteintoolkit.org/download/
> the development version, as you tried.
>
> It seems to me the problem is related to the configuration of my account.
> But I did not change the defaults.
>
> Best,
> Jose
>
>
> On Sat, Feb 25, 2012 at 6:16 AM, Erik Schnetter <schnetter at cct.lsu.edu>wrote:
>
>> Jose
>>
>> The modules that are loaded automatically should not matter;
>> Simfactory should do the right thing anyway.
>>
>> What command do you use to compile? I use
>>
>> ./bin/sim build --thornlist=manifest/einsteintoolkit.th
>>
>> -erik
>>
>> On Fri, Feb 24, 2012 at 6:36 PM, Jose Fiestas Iquira <jafiestas at lbl.gov>
>> wrote:
>> > Sorri pgi compilers, not pig :)
>> >
>> >
>> > On Fri, Feb 24, 2012 at 3:35 PM, Jose Fiestas Iquira <jafiestas at lbl.gov
>> >
>> > wrote:
>> >>
>> >> You have loaded the pig compilers. I tried both pig and intel without
>> >> success. It is something related to the configuration. I get:
>> >> Internal error - couldn't enter
>> >> '/global/u1/f/fiestas/CACTUS/Cactus/configs/sim/config-data'
>> >>
>> >> Cheers,
>> >> Jose
>> >>
>> >>
>> >> On Fri, Feb 24, 2012 at 3:30 PM, Erik Schnetter <schnetter at cct.lsu.edu
>> >
>> >> wrote:
>> >>>
>> >>> $ module list
>> >>> Currently Loaded Modulefiles:
>> >>>  1) modules/3.2.6.6
>> >>>  2) xtpe-network-gemini
>> >>>  3) pgi/11.9.0
>> >>>  4) xt-libsci/11.0.03
>> >>>  5) udreg/2.3.1-1.0400.3911.5.13.gem
>> >>>  6) ugni/2.3-1.0400.4127.5.20.gem
>> >>>  7) pmi/3.0.0-1.0000.8661.28.2807.gem
>> >>>  8) dmapp/3.2.1-1.0400.3965.10.63.gem
>> >>>  9) gni-headers/2.1-1.0400.4156.6.1.gem
>> >>>  10) xpmem/0.1-2.0400.30792.5.6.gem
>> >>>  11) xe-sysroot/4.0.36
>> >>>  12) xt-asyncpe/5.04
>> >>>  13) atp/1.3.0
>> >>>  14) PrgEnv-pgi/4.0.36
>> >>>  15) eswrap/1.0.10
>> >>>  16) xtpe-mc12
>> >>>  17) xt-shmem/5.4.0
>> >>>  18) xt-mpich2/5.4.0
>> >>>  19) torque/2.5.9
>> >>>  20) moab/6.1.4
>> >>>
>> >>> -erik
>> >>>
>> >>> On Fri, Feb 24, 2012 at 4:31 PM, Jose Fiestas Iquira <
>> jafiestas at lbl.gov>
>> >>> wrote:
>> >>> > Erik,
>> >>> > I suspect the default modules I loaded are not sufficient, because
>> I am
>> >>> > not
>> >>> > doing more than 'simfactory/bin/sim setup' and  'simfactory/bin/sim
>> >>> > build'.
>> >>> > Could you please send me a 'module list' of your account to compare
>> >>> > with
>> >>> > mine?
>> >>> > Best,
>> >>> > Jose
>> >>> >
>> >>> >
>> >>> > On Fri, Feb 24, 2012 at 12:26 PM, Erik Schnetter
>> >>> > <schnetter at cct.lsu.edu>
>> >>> > wrote:
>> >>> >>
>> >>> >> Jose
>> >>> >>
>> >>> >> I just built the ET from scratch and ran the test cases there. All
>> >>> >> went fine on Hopper, no problems at all.
