<div dir="ltr">Dear Lana,<div><br></div><div>Thanks for your email. I tried that before but it didn't work actually. Considering that I am using personal Condor, situation might be a little different with you guys using cluster computers. But I finally figured it out last night by fixing the database path problem and made all done now. Thank you again for your response again!</div><div><br></div><div>Warm regards,</div></div><br><div class="gmail_quote"><div dir="ltr" class="gmail_attr">On Wed, Apr 1, 2020 at 7:30 PM Lana Beck <<a href="mailto:lana.beck@bristol.ac.uk">lana.beck@bristol.ac.uk</a>> wrote:<br></div><blockquote class="gmail_quote" style="margin:0px 0px 0px 0.8ex;border-left:1px solid rgb(204,204,204);padding-left:1ex">
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Dear Xinjie,</div>
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Here is an example of my condor script. It is tailored to our computing system so I'm not saying this is exactly what you should do. Perhaps you need the '<span style="font-family:Calibri,Arial,Helvetica,sans-serif;background-color:rgb(255,255,255);display:inline">transfer_input_files'
line to transfer the required file to your worker node? You can also see that I transfer a .placements file for placing geometrical objects and another file which has a script which transfers the created root files to the hadoop file system for storage when
the job finishes.</span></div>
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Best wishes,<br>
Lana</div>
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<span></span><span>universe = vanilla<br>
</span>
<div>getenv = true<br>
</div>
<div>Executable = /software/lbk/gate/GateInstall/bin/Gate<br>
</div>
<div>transfer_input_files = transfers/transfer_script_SmallExample, GateMaterials.db, Materials.xml, data/peaks.placements<br>
</div>
<div>request_cpus = 1<br>
</div>
<div>request_memory = 120<br>
</div>
<div>when_to_transfer_output = on_exit_or_evict<br>
</div>
<div>requirements=(OpSysAndVer == "SL6")<br>
</div>
<div>+PostCmd = "transfer_script_SmallExample"<br>
</div>
<div><br>
</div>
<div><br>
</div>
<div>Arguments = /users/lbk/Radiotherapy/gateSplitDir/.Gate//SmallExample1//SmallExample1.mac<br>
</div>
<div>Output = /storage/lbk/SmallExample/SmallExample1.out<br>
</div>
<div>Error = /storage/lbk/SmallExample/SmallExample1.err<br>
</div>
<div>Log = /storage/lbk/SmallExample/SmallExample1.log<br>
</div>
<span>Queue</span><span></span><br>
</div>
<div>
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<a href="http://lists.opengatecollaboration.org/mailman/listinfo/gate-users" rel="noreferrer" target="_blank">http://lists.opengatecollaboration.org/mailman/listinfo/gate-users</a></blockquote></div><br clear="all"><div><br></div>-- <br><div dir="ltr" class="gmail_signature"><div dir="ltr"><div><div dir="ltr"><div><div dir="ltr"><div><div dir="ltr"><div><div dir="ltr"><div><div dir="ltr"><div dir="ltr"><div dir="ltr"><div dir="ltr"><div dir="ltr"><div><b><font color="#000000">....................................................</font></b><br></div><div><b><span style="color:rgb(153,0,0);font-family:"arial black",sans-serif;font-size:x-small">Xinjie Cao</span></b><br></div><div><b><font size="1" face="arial black, sans-serif">M.E. / Ph.D. student</font></b></div><div><b><font size="1" face="arial black, sans-serif">Research Project Assistant</font></b></div><div><b><font size="1" face="arial black, sans-serif">Department of Electrical and Computer Engineering & Radiology </font></b></div><div><b><font size="1" face="arial black, sans-serif">Novel Medical Imaging Technologies Lab</font></b></div><div><b><font size="1" face="arial black, sans-serif">Health Science Center Level 8</font></b></div><div><b><font size="1" face="arial black, sans-serif">Stony Brook, NY 11794-8460 </font></b></div><div><b><font size="1" face="arial black, sans-serif">Tel: +1 (631)202-9445</font></b></div><div><a href="https://you.stonybrook.edu/goldan/people/" target="_blank">you.stonybrook.edu/goldan/people/</a><b><font size="1" face="arial black, sans-serif"><br></font></b></div><div><font size="1" face="arial black, sans-serif"><b>email: </b><a href="mailto:xinjie.cao@stonybrook.edu" target="_blank"><b>xinjie.cao@stonybroo</b>k.edu</a></font></div><div><font size="1" face="arial black, sans-serif"><br></font></div><div><font size="1" face="arial black, sans-serif"> </font><img src="https://docs.google.com/uc?export=download&id=12iMPAuaMtpKRdkcmBleVsP6iWiM4wlm_&revid=0B_TLWOu4jP1eWnFFRW9qQXlicTY3ZTVzWnR5QkRVY3RRT3JVPQ" width="200" height="28"> <img src="https://drive.google.com/a/stonybrook.edu/uc?id=17TB1Ha3enD8HC5e_Ez238vpeBF92aCgH&export=download" width="200" height="33"></div><div><div><b><font color="#000000">....................................................</font></b></div><div>It is prohibited to distribute or publish the files attached to any other people unless you get permission from the writer himself. All rights reserved.</div></div></div></div></div></div></div></div></div></div></div></div></div></div></div></div></div></div>