<div dir="ltr"><br><div class="gmail_extra"><br><br><div class="gmail_quote">On Mon, Mar 3, 2014 at 9:19 PM, Shu CHEN <span dir="ltr"><<a href="mailto:szc0049@tigermail.auburn.edu" target="_blank">szc0049@tigermail.auburn.edu</a>></span> wrote:<br>
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<p>Thanks for your help. I'm following this protocol<br>
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<p><a href="http://ged.msu.edu/angus/diginorm-2012/tutorial.html" target="_blank">http://ged.msu.edu/angus/diginorm-2012/tutorial.html</a></p></div></div></blockquote>You are welcome. This tutorial is no longer maintained. My apologies as I thought I had added a notice.<br>
<br>You may find the updated installation instructions useful: <a href="https://khmer.readthedocs.org/en/latest/install.html">https://khmer.readthedocs.org/en/latest/install.html</a><br><div> </div><blockquote class="gmail_quote" style="margin:0px 0px 0px 0.8ex;border-left-width:1px;border-left-color:rgb(204,204,204);border-left-style:solid;padding-left:1ex">
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<div dir="ltr"><font face="Calibri, sans-serif" color="#000000" style="font-size:11pt"><b>发件人:</b> Michael R. Crusoe <<a href="mailto:mcrusoe@msu.edu" target="_blank">mcrusoe@msu.edu</a>><br>
<b>发送时间:</b> 2014年3月3日 23:09<br>
<b>收件人:</b> Shu CHEN<br>
<b>抄送:</b> <a href="mailto:khmer@lists.idyll.org" target="_blank">khmer@lists.idyll.org</a>; Leigh Sheneman<br>
<b>主题:</b> Re: Khmer troubleshooting</font>
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<div dir="ltr">Hello,
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<div>Which tutorial are you using?</div>
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<div>If you are following the khmer-protocols then place to ask for help is <a href="https://github.com/ged-lab/khmer-protocols/issues?state=open" target="_blank">
https://github.com/ged-lab/khmer-protocols/issues?state=open</a></div>
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<div class="gmail_quote">On Mon, Mar 3, 2014 at 3:31 PM, Shu CHEN <span dir="ltr">
<<a href="mailto:szc0049@tigermail.auburn.edu" target="_blank">szc0049@tigermail.auburn.edu</a>></span> wrote:<br>
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<p>Hi<span style="font-size:12pt">, </span></p>
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<p>I followed your tutorial of using Khmer in the amzon EC2. After I ran the 'make test', it gave me a error feed back as:<br>
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<p>tests.test_scripts.test_normalize_by_median_version ... ERROR<br>
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======================================================================<br>
ERROR: tests.test_scripts.test_normalize_by_median_version<br>
----------------------------------------------------------------------<br>
Traceback (most recent call last):<br>
File "/usr/lib/pymodules/python2.7/nose/case.py", line 187, in runTest<br>
self.test(*self.arg)<br>
File "/home/ubuntu/khmer/tests/test_scripts.py", line 392, in test_normalize_by_median_version<br>
status, out, err = popenscript(script, args)<br>
File "/home/ubuntu/khmer/tests/test_scripts.py", line 135, in popenscript<br>
raise Exception(status, out, err)<br>
Exception: (1, '', 'Traceback (most recent call last):\n File "/home/ubuntu/khmer/scripts/normalize-by-median.py", line 19, in <module>\n import khmer\nImportError: No module named khmer\n')<br>
-------------------- >> begin captured stdout << ---------------------<br>
running: /home/ubuntu/khmer/scripts/normalize-by-median.py in: None<br>
arguments ['--version']<br>
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<p>Can you help me fix this issue?<br>
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<p>Shu Chen</p>
<p>Ph.D. Student</p>
<p>Department of Agronomy and Soils</p>
<p>RM 165, Funchess Hall </p><span class=""><font color="#888888">
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-- <br>
<div dir="ltr"><span style="font-family:'courier new',monospace;font-size:small">Michael R. Crusoe: Programmer & Bioinformatician </span><a href="mailto:mcrusoe@msu.edu" style="color:rgb(17,85,204);font-family:'courier new',monospace;font-size:small" target="_blank">mcrusoe@msu.edu</a><br style="font-family:'courier new',monospace;font-size:small">
<span style="font-family:'courier new',monospace;font-size:small"> @ the Genomics, Evolution, and Development lab; Michigan State U</span><br style="font-family:'courier new',monospace;font-size:small">
<a href="http://ged.msu.edu/" style="color:rgb(17,85,204);font-family:'courier new',monospace;font-size:small" target="_blank">http://ged.msu.edu/</a><span style="font-family:'courier new',monospace;font-size:small"> </span><a href="http://orcid.org/0000-0002-2961-9670" style="color:rgb(17,85,204);font-family:'courier new',monospace;font-size:small" target="_blank">http://orcid.org/0000-0002-2961-9670</a><span style="font-family:'courier new',monospace;font-size:small"> </span><a href="http://twitter.com/biocrusoe" style="color:rgb(17,85,204);font-family:'courier new',monospace;font-size:small" target="_blank">@biocrusoe</a><br>
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</blockquote></div><br><br clear="all"><div><br></div>-- <br><div dir="ltr"><span style="font-family:'courier new',monospace;font-size:small">Michael R. Crusoe: Programmer & Bioinformatician </span><a href="mailto:mcrusoe@msu.edu" style="color:rgb(17,85,204);font-family:'courier new',monospace;font-size:small" target="_blank">mcrusoe@msu.edu</a><br style="font-family:'courier new',monospace;font-size:small">
<span style="font-family:'courier new',monospace;font-size:small"> @ the Genomics, Evolution, and Development lab; Michigan State U</span><br style="font-family:'courier new',monospace;font-size:small"><a href="http://ged.msu.edu/" style="color:rgb(17,85,204);font-family:'courier new',monospace;font-size:small" target="_blank">http://ged.msu.edu/</a><span style="font-family:'courier new',monospace;font-size:small"> </span><a href="http://orcid.org/0000-0002-2961-9670" style="color:rgb(17,85,204);font-family:'courier new',monospace;font-size:small" target="_blank">http://orcid.org/0000-0002-2961-9670</a><span style="font-family:'courier new',monospace;font-size:small"> </span><a href="http://twitter.com/biocrusoe" style="color:rgb(17,85,204);font-family:'courier new',monospace;font-size:small" target="_blank">@biocrusoe</a><br>
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