[Swift-user] trying coasters and sites1.xml

[Hodgess, Erin]

Dear Swift People:

I have a process, fun1.swift, which works just fine, as you can see:

[erin at tp-login2 bin]$ swift -tc.file tc.data fun1.swift
Swift svn swift-r2950 cog-r2406

RunID: 20090606-1836-j7rc2402
Progress:
Progress:  Selecting site:8  Active:1  Checking status:1
Progress:  Selecting site:6  Active:1  Checking status:1  Finished successfully:2
Progress:  Selecting site:4  Active:1  Checking status:1  Finished successfully:4
Progress:  Selecting site:2  Active:1  Checking status:1  Finished successfully:6
Progress:  Active:1  Checking status:1  Finished successfully:8
Final status:  Finished successfully:10
[erin at tp-login2 bin]$ 


However, if I run with a sites file, I get:

[erin at tp-login2 bin]$ swift -tc.file tc.data -sites.file sites1.xml fun1.swift
Swift svn swift-r2950 cog-r2406

RunID: 20090606-1837-xu7t94t5
Progress:
Execution failed:
	Could not find any valid host for task "Task(type=UNKNOWN, identity=urn:cog-1244331435263)" with constraints {tr=RInvoke, filenames=[Ljava.lang.String;@4b6218f9, trfqn=RInvoke, filecache=org.griphyn.vdl.karajan.lib.cache.CacheMapAdapter at 1555aa19}
[erin at tp-login2 bin]$ 


here is the sites1 file:

[erin at tp-login2 bin]$ cat sites1.xml
<config>

<pool handle="teraport" sysinfo="INTEL32::LINUX">
   <profile namespace="globus" key="queue">fast</profile>
   <profile namespace="globus"
key="coasterWorkerMaxwalltime">00:30:00</profile>
    <profile namespace="globus" key="coastersPerNode">2</profile>
   <execution provider="coaster" url="none"  jobmanager="local:pbs" />
   <gridftp url="local://localhost" />
   <workdirectory >/home/erin/R-2.9.0/bin</workdirectory>
 </pool>

[erin at tp-login2 bin]$ 

Now there is one other thing.  The fun1.swift calls a program called R, which is not on all of the sites.  Could that be the problem, please?

Here is the fun1.swift file:
[erin at tp-login2 bin]$ cat fun1.swift
type file{}

(file rout) perm_r (file datfile, int pnum, file scriptname)
        {
        app
                {
                RInvoke @filename(scriptname) pnum @filename(datfile) ;
                }
        }


file r_script<single_file_mapper; file="ttest1.R">;

file perm_matrix<single_file_mapper; file="fun.dat">;

foreach i in [1:10]
        {
        file r_out <single_file_mapper; file=@strcat("results/",i,".NG-S.out")>;
        (r_out) = perm_r(perm_matrix, i, r_script);
        }
[erin at tp-login2 bin]$ 


All of this stuff is in /home/erin/R-2.9.0/bin directory.

Thanks and keep warm!

Erin


Erin M. Hodgess, PhD
Associate Professor
Department of Computer and Mathematical Sciences
University of Houston - Downtown
mailto: hodgesse at uhd.edu

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