>> >>> >>
>> >>> >> -erik
>> >>> >>
>> >>> >> On Fri, Feb 24, 2012 at 2:39 PM, Erik Schnetter
>> >>> >> <schnetter at cct.lsu.edu>
>> >>> >> wrote:
>> >>> >> > On Fri, Feb 24, 2012 at 2:11 PM, Jose Fiestas Iquira
>> >>> >> > <jafiestas at lbl.gov>
>> >>> >> > wrote:
>> >>> >> >> Hi Erik,
>> >>> >> >>
>> >>> >> >> I am getting in Hopper the same error after simfactory/bin/sim
>> >>> >> >> build:
>> >>> >> >> Using configuration: sim
>> >>> >> >> Reconfiguring sim
>> >>> >> >> Writing configuration to:
>> >>> >> >> /global/u1/f/fiestas/CACTUS/Cactus/configs/sim/OptionList
>> >>> >> >> /bin/bash: module: command not found
>> >>> >> >> fiestas at hopper10:~/CACTUS/Cactus> exit
>> >>> >> >> exit
>> >>> >> >>
>> >>> >> >> Could you install it without problems?
>> >>> >> >
>> >>> >> > Yes. I am not seeing these problems. Maybe they are specific to
>> your
>> >>> >> > account settings? Could you investigate where the "module"
>> command
>> >>> >> > is
>> >>> >> > used?
>> >>> >> >
>> >>> >> >> A question. Should I set hopper10 as:
>> >>> >> >> key allocation []
>> >>> >> >
>> >>> >> > I don't know what you mean by this.
>> >>> >> >
>> >>> >> > The allocation on Hopper is the "repository" there; it is e.g.
>> >>> >> > "m152"
>> >>> >> > for me.
>> >>> >> >
>> >>> >> > -erik,
>> >>> >> >
>> >>> >> >> Thanks,
>> >>> >> >> Jose
>> >>> >> >>
>> >>> >> >>
>> >>> >> >> On Fri, Feb 24, 2012 at 10:45 AM, Jose Fiestas Iquira
>> >>> >> >> <jafiestas at lbl.gov>
>> >>> >> >> wrote:
>> >>> >> >>>
>> >>> >> >>> You mean this version?
>> >>> >> >>>
>> >>> >> >>>
>> http://svn.einsteintoolkit.org/manifest/trunk/einsteintoolkit.th
>> >>> >> >>>
>> >>> >> >>> I am trying now in a new directory. I had installed Cactus, the
>> >>> >> >>> Wavetoy
>> >>> >> >>> and ETk in the same place and probably there were some
>> conflicts.
>> >>> >> >>> That
>> >>> >> >>> is
>> >>> >> >>> where I got the module error. Hope doing it new works well as
>> in
>> >>> >> >>> your
>> >>> >> >>> case.
>> >>> >> >>> Did you follow the tutorial in the ETK page for new users?
>> >>> >> >>>
>> >>> >> >>> Cheers,
>> >>> >> >>> Jose
>> >>> >> >>>
>> >>> >> >>>
>> >>> >> >>>
>> >>> >> >>>
>> >>> >> >>> On Fri, Feb 24, 2012 at 10:18 AM, Erik Schnetter
>> >>> >> >>> <schnetter at cct.lsu.edu>
>> >>> >> >>> wrote:
>> >>> >> >>>>
>> >>> >> >>>> Jose
>> >>> >> >>>>
>> >>> >> >>>> No, things didn't work on Carver. I received errors, but
>> didn't
>> >>> >> >>>> investigate, mostly because I dislike the PGI compiler.
>> >>> >> >>>>
>> >>> >> >>>> I'm building on Hopper as we speak, using the Intel compiler,
>> and
>> >>> >> >>>> things are going fine.
>> >>> >> >>>>
>> >>> >> >>>> I'm using the development version of the ET, not the release
>> from
>> >>> >> >>>> last
>> >>> >> >>>> autumn, though.
>> >>> >> >>>>
>> >>> >> >>>> -erik
>> >>> >> >>>>
>> >>> >> >>>> On Fri, Feb 24, 2012 at 12:40 PM, Jose Fiestas Iquira
>> >>> >> >>>> <jafiestas at lbl.gov>
>> >>> >> >>>> wrote:
>> >>> >> >>>> > Hi Erik,
>> >>> >> >>>> > The problem with module (?) came actually when I tried it in
>> >>> >> >>>> > Hopper.
