<div dir="ltr"><div class="gmail-linestyle1 gmail-colourline" style="font-family:consolas,'lucida console',monospace;padding-left:7px;word-wrap:break-word;color:rgb(0,0,0);font-size:12.8px">Hi, </div><div class="gmail-linestyle1 gmail-colourline" style="font-family:consolas,'lucida console',monospace;padding-left:7px;word-wrap:break-word;color:rgb(0,0,0);font-size:12.8px"><br></div><div class="gmail-linestyle1 gmail-colourline" style="font-family:consolas,'lucida console',monospace;padding-left:7px;word-wrap:break-word;color:rgb(0,0,0);font-size:12.8px">I am new to arvados and trying to run my cwl workflow using it. I have setup my VM and have the directory structure setup like the one I had at my local machine.</div><div class="gmail-linestyle2 gmail-colourline" style="font-family:consolas,'lucida console',monospace;padding-left:7px;word-wrap:break-word;color:rgb(0,0,0);font-size:12.8px">I am getting an error: Field `run` contains undefined reference to `file:///data-sdc/home/skanw al/keep2/home/New%20collection/BWA-mem.cwl`</div><div class="gmail-linestyle1 gmail-colourline" style="font-family:consolas,'lucida console',monospace;padding-left:7px;word-wrap:break-word;color:rgb(0,0,0);font-size:12.8px">I think that is something to do with referencing files using/in keep. Can someone help me with that? More specifically how can I run my cwl workflow on arvados? What requirements do I need to fulfil before trying that?</div><div class="gmail-linestyle1 gmail-colourline" style="font-family:consolas,'lucida console',monospace;padding-left:7px;word-wrap:break-word;color:rgb(0,0,0);font-size:12.8px">Thanks.</div><div class="gmail-linestyle1 gmail-colourline" style="font-family:consolas,'lucida console',monospace;padding-left:7px;word-wrap:break-word;color:rgb(0,0,0);font-size:12.8px"><br></div><div class="gmail-linestyle1 gmail-colourline" style="font-family:consolas,'lucida console',monospace;padding-left:7px;word-wrap:break-word;color:rgb(0,0,0);font-size:12.8px"><br></div><div><div class="gmail_signature"><div dir="ltr"><div><span style="font-family:verdana,sans-serif">Kind Regards,</span></div><div><span style="font-family:verdana,sans-serif">Sehrish Kanwal<br></span></div><span style="font-family:verdana,sans-serif">
</span><div><span style="font-family:verdana,sans-serif">PhD Research Scholar<br></span></div><div><span style="font-family:verdana,sans-serif">Computing and Information Systems, Melbourne School of Engineering<br></span></div><div><span style="font-family:verdana,sans-serif">The University of Melbourne</span></div>




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