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<div class="moz-cite-prefix">Hi Pavan,<br>
<br>
I think it is probably because the R script in your R actor
has some problems. If you want to make sure R is working with
Kepler, you can try demo workflows at
~/KeplerData/workflows/module/r-2.3.0/demos/R/, such as
R_3D_Plot.xml. If you can run the demo workflows, it means R is
working and your own R script has problems. Then you can try run R
scripts directly in R and check its error.<br>
<br>
P.S.: please send your future questions directly to
<a class="moz-txt-link-abbreviated" href="mailto:kepler-users@kepler-project.org">kepler-users@kepler-project.org</a>, where you will get more prompt
and comprehensive help.<br>
<pre class="moz-signature" cols="72">Best wishes
Sincerely yours
Jianwu Wang, Ph.D.
<a class="moz-txt-link-abbreviated" href="mailto:jianwu@sdsc.edu">jianwu@sdsc.edu</a>
<a class="moz-txt-link-freetext" href="http://users.sdsc.edu/~jianwu/">http://users.sdsc.edu/~jianwu/</a>
Assistant Project Scientist
Scientific Workflow Automation Technologies (SWAT) Laboratory
San Diego Supercomputer Center
University of California, San Diego
San Diego, CA, U.S.A. </pre>
On 9/17/12 12:23 AM, Pavan Kumar wrote:<br>
</div>
<blockquote
cite="mid:CANTRMvDQb0aQR1pNEAWjG5jm4NpOMuamgXC7-aQX2wjFin7-hw@mail.gmail.com"
type="cite">
<div>Dear Jianwu,</div>
<div><br>
</div>
<div>Thanks for the prompt reply.</div>
<div>I am able to use Kepler and can create a workflows.</div>
<div>But for some workflows, I am getting the following
error repeatedly.</div>
<div>
<br>
</div>
<i>ptolemy.kernel.util.IllegalActionException: R returned with
value 1, likely caused by an error while executing the script</i>.
<div><br>
</div>
<div>I am sure R is properly installed and its path is also
properly set.</div>
<div>Is there any problem in R script. Please help me in this
issue.</div>
<div>Thanks in advance. Hope you will get back to me ASAP.</div>
<div><br>
</div>
<div><br>
<div class="gmail_quote">On Fri, Sep 14, 2012 at 4:00 AM, Jianwu
Wang <span dir="ltr"><<a moz-do-not-send="true"
href="mailto:jianwu@sdsc.edu" target="_blank">jianwu@sdsc.edu</a>></span>
wrote:<br>
<blockquote class="gmail_quote" style="margin:0 0 0
.8ex;border-left:1px #ccc solid;padding-left:1ex">
<div bgcolor="#FFFFFF" text="#000000">
<div>Hi Pavan,<br>
<br>
Please check Kepler user manual (Section 7.3 Job
Submission), which has detailed information about it.
User manual can be found at <a moz-do-not-send="true"
href="https://kepler-project.org/users/documentation"
target="_blank">https://kepler-project.org/users/documentation</a>.
<div class="im"><br>
<pre cols="72">Best wishes
Sincerely yours
Jianwu Wang, Ph.D.
<a moz-do-not-send="true" href="mailto:jianwu@sdsc.edu" target="_blank">jianwu@sdsc.edu</a>
<a moz-do-not-send="true" href="http://users.sdsc.edu/%7Ejianwu/" target="_blank">http://users.sdsc.edu/~jianwu/</a>
Assistant Project Scientist
Scientific Workflow Automation Technologies (SWAT) Laboratory
San Diego Supercomputer Center
University of California, San Diego
San Diego, CA, U.S.A. </pre>
</div>
<div>
<div class="h5"> On 9/13/12 3:10 AM, Pavan Kumar
wrote:<br>
</div>
</div>
</div>
<div>
<div class="h5">
<blockquote type="cite"><br>
Dear Jianwu,
<div><br>
</div>
<div>I have installed Kepler on cluster.</div>
<div>So I want to submit a workflow through
PBS(Torque). Could you please let me know how can
i achieve this.</div>
<div><br>
</div>
<div><br>
</div>
<div><br>
</div>
<div> </div>
<div><br>
<div class="gmail_quote">On Tue, Sep 11, 2012 at
10:29 PM, Jianwu Wang <span dir="ltr"><<a
moz-do-not-send="true"
href="mailto:jianwu@sdsc.edu"
target="_blank">jianwu@sdsc.edu</a>></span>
wrote:<br>
<blockquote class="gmail_quote" style="margin:0
0 0 .8ex;border-left:1px #ccc
solid;padding-left:1ex"> Hi Pavan,<br>
<br>
The simplest way to add tools in Kepler is
configuring 'External Execution' actor based
on your tools. Connecting the tools are the
same with connecting any other actors in
Kepler.<br>
<br>
We are currently working on a more
advanced third-party tool addition and
parallelization at BioKepler project (<a
moz-do-not-send="true"
href="http://www.biokepler.org"
target="_blank">www.biokepler.org</a>). The
target of the project is to integrate popular
existing bioinformatics tools and simplify
users' own tool. We are still developing the
bioKepler modules on top of Kepler to support
it. You are welcome to check the website to
follow our progress.<br>
<br>
Best wishes<br>
<br>
Sincerely yours<br>
<br>
Jianwu Wang, Ph.D.<br>
<a moz-do-not-send="true"
href="mailto:jianwu@sdsc.edu"
target="_blank">jianwu@sdsc.edu</a><br>
<a moz-do-not-send="true"
href="http://users.sdsc.edu/%7Ejianwu/"
target="_blank">http://users.sdsc.edu/~jianwu/</a><br>
<br>
Assistant Project Scientist<br>
Scientific Workflow Automation Technologies
(SWAT) Laboratory<br>
San Diego Supercomputer Center<br>
University of California, San Diego<br>
San Diego, CA, U.S.A.
<div>
<div><br>
<br>
On 9/11/12 12:07 AM, Pavan Kumar wrote:<br>
<blockquote class="gmail_quote"
style="margin:0 0 0 .8ex;border-left:1px
#ccc solid;padding-left:1ex"> Dear Sir,<br>
<br>
I am very new to Kepler. I have just
installed Kepler on my Virtual Machine.<br>
I wanted to create my own workflow for
NGS data analysis. Let me be clear,
before creating a workflow, I have to
integrarte tools in Kepler. Is that a
right way.<br>
If so, Please let me know the steps in
adding my own tools in Kepler and how to
connect the toos inorder to create a
workflow.<br>
Thanks in advance.<br>
Hope you will get back to me ASAP.<br>
<br>
<br>
<br>
-- <br>
Thanks & Regards,<br>
Pavan Kumar<br>
Project Engineer<br>
CDAC -KP<br>
Ph <a moz-do-not-send="true"
href="tel:%2B91-7676367646"
value="+917676367646" target="_blank">+91-7676367646</a><br>
</blockquote>
<br>
</div>
</div>
</blockquote>
</div>
<br>
<br clear="all">
<div><br>
</div>
-- <br>
Thanks & Regards,<br>
Pavan Kumar<br>
Project Engineer<br>
CDAC -KP<br>
Ph <a moz-do-not-send="true"
href="tel:%2B91-7676367646"
value="+917676367646" target="_blank">+91-7676367646</a><br>
</div>
</blockquote>
<br>
</div>
</div>
</div>
</blockquote>
</div>
<br>
<br clear="all">
<div><br>
</div>
-- <br>
Thanks & Regards,<br>
Pavan Kumar<br>
Project Engineer<br>
CDAC -KP<br>
Ph +91-7676367646<br>
</div>
</blockquote>
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