>> >>> >> >>>> > There
>> >>> >> >>>> > is no special need for Carver, Hopper would be fine. Did
>> your
>> >>> >> >>>> > try
>> >>> >> >>>> > in
>> >>> >> >>>> > Carver
>> >>> >> >>>> > worked, anyway?
>> >>> >> >>>> > Best,
>> >>> >> >>>> > Jose
>> >>> >> >>>> >
>> >>> >> >>>> >
>> >>> >> >>>> > On Fri, Feb 24, 2012 at 9:14 AM, Erik Schnetter
>> >>> >> >>>> > <schnetter at cct.lsu.edu>
>> >>> >> >>>> > wrote:
>> >>> >> >>>> >>
>> >>> >> >>>> >> On Wed, Feb 22, 2012 at 8:38 PM, Jose Fiestas Iquira
>> >>> >> >>>> >> <jafiestas at lbl.gov>
>> >>> >> >>>> >> wrote:
>> >>> >> >>>> >> > It was like these:
>> >>> >> >>>> >> > ....
>> >>> >> >>>> >> > COMPILING
>> >>> >> >>>> >> >
>> >>> >> >>>> >> >
>> >>> >> >>>> >> >
>> >>> >> >>>> >> >
>> >>> >> >>>> >> >
>> /global/u1/f/fiestas/CACTUS/Cactus/arrangements/Carpet/LoopControl/src/loopcontrol.c
>> >>> >> >>>> >> > PGC-W-0155-parallel for loop variable must be local k
>> >>> >> >>>> >> >
>> >>> >> >>>> >> >
>> >>> >> >>>> >> >
>> >>> >> >>>> >> >
>> >>> >> >>>> >> >
>> (/global/u1/f/fiestas/CACTUS/Cactus/configs/sim/build/LoopControl/loopcontrol.c:
>> >>> >> >>>> >> > 1080)
>> >>> >> >>>> >> > PGC-S-0094-Illegal type conversion required
>> >>> >> >>>> >> >
>> >>> >> >>>> >> >
>> >>> >> >>>> >> >
>> >>> >> >>>> >> >
>> >>> >> >>>> >> >
>> (/global/u1/f/fiestas/CACTUS/Cactus/configs/sim/build/LoopControl/loopcontrol.c:
>> >>> >> >>>> >> > 1080)
>> >>> >> >>>> >> > PGC-S-0094-Illegal type conversion required
>> >>> >> >>>> >> >
>> >>> >> >>>> >> >
>> >>> >> >>>> >> >
>> >>> >> >>>> >> >
>> >>> >> >>>> >> >
>> (/global/u1/f/fiestas/CACTUS/Cactus/configs/sim/build/LoopControl/loopcontrol.c:
>> >>> >> >>>> >> > 1080)
>> >>> >> >>>> >> > PGC/x86-64 Linux 9.0-3: compilation completed with severe
>> >>> >> >>>> >> > errors
>> >>> >> >>>> >> > make[3]: *** [loopcontrol.c.o] Error 2
>> >>> >> >>>> >> > make[2]: *** [make.checked] Error 2
>> >>> >> >>>> >> > make[1]: ***
>> >>> >> >>>> >> >
>> >>> >> >>>> >> >
>> >>> >> >>>> >> >
>> >>> >> >>>> >> >
>> >>> >> >>>> >> >
>> [/global/u1/f/fiestas/CACTUS/Cactus/configs/sim/lib/libthorn_LoopControl.a]
>> >>> >> >>>> >> > Error 2
>> >>> >> >>>> >> > make[1]: *** Waiting for unfinished jobs....
>> >>> >> >>>> >> > .....
