[Swift-user] Re: [beagle-users] [SWIFT on Beagle]Cannot Execute Correctly After Submitting Job

[Weiyang Wang]

OK, I've "make clean" them and  ow I switched to PrgEnv-cray, and going to
use ftn to compile some .for files, although they are currently not
recognizable by ftn. I want them to be compiled as F90 files (maybe I have
to rename them first? )

Could you kindly check out what's going on here within the makefile?


======= the first several lines====
OBJDIR = objCSMINPUT
FC     = ftn
FFLAGS = -O 3 -g
INC    = -I.
MKDIR  = mkdir -p
DIRS   = ../Common ../Input
RM     = rm -rf
===========================

===somewhere it starts compiling===

# Create a list of all source files including folder name
FSRC   = $(foreach dir,$(DIRS),$(wildcard $(dir)/*.for))

## Create the list of all object files
TOBJ   = $(foreach dir, $(DIRS), $(subst .for,.o,$(notdir $(wildcard
$(dir)/*.for))))

# Create the path to store the object files
FOBJ   = $(foreach obj,$(TOBJ),$(OBJDIR)/$(obj))

# Define the subfolders to look for source files
vpath %.for ../Common ../Input

$(OBJDIR)/%.o $(OBJDIR)/%.mod: %.for | $(OBJDIR)
        $(FC) $(FFLAGS) $(INC) -o $@ -c $<

../MINPT040.EXE : $(FOBJ)
        $(FC) $^ -o $@


============================




On Wed, Apr 27, 2011 at 2:43 AM, Ketan Maheshwari <ketan at mcs.anl.gov> wrote:

> Hello,
>
> This indicates that the executable is not running on beagle compute nodes.
> Could you kindly send the commandline and the path to your exe, data etc,
> and I can try to do some testing using aprun and qsub.
>
> Ketan
>
>
> On Apr 26, 2011, at 1:26 PM, Weiyang Wang wrote:
>
> In fact I switched to PrgEnv-gnu to compile it again on Beagle, and it
> works if I run it plainly on login.beagle
>
> On Tue, Apr 26, 2011 at 10:53 PM, Ti Leggett <leggett at ci.uchicago.edu>wrote:
>
>> -----BEGIN PGP SIGNED MESSAGE-----
>> Hash: SHA1
>>
>> Was the code you're trying to run compiled on Beagle. IT looks to me like
>> it was compiled on PADS. You must recompile your code on Beagle using the
>> Cray compiler wrappers. Please refer to the Beagle FAQ on how to do this:
>>
>> http://www.ci.uchicago.edu/wiki/bin/view/Beagle/DevelopOnBeagle
>>
>> On Apr 26, 2011, at 9:34 AM, Weiyang Wang wrote:
>>
>> > Hello,
>> >
>> > I've meet problems when submitting jobs using Swift.
>> >
>> > My Command Line is like:
>> >
>> > swift -sites.file ./mysites.xml  -tc.file ./tc.data largescale.swift
>> >
>> > My mysites.xml is like
>> > <config>
>> > <pool handle="pbs">
>> >     <execution provider="pbs" url="none" jobManager="local:pbs"/>
>> >     <profile namespace="globus" key="maxwalltime">0:20:00</profile>
>> >     <profile namespace="globus" key="workersPerNode">8</profile>
>> >     <profile namespace="globus" key="ppn">8</profile>
>> >     <!-- <profile namespace="globus"
>> key="internalHostname">172.5.86.6</profile>-->
>> >     <profile namespace="globus" key="nodeGranularity">1</profile>
>> >     <profile namespace="globus" key="maxNodes">5</profile>
>> >     <profile namespace="karajan" key="jobThrottle">1.99</profile>
>> >     <profile namespace="karajan" key="initialScore">10000</profile>
>> >     <profile namespace="globus" key="project">CI-SES000031</profile>
>> >     <!--gridftp  url="local://localhost" />-->
>> >     <filesystem provider="local"/>
>> >     <!--scratch>/home/frankwang/tmp</scratch>-->
>> >
>> <workdirectory>/gpfs/pads/projects/CI-SES000031/csm/tempswiftwork</workdirectory>
>> > </pool>
>> > </config>
>> >
>> > My tc.data is like,
>> > pbs             echo    /bin/echo       INSTALLED       INTEL32::LINUX
>>  null
>> > pbs             sh      /bin/bash       INSTALLED       INTEL32::LINUX
>>  null
>> >
>> >
>> > In my swift script I'm running some gfortran compiled programs(I wrap my
>> fortran programs in sh files), and in my error log file, it shows that
>> >
>> > /gpfs/pads/projects/CI-SES000031/csm/DSSAT040.EXE: error while loading
>> shared libraries: libgfortran.so.3: cannot open shared object file: No such
>> file or directory
>> >
>> > I didn't meet the same problem when I run these on PADS, and after I
>> swap the module to PrgEnv-gnu when logging onto Beagle I can also run this
>> DSSAT040.EXE.
>> > My guess is,  I submit the jobs to a Non-GNU Environment in Beagle.
>> >
>> > How can I correct this?
>> >
>> > Thank you.
>> >
>> > Weiyang
>> > _______________________________________________
>> > beagle-users mailing list
>> > beagle-users at ci.uchicago.edu
>> > http://mail.ci.uchicago.edu/mailman/listinfo/beagle-users
>>
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>> H5MAnjS/VbEaH7vWSJFcSK+2hs1VHo4d
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>
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>
>
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