>> >>> >> >>>> >> > COMPILING
>> >>> >> >>>> >> >
>> >>> >> >>>> >> >
>> >>> >> >>>> >> >
>> >>> >> >>>> >> >
>> >>> >> >>>> >> >
>> /global/u1/f/fiestas/CACTUS/Cactus/arrangements/EinsteinInitialData/IDAxiBrillBH/src/ParamCheck.c
>> >>> >> >>>> >> > Creating
>> >>> >> >>>> >> >
>> >>> >> >>>> >> >
>> >>> >> >>>> >> >
>> >>> >> >>>> >> >
>> >>> >> >>>> >> >
>> /global/u1/f/fiestas/CACTUS/Cactus/configs/sim/lib/libthorn_IDAnalyticBH.a
>> >>> >> >>>> >> > Creating
>> >>> >> >>>> >> >
>> >>> >> >>>> >> >
>> >>> >> >>>> >> >
>> >>> >> >>>> >> >
>> >>> >> >>>> >> >
>> /global/u1/f/fiestas/CACTUS/Cactus/configs/sim/lib/libthorn_IDAxiBrillBH.a
>> >>> >> >>>> >> > Creating
>> >>> >> >>>> >> >
>> >>> >> >>>> >> >
>> >>> >> >>>> >> >
>> >>> >> >>>> >> >
>> >>> >> >>>> >> >
>> /global/u1/f/fiestas/CACTUS/Cactus/configs/sim/lib/libthorn_IDAxiOddBrillBH.a
>> >>> >> >>>> >> > make: *** [sim] Error 2
>> >>> >> >>>> >> >
>> >>> >> >>>> >> > I am trying hopper now. Let see.
>> >>> >> >>>> >>
>> >>> >> >>>> >> Is there a reason why you want to use Carver, or would
>> another
>> >>> >> >>>> >> machine
>> >>> >> >>>> >> be fine as well?
>> >>> >> >>>> >>
>> >>> >> >>>> >> The PGI compilers are often a bit peculiar; I prefer the
>> Intel
>> >>> >> >>>> >> compilers. Let me try to build on Hopper -- this should
>> work
>> >>> >> >>>> >> fine,
>> >>> >> >>>> >> I
>> >>> >> >>>> >> can then help you there.
>> >>> >> >>>> >>
>> >>> >> >>>> >> -erik
>> >>> >> >>>> >>
>> >>> >> >>>> >> --
>> >>> >> >>>> >> Erik Schnetter <schnetter at cct.lsu.edu>
>> >>> >> >>>> >> http://www.perimeterinstitute.ca/personal/eschnetter/
>> >>> >> >>>> >
>> >>> >> >>>> >
>> >>> >> >>>>
>> >>> >> >>>>
>> >>> >> >>>>
>> >>> >> >>>> --
>> >>> >> >>>> Erik Schnetter <schnetter at cct.lsu.edu>
>> >>> >> >>>> http://www.perimeterinstitute.ca/personal/eschnetter/
>> >>> >> >>>
>> >>> >> >>>
>> >>> >> >>
>> >>> >> >
>> >>> >> >
>> >>> >> >
>> >>> >> > --
>> >>> >> > Erik Schnetter <schnetter at cct.lsu.edu>
>> >>> >> > http://www.perimeterinstitute.ca/personal/eschnetter/
>> >>> >>
>> >>> >>
>> >>> >>
>> >>> >> --
>> >>> >> Erik Schnetter <schnetter at cct.lsu.edu>
>> >>> >> http://www.perimeterinstitute.ca/personal/eschnetter/
>> >>> >
>> >>> >
>> >>>
>> >>>
>> >>>
>> >>> --
>> >>> Erik Schnetter <schnetter at cct.lsu.edu>
>> >>> http://www.perimeterinstitute.ca/personal/eschnetter/
>> >>
>> >>
>> >
>>
>>
>>
>> --
>> Erik Schnetter <schnetter at cct.lsu.edu>
>> http://www.perimeterinstitute.ca/personal/eschnetter/
>>
>
>
-------------- next part --------------
An HTML attachment was scrubbed...
URL: http://lists.einsteintoolkit.org/pipermail/users/attachments/20120307/197b2448/attachment-0001.html 